Multiple sequence alignment - TraesCS2A01G399100

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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 TraesCS2A01G399100 chr2A 100.000 3132 0 0 1 3132 652333314 652330183 0.000000e+00 5784.0
1 TraesCS2A01G399100 chr2A 100.000 1196 0 0 3440 4635 652329875 652328680 0.000000e+00 2209.0
2 TraesCS2A01G399100 chr2B 96.576 2015 58 2 1118 3132 596651823 596649820 0.000000e+00 3328.0
3 TraesCS2A01G399100 chr2B 87.299 1118 51 26 1 1046 596652953 596651855 0.000000e+00 1194.0
4 TraesCS2A01G399100 chr2B 91.956 634 19 15 4032 4635 596649323 596648692 0.000000e+00 859.0
5 TraesCS2A01G399100 chr2B 86.992 369 24 2 3443 3811 596649824 596649480 1.210000e-105 394.0
6 TraesCS2A01G399100 chr2B 94.505 91 4 1 3809 3899 572308053 572307964 6.250000e-29 139.0
7 TraesCS2A01G399100 chr2D 96.833 1989 55 6 1149 3132 507827464 507825479 0.000000e+00 3317.0
8 TraesCS2A01G399100 chr2D 92.063 1071 58 9 1 1046 507828587 507827519 0.000000e+00 1482.0
9 TraesCS2A01G399100 chr2D 90.557 646 17 18 4032 4635 507825002 507824359 0.000000e+00 815.0
10 TraesCS2A01G399100 chr2D 94.038 369 20 1 3443 3811 507825483 507825117 4.050000e-155 558.0
11 TraesCS2A01G399100 chr2D 94.681 94 5 0 3810 3903 548274245 548274152 3.740000e-31 147.0
12 TraesCS2A01G399100 chr2D 81.897 116 15 2 3901 4010 507825118 507825003 4.940000e-15 93.5
13 TraesCS2A01G399100 chr6D 82.689 647 104 7 1203 1845 338933006 338933648 6.730000e-158 568.0
14 TraesCS2A01G399100 chr6D 81.928 581 98 7 2482 3057 338934200 338934778 6.970000e-133 484.0
15 TraesCS2A01G399100 chr6D 80.630 413 66 11 1987 2392 338933801 338934206 1.620000e-79 307.0
16 TraesCS2A01G399100 chr6A 82.636 645 108 4 1203 1845 479635715 479636357 6.730000e-158 568.0
17 TraesCS2A01G399100 chr6A 82.474 582 93 7 2482 3057 479636907 479637485 6.920000e-138 501.0
18 TraesCS2A01G399100 chr6A 80.825 412 67 11 1987 2392 479636508 479636913 3.480000e-81 313.0
19 TraesCS2A01G399100 chr6A 91.089 101 9 0 3810 3910 617249286 617249186 2.250000e-28 137.0
20 TraesCS2A01G399100 chr6B 81.959 582 97 8 2481 3057 481396588 481396010 1.940000e-133 486.0
21 TraesCS2A01G399100 chr6B 81.995 411 64 10 1987 2392 481396987 481396582 1.600000e-89 340.0
22 TraesCS2A01G399100 chr5A 78.777 556 106 11 1226 1775 683233550 683233001 3.410000e-96 363.0
23 TraesCS2A01G399100 chr5A 74.787 587 122 20 2486 3056 683232307 683231731 1.670000e-59 241.0
24 TraesCS2A01G399100 chr4B 74.660 588 121 22 2486 3056 644827051 644826475 7.750000e-58 235.0
25 TraesCS2A01G399100 chr4B 91.919 99 8 0 3806 3904 23834144 23834046 6.250000e-29 139.0
26 TraesCS2A01G399100 chr4D 73.935 587 127 20 2486 3056 500850557 500849981 3.630000e-51 213.0
27 TraesCS2A01G399100 chr4D 82.540 189 32 1 2868 3056 500887078 500886891 1.030000e-36 165.0
28 TraesCS2A01G399100 chr1B 93.069 101 5 2 3813 3912 150541593 150541494 3.740000e-31 147.0
29 TraesCS2A01G399100 chr1B 95.506 89 4 0 3805 3893 879180 879268 4.830000e-30 143.0
30 TraesCS2A01G399100 chr1A 96.512 86 3 0 3812 3897 488101069 488101154 4.830000e-30 143.0
31 TraesCS2A01G399100 chr1A 91.089 101 8 1 3804 3903 49249645 49249745 8.090000e-28 135.0
32 TraesCS2A01G399100 chr7D 91.919 99 8 0 3806 3904 34754163 34754065 6.250000e-29 139.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2A01G399100 chr2A 652328680 652333314 4634 True 3996.500000 5784 100.000000 1 4635 2 chr2A.!!$R1 4634
1 TraesCS2A01G399100 chr2B 596648692 596652953 4261 True 1443.750000 3328 90.705750 1 4635 4 chr2B.!!$R2 4634
2 TraesCS2A01G399100 chr2D 507824359 507828587 4228 True 1253.100000 3317 91.077600 1 4635 5 chr2D.!!$R2 4634
3 TraesCS2A01G399100 chr6D 338933006 338934778 1772 False 453.000000 568 81.749000 1203 3057 3 chr6D.!!$F1 1854
4 TraesCS2A01G399100 chr6A 479635715 479637485 1770 False 460.666667 568 81.978333 1203 3057 3 chr6A.!!$F1 1854
5 TraesCS2A01G399100 chr6B 481396010 481396987 977 True 413.000000 486 81.977000 1987 3057 2 chr6B.!!$R1 1070
6 TraesCS2A01G399100 chr5A 683231731 683233550 1819 True 302.000000 363 76.782000 1226 3056 2 chr5A.!!$R1 1830
7 TraesCS2A01G399100 chr4B 644826475 644827051 576 True 235.000000 235 74.660000 2486 3056 1 chr4B.!!$R2 570
8 TraesCS2A01G399100 chr4D 500849981 500850557 576 True 213.000000 213 73.935000 2486 3056 1 chr4D.!!$R1 570

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
739 783 0.102120 CGGAGATGAGCTCACTGGTC 59.898 60.000 20.97 12.92 45.81 4.02 F
1059 1132 0.170561 TCTGCGTAGGCTTCTTCGTC 59.829 55.000 9.11 0.00 40.82 4.20 F
1121 1194 0.917259 CTTCGATCGAGCTCCGTTTG 59.083 55.000 18.54 3.24 39.75 2.93 F
2395 2496 1.134371 GCATGTTCTCTCCCCAGGTAC 60.134 57.143 0.00 0.00 0.00 3.34 F
2444 2549 2.991190 CACAACTTGCCAAATGATCAGC 59.009 45.455 0.09 0.00 0.00 4.26 F
3515 3660 1.803334 TTTTTGGTCGGATCCTGTCG 58.197 50.000 10.75 0.00 0.00 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1846 1923 1.735386 TAGAGTTCTGACCTCCGACG 58.265 55.000 0.00 0.00 0.00 5.12 R
2395 2496 2.727278 TCACTTGCAATGTGTACGTACG 59.273 45.455 20.18 15.01 42.13 3.67 R
3085 3230 2.896685 GGATGGTCACCCAAAATGACAA 59.103 45.455 7.38 0.00 46.89 3.18 R
3444 3589 0.474660 ATAGGAGCCTAGGCCCTTGG 60.475 60.000 34.85 6.89 43.17 3.61 R
3577 3725 0.879090 TCTCGTCTCGCAGCTTAACA 59.121 50.000 0.00 0.00 0.00 2.41 R
4475 4707 1.001641 GGCTCTCAACACCCATGCT 60.002 57.895 0.00 0.00 0.00 3.79 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
86 87 1.371022 CATCCTCTCCATCGTCGCG 60.371 63.158 0.00 0.00 0.00 5.87
131 135 1.261480 ACTGAGGCTGACCAGTACAG 58.739 55.000 5.60 13.70 41.38 2.74
132 136 1.261480 CTGAGGCTGACCAGTACAGT 58.739 55.000 0.00 0.00 39.06 3.55
133 137 2.225041 ACTGAGGCTGACCAGTACAGTA 60.225 50.000 16.88 0.00 41.38 2.74
134 138 2.425312 CTGAGGCTGACCAGTACAGTAG 59.575 54.545 0.00 0.00 39.06 2.57
135 139 2.041216 TGAGGCTGACCAGTACAGTAGA 59.959 50.000 0.00 0.00 39.06 2.59
136 140 2.685897 GAGGCTGACCAGTACAGTAGAG 59.314 54.545 0.00 0.00 39.06 2.43
137 141 1.751924 GGCTGACCAGTACAGTAGAGG 59.248 57.143 0.00 0.00 37.64 3.69
138 142 1.751924 GCTGACCAGTACAGTAGAGGG 59.248 57.143 0.00 0.00 37.64 4.30
140 144 2.755655 CTGACCAGTACAGTAGAGGGTG 59.244 54.545 0.00 0.00 0.00 4.61
141 145 2.377531 TGACCAGTACAGTAGAGGGTGA 59.622 50.000 0.00 0.00 0.00 4.02
142 146 3.181426 TGACCAGTACAGTAGAGGGTGAA 60.181 47.826 0.00 0.00 0.00 3.18
196 208 2.094100 TTGGGCTTGGGATGTTCAAA 57.906 45.000 0.00 0.00 0.00 2.69
253 269 8.574196 ACTTCAATAAACTGTGTAAATGTTGC 57.426 30.769 0.00 0.00 0.00 4.17
296 312 0.666577 AAAGGCGTCGTAGTGCAGTC 60.667 55.000 0.00 0.00 0.00 3.51
633 677 2.582272 GCCATGCCAAATCCTCACA 58.418 52.632 0.00 0.00 0.00 3.58
739 783 0.102120 CGGAGATGAGCTCACTGGTC 59.898 60.000 20.97 12.92 45.81 4.02
741 793 0.814457 GAGATGAGCTCACTGGTCGT 59.186 55.000 20.97 0.00 45.46 4.34
752 804 1.667151 CTGGTCGTTCCGGTGGTTA 59.333 57.895 0.00 0.00 39.52 2.85
796 848 2.893895 ACGCTCATGGCATGCTCG 60.894 61.111 27.23 27.23 41.91 5.03
800 852 1.818363 CTCATGGCATGCTCGCTGT 60.818 57.895 22.56 0.00 0.00 4.40
807 859 2.045634 ATGCTCGCTGTGGCATGT 60.046 55.556 13.75 0.00 45.81 3.21
808 860 1.221566 ATGCTCGCTGTGGCATGTA 59.778 52.632 13.75 0.00 45.81 2.29
809 861 1.091771 ATGCTCGCTGTGGCATGTAC 61.092 55.000 13.75 0.00 45.81 2.90
810 862 2.464459 GCTCGCTGTGGCATGTACC 61.464 63.158 0.00 0.00 38.60 3.34
811 863 2.125713 TCGCTGTGGCATGTACCG 60.126 61.111 0.00 0.00 38.60 4.02
941 1014 0.178990 AAGAACCAAGCTCCACCACC 60.179 55.000 0.00 0.00 0.00 4.61
950 1023 3.633094 CTCCACCACCGCACTCTCG 62.633 68.421 0.00 0.00 0.00 4.04
1047 1120 4.529219 CTGGCGGCCATCTGCGTA 62.529 66.667 24.10 0.00 45.50 4.42
1048 1121 4.529219 TGGCGGCCATCTGCGTAG 62.529 66.667 19.77 0.00 45.50 3.51
1055 1128 0.462759 GCCATCTGCGTAGGCTTCTT 60.463 55.000 9.11 0.00 44.92 2.52
1058 1131 0.818296 ATCTGCGTAGGCTTCTTCGT 59.182 50.000 9.11 0.00 40.82 3.85
1059 1132 0.170561 TCTGCGTAGGCTTCTTCGTC 59.829 55.000 9.11 0.00 40.82 4.20
1065 1138 2.617308 CGTAGGCTTCTTCGTCATCCTA 59.383 50.000 0.00 0.00 0.00 2.94
1091 1164 4.164258 GCCACAAGGTGACTGCTT 57.836 55.556 0.00 0.00 42.68 3.91
1092 1165 3.322514 GCCACAAGGTGACTGCTTA 57.677 52.632 0.00 0.00 42.68 3.09
1093 1166 1.160137 GCCACAAGGTGACTGCTTAG 58.840 55.000 0.00 0.00 42.68 2.18
1094 1167 1.160137 CCACAAGGTGACTGCTTAGC 58.840 55.000 0.00 0.00 42.68 3.09
1095 1168 1.271054 CCACAAGGTGACTGCTTAGCT 60.271 52.381 5.60 0.00 42.68 3.32
1096 1169 2.498167 CACAAGGTGACTGCTTAGCTT 58.502 47.619 5.60 0.00 42.68 3.74
1097 1170 2.880890 CACAAGGTGACTGCTTAGCTTT 59.119 45.455 5.60 0.00 42.68 3.51
1098 1171 3.058639 CACAAGGTGACTGCTTAGCTTTC 60.059 47.826 5.60 2.22 42.68 2.62
1099 1172 3.181450 ACAAGGTGACTGCTTAGCTTTCT 60.181 43.478 5.60 0.00 42.68 2.52
1100 1173 3.326836 AGGTGACTGCTTAGCTTTCTC 57.673 47.619 5.60 2.81 41.13 2.87
1101 1174 2.634940 AGGTGACTGCTTAGCTTTCTCA 59.365 45.455 5.60 0.00 41.13 3.27
1102 1175 2.739379 GGTGACTGCTTAGCTTTCTCAC 59.261 50.000 5.60 10.02 0.00 3.51
1103 1176 3.556004 GGTGACTGCTTAGCTTTCTCACT 60.556 47.826 5.60 0.00 0.00 3.41
1104 1177 4.061596 GTGACTGCTTAGCTTTCTCACTT 58.938 43.478 5.60 0.00 0.00 3.16
1105 1178 4.151512 GTGACTGCTTAGCTTTCTCACTTC 59.848 45.833 5.60 0.00 0.00 3.01
1106 1179 3.321497 ACTGCTTAGCTTTCTCACTTCG 58.679 45.455 5.60 0.00 0.00 3.79
1107 1180 3.005897 ACTGCTTAGCTTTCTCACTTCGA 59.994 43.478 5.60 0.00 0.00 3.71
1108 1181 4.180057 CTGCTTAGCTTTCTCACTTCGAT 58.820 43.478 5.60 0.00 0.00 3.59
1109 1182 4.177026 TGCTTAGCTTTCTCACTTCGATC 58.823 43.478 5.60 0.00 0.00 3.69
1110 1183 3.241784 GCTTAGCTTTCTCACTTCGATCG 59.758 47.826 9.36 9.36 0.00 3.69
1111 1184 4.663166 CTTAGCTTTCTCACTTCGATCGA 58.337 43.478 15.15 15.15 0.00 3.59
1112 1185 3.143807 AGCTTTCTCACTTCGATCGAG 57.856 47.619 18.54 14.40 0.00 4.04
1113 1186 1.586123 GCTTTCTCACTTCGATCGAGC 59.414 52.381 18.54 10.94 0.00 5.03
1114 1187 2.733858 GCTTTCTCACTTCGATCGAGCT 60.734 50.000 18.54 4.31 0.00 4.09
1115 1188 2.834574 TTCTCACTTCGATCGAGCTC 57.165 50.000 18.54 2.73 0.00 4.09
1116 1189 1.018148 TCTCACTTCGATCGAGCTCC 58.982 55.000 18.54 0.00 0.00 4.70
1121 1194 0.917259 CTTCGATCGAGCTCCGTTTG 59.083 55.000 18.54 3.24 39.75 2.93
1148 1221 1.202211 CGTGTCCATCATGCATTGTGG 60.202 52.381 17.35 17.35 0.00 4.17
1156 1229 4.677407 TGCATTGTGGCATTGTGC 57.323 50.000 12.19 12.19 44.08 4.57
1846 1923 2.087646 GTGGCCAAGATCCTCTTCAAC 58.912 52.381 7.24 0.00 33.78 3.18
1872 1949 3.314080 GGAGGTCAGAACTCTATCAGTCG 59.686 52.174 15.39 0.00 32.30 4.18
2395 2496 1.134371 GCATGTTCTCTCCCCAGGTAC 60.134 57.143 0.00 0.00 0.00 3.34
2444 2549 2.991190 CACAACTTGCCAAATGATCAGC 59.009 45.455 0.09 0.00 0.00 4.26
2943 3088 4.742201 CAGGTCGGCAGGGTCGTG 62.742 72.222 0.00 0.00 30.45 4.35
3085 3230 3.322191 TTTTTGCTCCTTTGGGGTACT 57.678 42.857 0.00 0.00 36.25 2.73
3515 3660 1.803334 TTTTTGGTCGGATCCTGTCG 58.197 50.000 10.75 0.00 0.00 4.35
3534 3682 6.317642 CCTGTCGATCTCTCTTTCTCTCTTAA 59.682 42.308 0.00 0.00 0.00 1.85
3535 3683 7.013274 CCTGTCGATCTCTCTTTCTCTCTTAAT 59.987 40.741 0.00 0.00 0.00 1.40
3536 3684 8.966069 TGTCGATCTCTCTTTCTCTCTTAATA 57.034 34.615 0.00 0.00 0.00 0.98
3577 3725 5.962031 TCTGTAACTTGACAGGTATATGGGT 59.038 40.000 3.87 0.00 45.79 4.51
3584 3732 5.031066 TGACAGGTATATGGGTGTTAAGC 57.969 43.478 0.00 0.00 0.00 3.09
3598 3746 1.130749 GTTAAGCTGCGAGACGAGAGA 59.869 52.381 0.00 0.00 0.00 3.10
3603 3751 1.916697 CTGCGAGACGAGAGAGTGCA 61.917 60.000 0.00 0.00 0.00 4.57
3604 3752 1.513160 GCGAGACGAGAGAGTGCAC 60.513 63.158 9.40 9.40 0.00 4.57
3690 3838 5.569059 GCATTTGTAACTGCAGTATGTGAAC 59.431 40.000 22.01 11.81 39.31 3.18
3691 3839 6.568462 GCATTTGTAACTGCAGTATGTGAACT 60.568 38.462 22.01 3.99 39.31 3.01
3692 3840 7.360861 GCATTTGTAACTGCAGTATGTGAACTA 60.361 37.037 22.01 2.86 39.31 2.24
3693 3841 8.668353 CATTTGTAACTGCAGTATGTGAACTAT 58.332 33.333 22.01 2.33 39.31 2.12
3694 3842 7.595311 TTGTAACTGCAGTATGTGAACTATG 57.405 36.000 22.01 0.00 39.31 2.23
3695 3843 6.106003 TGTAACTGCAGTATGTGAACTATGG 58.894 40.000 22.01 0.00 39.31 2.74
3696 3844 4.826274 ACTGCAGTATGTGAACTATGGT 57.174 40.909 20.16 0.00 39.31 3.55
3697 3845 4.759782 ACTGCAGTATGTGAACTATGGTC 58.240 43.478 20.16 0.00 39.31 4.02
3698 3846 4.222810 ACTGCAGTATGTGAACTATGGTCA 59.777 41.667 20.16 0.00 39.31 4.02
3699 3847 4.503910 TGCAGTATGTGAACTATGGTCAC 58.496 43.478 8.62 8.62 39.31 3.67
3700 3848 3.551890 GCAGTATGTGAACTATGGTCACG 59.448 47.826 10.57 0.00 39.31 4.35
3701 3849 4.112634 CAGTATGTGAACTATGGTCACGG 58.887 47.826 10.57 0.00 37.20 4.94
3702 3850 4.021229 AGTATGTGAACTATGGTCACGGA 58.979 43.478 10.57 0.00 37.20 4.69
3703 3851 2.736144 TGTGAACTATGGTCACGGAC 57.264 50.000 10.57 0.00 37.20 4.79
3704 3852 2.244695 TGTGAACTATGGTCACGGACT 58.755 47.619 10.57 0.00 37.20 3.85
3705 3853 3.423749 TGTGAACTATGGTCACGGACTA 58.576 45.455 10.57 0.00 37.20 2.59
3706 3854 3.442625 TGTGAACTATGGTCACGGACTAG 59.557 47.826 10.57 0.00 37.20 2.57
3707 3855 3.693085 GTGAACTATGGTCACGGACTAGA 59.307 47.826 0.00 0.00 32.47 2.43
3708 3856 4.157289 GTGAACTATGGTCACGGACTAGAA 59.843 45.833 0.00 0.00 32.47 2.10
3709 3857 4.954202 TGAACTATGGTCACGGACTAGAAT 59.046 41.667 0.00 0.00 32.47 2.40
3710 3858 5.421056 TGAACTATGGTCACGGACTAGAATT 59.579 40.000 0.00 0.00 32.47 2.17
3744 3913 0.376852 TGCGCGTCATTATTGGAAGC 59.623 50.000 8.43 0.00 36.58 3.86
3788 3957 8.656849 GTTATCAACACGAAATCTGTATTGTCT 58.343 33.333 0.00 0.00 0.00 3.41
3873 4042 7.907214 ACTAAAGTGATGATTTAAACGCTCT 57.093 32.000 0.00 0.00 0.00 4.09
3874 4043 8.324163 ACTAAAGTGATGATTTAAACGCTCTT 57.676 30.769 0.00 0.00 0.00 2.85
3875 4044 9.431887 ACTAAAGTGATGATTTAAACGCTCTTA 57.568 29.630 0.00 0.00 0.00 2.10
3891 4060 8.530269 AACGCTCTTATATTAATTTACGGAGG 57.470 34.615 0.00 0.00 0.00 4.30
3892 4061 7.095270 ACGCTCTTATATTAATTTACGGAGGG 58.905 38.462 18.58 18.58 37.30 4.30
3893 4062 7.039504 ACGCTCTTATATTAATTTACGGAGGGA 60.040 37.037 22.59 0.00 35.94 4.20
3894 4063 7.488471 CGCTCTTATATTAATTTACGGAGGGAG 59.512 40.741 17.02 0.00 34.63 4.30
3895 4064 8.312564 GCTCTTATATTAATTTACGGAGGGAGT 58.687 37.037 0.00 0.00 0.00 3.85
3908 4077 8.593945 TTACGGAGGGAGTACTATTTAAGAAA 57.406 34.615 0.00 0.00 0.00 2.52
3949 4160 5.432885 TTTGCTACTGACTTACTTTTGGC 57.567 39.130 0.00 0.00 0.00 4.52
3955 4166 6.150474 GCTACTGACTTACTTTTGGCCAAATA 59.850 38.462 30.78 18.53 0.00 1.40
3956 4167 6.575162 ACTGACTTACTTTTGGCCAAATAG 57.425 37.500 30.78 27.75 0.00 1.73
3957 4168 5.476945 ACTGACTTACTTTTGGCCAAATAGG 59.523 40.000 30.78 22.11 41.84 2.57
3961 4172 6.316513 ACTTACTTTTGGCCAAATAGGGTTA 58.683 36.000 30.78 18.10 38.09 2.85
3962 4173 6.957606 ACTTACTTTTGGCCAAATAGGGTTAT 59.042 34.615 30.78 15.52 38.09 1.89
3963 4174 7.456585 ACTTACTTTTGGCCAAATAGGGTTATT 59.543 33.333 30.78 11.26 38.09 1.40
3964 4175 6.294361 ACTTTTGGCCAAATAGGGTTATTC 57.706 37.500 30.78 0.00 38.09 1.75
3965 4176 6.022958 ACTTTTGGCCAAATAGGGTTATTCT 58.977 36.000 30.78 9.96 38.09 2.40
3966 4177 6.500400 ACTTTTGGCCAAATAGGGTTATTCTT 59.500 34.615 30.78 9.36 38.09 2.52
3968 4179 5.466127 TGGCCAAATAGGGTTATTCTTCT 57.534 39.130 0.61 0.00 38.09 2.85
3969 4180 6.584471 TGGCCAAATAGGGTTATTCTTCTA 57.416 37.500 0.61 0.00 38.09 2.10
3970 4181 6.601332 TGGCCAAATAGGGTTATTCTTCTAG 58.399 40.000 0.61 0.00 38.09 2.43
4015 4232 8.647143 TTTCTGACCAAAGAAAAACAATCATC 57.353 30.769 0.00 0.00 41.92 2.92
4016 4233 7.345422 TCTGACCAAAGAAAAACAATCATCA 57.655 32.000 0.00 0.00 0.00 3.07
4017 4234 7.428020 TCTGACCAAAGAAAAACAATCATCAG 58.572 34.615 0.00 0.00 0.00 2.90
4018 4235 7.068593 TCTGACCAAAGAAAAACAATCATCAGT 59.931 33.333 0.00 0.00 32.44 3.41
4019 4236 8.231692 TGACCAAAGAAAAACAATCATCAGTA 57.768 30.769 0.00 0.00 0.00 2.74
4020 4237 8.690884 TGACCAAAGAAAAACAATCATCAGTAA 58.309 29.630 0.00 0.00 0.00 2.24
4021 4238 9.528018 GACCAAAGAAAAACAATCATCAGTAAA 57.472 29.630 0.00 0.00 0.00 2.01
4028 4245 9.597999 GAAAAACAATCATCAGTAAATTTTGCC 57.402 29.630 0.00 0.00 0.00 4.52
4029 4246 8.907222 AAAACAATCATCAGTAAATTTTGCCT 57.093 26.923 0.00 0.00 0.00 4.75
4030 4247 8.907222 AAACAATCATCAGTAAATTTTGCCTT 57.093 26.923 0.00 0.00 0.00 4.35
4302 4533 4.757692 AGGAGGAAGAAGAAGAAGAAGGA 58.242 43.478 0.00 0.00 0.00 3.36
4304 4535 5.248248 AGGAGGAAGAAGAAGAAGAAGGAAG 59.752 44.000 0.00 0.00 0.00 3.46
4305 4536 4.905429 AGGAAGAAGAAGAAGAAGGAAGC 58.095 43.478 0.00 0.00 0.00 3.86
4449 4681 0.693049 AGAGTTGCCCTGTAACTGGG 59.307 55.000 6.44 6.44 44.16 4.45
4467 4699 4.783227 ACTGGGAATAGCTTAAGGTTCAGA 59.217 41.667 13.21 0.00 0.00 3.27
4475 4707 5.489792 AGCTTAAGGTTCAGAGATTGTGA 57.510 39.130 0.12 0.00 0.00 3.58
4480 4712 3.607741 AGGTTCAGAGATTGTGAGCATG 58.392 45.455 0.00 0.00 0.00 4.06
4483 4715 1.911357 TCAGAGATTGTGAGCATGGGT 59.089 47.619 0.00 0.00 0.00 4.51
4489 4721 1.608055 TTGTGAGCATGGGTGTTGAG 58.392 50.000 0.00 0.00 0.00 3.02
4493 4725 1.001641 AGCATGGGTGTTGAGAGCC 60.002 57.895 0.00 0.00 0.00 4.70
4518 4778 1.227764 CTCACTGCAGTGTGGCACT 60.228 57.895 38.41 5.00 46.51 4.40
4559 4819 8.102676 TGGTCTTTGATCTCTGTAAATTGATCA 58.897 33.333 0.00 0.00 42.11 2.92
4566 4826 6.932356 TCTCTGTAAATTGATCAGATTGCC 57.068 37.500 0.00 0.00 37.54 4.52
4568 4828 6.765036 TCTCTGTAAATTGATCAGATTGCCTC 59.235 38.462 0.00 0.00 37.54 4.70
4580 4840 1.200948 GATTGCCTCCTTGCTTGTGTC 59.799 52.381 0.00 0.00 0.00 3.67
4598 4858 0.693622 TCCCCGCATGTGAAAGGTAA 59.306 50.000 8.11 0.00 0.00 2.85
4599 4859 1.283613 TCCCCGCATGTGAAAGGTAAT 59.716 47.619 8.11 0.00 0.00 1.89
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
86 87 2.096417 GGTGTTGTATGTGCAGAACGTC 60.096 50.000 0.00 0.00 0.00 4.34
123 127 4.884668 TTTTCACCCTCTACTGTACTGG 57.115 45.455 4.66 0.00 0.00 4.00
131 135 3.939592 GCCTGTACATTTTCACCCTCTAC 59.060 47.826 0.00 0.00 0.00 2.59
132 136 3.585289 TGCCTGTACATTTTCACCCTCTA 59.415 43.478 0.00 0.00 0.00 2.43
133 137 2.375174 TGCCTGTACATTTTCACCCTCT 59.625 45.455 0.00 0.00 0.00 3.69
134 138 2.749621 CTGCCTGTACATTTTCACCCTC 59.250 50.000 0.00 0.00 0.00 4.30
135 139 2.108250 ACTGCCTGTACATTTTCACCCT 59.892 45.455 0.00 0.00 0.00 4.34
136 140 2.228822 CACTGCCTGTACATTTTCACCC 59.771 50.000 0.00 0.00 0.00 4.61
137 141 3.146066 TCACTGCCTGTACATTTTCACC 58.854 45.455 0.00 0.00 0.00 4.02
138 142 4.829064 TTCACTGCCTGTACATTTTCAC 57.171 40.909 0.00 0.00 0.00 3.18
140 144 5.634859 CCATTTTCACTGCCTGTACATTTTC 59.365 40.000 0.00 0.00 0.00 2.29
141 145 5.070313 ACCATTTTCACTGCCTGTACATTTT 59.930 36.000 0.00 0.00 0.00 1.82
142 146 4.588528 ACCATTTTCACTGCCTGTACATTT 59.411 37.500 0.00 0.00 0.00 2.32
183 195 2.752354 CGCCACTATTTGAACATCCCAA 59.248 45.455 0.00 0.00 0.00 4.12
188 200 7.333528 ACAAATATCGCCACTATTTGAACAT 57.666 32.000 19.29 3.15 44.07 2.71
196 208 7.272978 AGTCTACAAACAAATATCGCCACTAT 58.727 34.615 0.00 0.00 0.00 2.12
253 269 2.078849 TACATGGACGTGCAACAGAG 57.921 50.000 15.51 4.63 35.74 3.35
336 352 4.331968 TCGCAAGTTCAGGGATACAAATT 58.668 39.130 0.00 0.00 37.01 1.82
663 707 0.955919 CTCTTCCCTGTTTGGTCGCC 60.956 60.000 0.00 0.00 0.00 5.54
741 793 3.479489 GAAAAGGACTTAACCACCGGAA 58.521 45.455 9.46 0.00 0.00 4.30
752 804 2.638363 AGAAGCGGTAGGAAAAGGACTT 59.362 45.455 0.00 0.00 0.00 3.01
796 848 2.745884 TGCGGTACATGCCACAGC 60.746 61.111 13.80 13.80 37.57 4.40
800 852 2.745884 GTGCTGCGGTACATGCCA 60.746 61.111 9.10 0.00 0.00 4.92
804 856 0.734942 GTACGTGTGCTGCGGTACAT 60.735 55.000 19.80 7.40 39.96 2.29
807 859 2.259204 GGTACGTGTGCTGCGGTA 59.741 61.111 0.00 0.00 0.00 4.02
964 1037 3.127533 AAGATGCAAGCCGACCGC 61.128 61.111 0.00 0.00 37.98 5.68
1023 1096 4.479993 ATGGCCGCCAGTGCTCTC 62.480 66.667 18.96 0.00 36.75 3.20
1034 1107 3.740128 AAGCCTACGCAGATGGCCG 62.740 63.158 0.00 0.00 46.29 6.13
1036 1109 0.462759 AAGAAGCCTACGCAGATGGC 60.463 55.000 0.00 0.00 45.73 4.40
1037 1110 1.576356 GAAGAAGCCTACGCAGATGG 58.424 55.000 0.00 0.00 37.52 3.51
1040 1113 0.170561 GACGAAGAAGCCTACGCAGA 59.829 55.000 0.00 0.00 37.52 4.26
1041 1114 0.109272 TGACGAAGAAGCCTACGCAG 60.109 55.000 0.00 0.00 37.52 5.18
1042 1115 0.530744 ATGACGAAGAAGCCTACGCA 59.469 50.000 0.00 0.00 37.52 5.24
1043 1116 1.201343 GATGACGAAGAAGCCTACGC 58.799 55.000 0.00 0.00 0.00 4.42
1044 1117 1.405821 AGGATGACGAAGAAGCCTACG 59.594 52.381 0.00 0.00 32.46 3.51
1045 1118 4.551388 CATAGGATGACGAAGAAGCCTAC 58.449 47.826 0.00 0.00 38.21 3.18
1046 1119 3.005897 GCATAGGATGACGAAGAAGCCTA 59.994 47.826 0.00 0.00 39.25 3.93
1047 1120 2.224161 GCATAGGATGACGAAGAAGCCT 60.224 50.000 0.00 0.00 37.32 4.58
1048 1121 2.139118 GCATAGGATGACGAAGAAGCC 58.861 52.381 0.00 0.00 0.00 4.35
1049 1122 2.799412 CAGCATAGGATGACGAAGAAGC 59.201 50.000 0.00 0.00 30.05 3.86
1050 1123 2.799412 GCAGCATAGGATGACGAAGAAG 59.201 50.000 0.00 0.00 30.05 2.85
1051 1124 2.432146 AGCAGCATAGGATGACGAAGAA 59.568 45.455 0.00 0.00 30.05 2.52
1055 1128 0.312102 CGAGCAGCATAGGATGACGA 59.688 55.000 0.00 0.00 35.17 4.20
1089 1162 4.663166 TCGATCGAAGTGAGAAAGCTAAG 58.337 43.478 16.99 0.00 0.00 2.18
1090 1163 4.663166 CTCGATCGAAGTGAGAAAGCTAA 58.337 43.478 19.92 0.00 31.31 3.09
1091 1164 3.487711 GCTCGATCGAAGTGAGAAAGCTA 60.488 47.826 19.92 0.00 31.31 3.32
1092 1165 2.733858 GCTCGATCGAAGTGAGAAAGCT 60.734 50.000 19.92 0.00 31.31 3.74
1093 1166 1.586123 GCTCGATCGAAGTGAGAAAGC 59.414 52.381 19.92 11.58 31.31 3.51
1094 1167 3.105203 GAGCTCGATCGAAGTGAGAAAG 58.895 50.000 19.92 5.07 31.31 2.62
1095 1168 2.159366 GGAGCTCGATCGAAGTGAGAAA 60.159 50.000 19.92 0.00 31.31 2.52
1096 1169 1.402259 GGAGCTCGATCGAAGTGAGAA 59.598 52.381 19.92 0.00 31.31 2.87
1097 1170 1.018148 GGAGCTCGATCGAAGTGAGA 58.982 55.000 19.92 0.00 31.31 3.27
1098 1171 0.316607 CGGAGCTCGATCGAAGTGAG 60.317 60.000 19.92 8.11 42.43 3.51
1099 1172 1.025113 ACGGAGCTCGATCGAAGTGA 61.025 55.000 19.92 0.00 42.43 3.41
1100 1173 0.179161 AACGGAGCTCGATCGAAGTG 60.179 55.000 19.92 8.88 42.43 3.16
1101 1174 0.526662 AAACGGAGCTCGATCGAAGT 59.473 50.000 19.92 8.98 42.43 3.01
1102 1175 0.917259 CAAACGGAGCTCGATCGAAG 59.083 55.000 19.92 13.82 42.43 3.79
1103 1176 0.457853 CCAAACGGAGCTCGATCGAA 60.458 55.000 19.92 3.18 42.43 3.71
1104 1177 1.138883 CCAAACGGAGCTCGATCGA 59.861 57.895 18.32 18.32 42.43 3.59
1105 1178 0.736325 AACCAAACGGAGCTCGATCG 60.736 55.000 9.36 9.36 42.43 3.69
1106 1179 1.000145 GAACCAAACGGAGCTCGATC 59.000 55.000 7.83 0.00 42.43 3.69
1107 1180 0.608640 AGAACCAAACGGAGCTCGAT 59.391 50.000 7.83 0.00 42.43 3.59
1108 1181 0.038526 GAGAACCAAACGGAGCTCGA 60.039 55.000 7.83 0.00 42.43 4.04
1109 1182 1.014564 GGAGAACCAAACGGAGCTCG 61.015 60.000 7.83 5.83 39.46 5.03
1110 1183 1.014564 CGGAGAACCAAACGGAGCTC 61.015 60.000 4.71 4.71 35.59 4.09
1111 1184 1.004918 CGGAGAACCAAACGGAGCT 60.005 57.895 0.00 0.00 35.59 4.09
1112 1185 1.301479 ACGGAGAACCAAACGGAGC 60.301 57.895 0.00 0.00 35.59 4.70
1113 1186 0.249741 ACACGGAGAACCAAACGGAG 60.250 55.000 0.00 0.00 35.59 4.63
1114 1187 0.249573 GACACGGAGAACCAAACGGA 60.250 55.000 0.00 0.00 35.59 4.69
1115 1188 1.226030 GGACACGGAGAACCAAACGG 61.226 60.000 0.00 0.00 35.59 4.44
1116 1189 0.531090 TGGACACGGAGAACCAAACG 60.531 55.000 0.00 0.00 35.59 3.60
1121 1194 1.656652 CATGATGGACACGGAGAACC 58.343 55.000 0.00 0.00 0.00 3.62
1148 1221 2.988493 CAGTAACACAATGGCACAATGC 59.012 45.455 0.00 0.00 44.27 3.56
1153 1226 4.764679 TCAATCAGTAACACAATGGCAC 57.235 40.909 0.00 0.00 0.00 5.01
1154 1227 5.008980 TCATCAATCAGTAACACAATGGCA 58.991 37.500 0.00 0.00 0.00 4.92
1155 1228 5.565592 TCATCAATCAGTAACACAATGGC 57.434 39.130 0.00 0.00 0.00 4.40
1156 1229 5.575957 GCTCATCAATCAGTAACACAATGG 58.424 41.667 0.00 0.00 0.00 3.16
1157 1230 5.163824 ACGCTCATCAATCAGTAACACAATG 60.164 40.000 0.00 0.00 0.00 2.82
1217 1294 2.505557 CCGGGCGAACGTGTAGTC 60.506 66.667 0.00 0.00 0.00 2.59
1846 1923 1.735386 TAGAGTTCTGACCTCCGACG 58.265 55.000 0.00 0.00 0.00 5.12
1872 1949 3.479590 GCCGTAAACACAAAACGAACTTC 59.520 43.478 0.00 0.00 38.89 3.01
2395 2496 2.727278 TCACTTGCAATGTGTACGTACG 59.273 45.455 20.18 15.01 42.13 3.67
2844 2986 3.764049 GAGTCGTTGTCGTGCCGC 61.764 66.667 0.00 0.00 38.33 6.53
3085 3230 2.896685 GGATGGTCACCCAAAATGACAA 59.103 45.455 7.38 0.00 46.89 3.18
3444 3589 0.474660 ATAGGAGCCTAGGCCCTTGG 60.475 60.000 34.85 6.89 43.17 3.61
3445 3590 2.183679 CTATAGGAGCCTAGGCCCTTG 58.816 57.143 34.85 24.69 43.17 3.61
3446 3591 1.796415 ACTATAGGAGCCTAGGCCCTT 59.204 52.381 34.85 23.61 43.17 3.95
3450 3595 1.203199 ACCCACTATAGGAGCCTAGGC 60.203 57.143 27.19 27.19 42.33 3.93
3500 3645 2.415825 GATCGACAGGATCCGACCA 58.584 57.895 5.98 0.00 44.86 4.02
3577 3725 0.879090 TCTCGTCTCGCAGCTTAACA 59.121 50.000 0.00 0.00 0.00 2.41
3584 3732 1.226267 GCACTCTCTCGTCTCGCAG 60.226 63.158 0.00 0.00 0.00 5.18
3598 3746 2.350522 CTTAATCCTTCAGCGTGCACT 58.649 47.619 16.19 0.00 0.00 4.40
3603 3751 2.432510 CTCCTCCTTAATCCTTCAGCGT 59.567 50.000 0.00 0.00 0.00 5.07
3604 3752 2.695666 TCTCCTCCTTAATCCTTCAGCG 59.304 50.000 0.00 0.00 0.00 5.18
3690 3838 5.515797 TGAATTCTAGTCCGTGACCATAG 57.484 43.478 7.05 0.00 32.18 2.23
3691 3839 5.925506 TTGAATTCTAGTCCGTGACCATA 57.074 39.130 7.05 0.00 32.18 2.74
3692 3840 4.819105 TTGAATTCTAGTCCGTGACCAT 57.181 40.909 7.05 0.00 32.18 3.55
3693 3841 4.819105 ATTGAATTCTAGTCCGTGACCA 57.181 40.909 7.05 0.00 32.18 4.02
3694 3842 4.332819 CCAATTGAATTCTAGTCCGTGACC 59.667 45.833 7.12 0.00 32.18 4.02
3695 3843 5.175859 TCCAATTGAATTCTAGTCCGTGAC 58.824 41.667 7.12 0.00 0.00 3.67
3696 3844 5.414789 TCCAATTGAATTCTAGTCCGTGA 57.585 39.130 7.12 0.00 0.00 4.35
3697 3845 6.316140 TCATTCCAATTGAATTCTAGTCCGTG 59.684 38.462 7.12 0.00 41.85 4.94
3698 3846 6.414732 TCATTCCAATTGAATTCTAGTCCGT 58.585 36.000 7.12 0.00 41.85 4.69
3699 3847 6.540189 ACTCATTCCAATTGAATTCTAGTCCG 59.460 38.462 7.12 0.00 41.85 4.79
3700 3848 7.872113 ACTCATTCCAATTGAATTCTAGTCC 57.128 36.000 7.12 0.00 41.85 3.85
3701 3849 7.699812 GCAACTCATTCCAATTGAATTCTAGTC 59.300 37.037 7.12 0.00 41.85 2.59
3702 3850 7.542025 GCAACTCATTCCAATTGAATTCTAGT 58.458 34.615 7.12 0.00 41.85 2.57
3703 3851 6.690098 CGCAACTCATTCCAATTGAATTCTAG 59.310 38.462 7.12 0.00 41.85 2.43
3704 3852 6.554419 CGCAACTCATTCCAATTGAATTCTA 58.446 36.000 7.12 0.00 41.85 2.10
3705 3853 5.404946 CGCAACTCATTCCAATTGAATTCT 58.595 37.500 7.12 0.00 41.85 2.40
3706 3854 4.032104 GCGCAACTCATTCCAATTGAATTC 59.968 41.667 7.12 0.00 41.85 2.17
3707 3855 3.928375 GCGCAACTCATTCCAATTGAATT 59.072 39.130 7.12 0.00 41.85 2.17
3708 3856 3.514645 GCGCAACTCATTCCAATTGAAT 58.485 40.909 7.12 2.31 44.67 2.57
3709 3857 2.668001 CGCGCAACTCATTCCAATTGAA 60.668 45.455 8.75 0.00 37.38 2.69
3710 3858 1.135717 CGCGCAACTCATTCCAATTGA 60.136 47.619 8.75 0.00 0.00 2.57
3744 3913 1.154980 CGGTACAAACGAACACGCG 60.155 57.895 3.53 3.53 37.29 6.01
3847 4016 9.431887 AGAGCGTTTAAATCATCACTTTAGTTA 57.568 29.630 0.00 0.00 0.00 2.24
3848 4017 8.324163 AGAGCGTTTAAATCATCACTTTAGTT 57.676 30.769 0.00 0.00 0.00 2.24
3849 4018 7.907214 AGAGCGTTTAAATCATCACTTTAGT 57.093 32.000 0.00 0.00 0.00 2.24
3865 4034 8.985805 CCTCCGTAAATTAATATAAGAGCGTTT 58.014 33.333 0.00 0.00 0.00 3.60
3866 4035 7.601508 CCCTCCGTAAATTAATATAAGAGCGTT 59.398 37.037 0.00 0.00 0.00 4.84
3867 4036 7.039504 TCCCTCCGTAAATTAATATAAGAGCGT 60.040 37.037 0.00 0.00 0.00 5.07
3868 4037 7.318141 TCCCTCCGTAAATTAATATAAGAGCG 58.682 38.462 0.00 0.00 0.00 5.03
3869 4038 8.312564 ACTCCCTCCGTAAATTAATATAAGAGC 58.687 37.037 0.00 0.00 0.00 4.09
3880 4049 9.205513 TCTTAAATAGTACTCCCTCCGTAAATT 57.794 33.333 0.00 0.00 0.00 1.82
3881 4050 8.773033 TCTTAAATAGTACTCCCTCCGTAAAT 57.227 34.615 0.00 0.00 0.00 1.40
3882 4051 8.593945 TTCTTAAATAGTACTCCCTCCGTAAA 57.406 34.615 0.00 0.00 0.00 2.01
3883 4052 8.593945 TTTCTTAAATAGTACTCCCTCCGTAA 57.406 34.615 0.00 0.00 0.00 3.18
3884 4053 8.593945 TTTTCTTAAATAGTACTCCCTCCGTA 57.406 34.615 0.00 0.00 0.00 4.02
3885 4054 7.486407 TTTTCTTAAATAGTACTCCCTCCGT 57.514 36.000 0.00 0.00 0.00 4.69
3908 4077 7.066307 AGCAAATGTTTCTGGATAAGGTTTT 57.934 32.000 0.00 0.00 0.00 2.43
3912 4081 6.599244 TCAGTAGCAAATGTTTCTGGATAAGG 59.401 38.462 4.57 0.00 0.00 2.69
3916 4085 5.564550 AGTCAGTAGCAAATGTTTCTGGAT 58.435 37.500 4.57 0.00 0.00 3.41
3918 4087 5.695851 AAGTCAGTAGCAAATGTTTCTGG 57.304 39.130 4.57 0.00 0.00 3.86
3926 4137 5.048013 GGCCAAAAGTAAGTCAGTAGCAAAT 60.048 40.000 0.00 0.00 0.00 2.32
3949 4160 7.715686 GGTGACTAGAAGAATAACCCTATTTGG 59.284 40.741 0.00 0.00 0.00 3.28
3955 4166 4.695606 TGGGTGACTAGAAGAATAACCCT 58.304 43.478 9.25 0.00 45.04 4.34
3956 4167 5.367060 AGATGGGTGACTAGAAGAATAACCC 59.633 44.000 0.00 0.89 45.02 4.11
3957 4168 6.325286 AGAGATGGGTGACTAGAAGAATAACC 59.675 42.308 0.00 0.00 0.00 2.85
3961 4172 6.201591 AGAAGAGATGGGTGACTAGAAGAAT 58.798 40.000 0.00 0.00 0.00 2.40
3962 4173 5.584913 AGAAGAGATGGGTGACTAGAAGAA 58.415 41.667 0.00 0.00 0.00 2.52
3963 4174 5.197451 GAGAAGAGATGGGTGACTAGAAGA 58.803 45.833 0.00 0.00 0.00 2.87
3964 4175 4.952957 TGAGAAGAGATGGGTGACTAGAAG 59.047 45.833 0.00 0.00 0.00 2.85
3965 4176 4.935578 TGAGAAGAGATGGGTGACTAGAA 58.064 43.478 0.00 0.00 0.00 2.10
3966 4177 4.017958 ACTGAGAAGAGATGGGTGACTAGA 60.018 45.833 0.00 0.00 0.00 2.43
3968 4179 4.323569 ACTGAGAAGAGATGGGTGACTA 57.676 45.455 0.00 0.00 0.00 2.59
3969 4180 3.182887 ACTGAGAAGAGATGGGTGACT 57.817 47.619 0.00 0.00 0.00 3.41
3970 4181 3.971245 AACTGAGAAGAGATGGGTGAC 57.029 47.619 0.00 0.00 0.00 3.67
4010 4227 6.040209 TGCAAGGCAAAATTTACTGATGAT 57.960 33.333 0.00 0.00 34.76 2.45
4011 4228 5.465532 TGCAAGGCAAAATTTACTGATGA 57.534 34.783 0.00 0.00 34.76 2.92
4025 4242 1.405105 GAGTTGACACTTTGCAAGGCA 59.595 47.619 8.71 0.00 31.92 4.75
4026 4243 1.269257 GGAGTTGACACTTTGCAAGGC 60.269 52.381 8.71 0.00 31.22 4.35
4027 4244 2.023673 TGGAGTTGACACTTTGCAAGG 58.976 47.619 7.07 7.07 31.22 3.61
4028 4245 3.438360 GTTGGAGTTGACACTTTGCAAG 58.562 45.455 0.00 0.00 31.22 4.01
4029 4246 2.165437 GGTTGGAGTTGACACTTTGCAA 59.835 45.455 0.00 0.00 31.22 4.08
4030 4247 1.748493 GGTTGGAGTTGACACTTTGCA 59.252 47.619 0.00 0.00 31.22 4.08
4302 4533 3.216800 TGATTGTTCAGAACAGCTGCTT 58.783 40.909 15.27 7.47 44.52 3.91
4304 4535 3.251729 TCTTGATTGTTCAGAACAGCTGC 59.748 43.478 15.27 7.69 44.52 5.25
4305 4536 5.624344 ATCTTGATTGTTCAGAACAGCTG 57.376 39.130 15.61 13.48 43.27 4.24
4407 4639 3.207669 GGCAGAGCGCTGAATGGG 61.208 66.667 22.55 0.00 45.17 4.00
4449 4681 7.766278 TCACAATCTCTGAACCTTAAGCTATTC 59.234 37.037 0.00 1.56 0.00 1.75
4467 4699 2.165167 CAACACCCATGCTCACAATCT 58.835 47.619 0.00 0.00 0.00 2.40
4475 4707 1.001641 GGCTCTCAACACCCATGCT 60.002 57.895 0.00 0.00 0.00 3.79
4480 4712 1.222113 GGCTAGGCTCTCAACACCC 59.778 63.158 9.46 0.00 0.00 4.61
4483 4715 1.479709 GAGAGGCTAGGCTCTCAACA 58.520 55.000 46.59 0.00 43.91 3.33
4489 4721 1.326213 TGCAGTGAGAGGCTAGGCTC 61.326 60.000 33.17 33.17 0.00 4.70
4518 4778 1.352017 AGACCATTGCATCACTCACCA 59.648 47.619 0.00 0.00 0.00 4.17
4527 4787 4.597004 ACAGAGATCAAAGACCATTGCAT 58.403 39.130 0.00 0.00 0.00 3.96
4559 4819 1.202976 ACACAAGCAAGGAGGCAATCT 60.203 47.619 0.00 0.00 35.83 2.40
4566 4826 1.672356 CGGGGACACAAGCAAGGAG 60.672 63.158 0.00 0.00 0.00 3.69
4568 4828 3.365265 GCGGGGACACAAGCAAGG 61.365 66.667 0.00 0.00 0.00 3.61
4580 4840 1.762708 ATTACCTTTCACATGCGGGG 58.237 50.000 0.00 0.00 0.00 5.73
4598 4858 7.966812 TGCAGACATTCAGTAAGATACCATAT 58.033 34.615 0.00 0.00 0.00 1.78
4599 4859 7.360113 TGCAGACATTCAGTAAGATACCATA 57.640 36.000 0.00 0.00 0.00 2.74


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

AutoCloner maintained by Alex Coulton.