Multiple sequence alignment - TraesCS5D01G387700

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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 TraesCS5D01G387700 chr5D 100.000 5187 0 0 1 5187 457623479 457628665 0.000000e+00 9579.0
1 TraesCS5D01G387700 chr5D 94.595 37 1 1 2176 2211 460393084 460393120 7.260000e-04 56.5
2 TraesCS5D01G387700 chr5B 92.206 1668 73 20 3022 4648 559681012 559682663 0.000000e+00 2307.0
3 TraesCS5D01G387700 chr5B 93.868 1321 56 13 736 2046 559678028 559679333 0.000000e+00 1967.0
4 TraesCS5D01G387700 chr5B 93.658 678 40 3 2260 2935 559680316 559680992 0.000000e+00 1011.0
5 TraesCS5D01G387700 chr5B 88.042 761 55 11 1 729 559676975 559677731 0.000000e+00 869.0
6 TraesCS5D01G387700 chr5B 93.347 496 15 5 4692 5185 559682665 559683144 0.000000e+00 717.0
7 TraesCS5D01G387700 chr5B 86.175 217 26 4 2048 2263 559679598 559679811 1.120000e-56 231.0
8 TraesCS5D01G387700 chr5B 86.076 79 8 3 2141 2217 318988304 318988381 1.200000e-11 82.4
9 TraesCS5D01G387700 chr5A 91.217 1537 82 17 736 2263 575522112 575523604 0.000000e+00 2041.0
10 TraesCS5D01G387700 chr5A 92.259 943 49 7 3714 4648 575525068 575525994 0.000000e+00 1315.0
11 TraesCS5D01G387700 chr5A 93.421 684 33 7 2260 2940 575523648 575524322 0.000000e+00 1003.0
12 TraesCS5D01G387700 chr5A 90.457 744 50 11 2993 3720 575524299 575525037 0.000000e+00 961.0
13 TraesCS5D01G387700 chr5A 92.365 537 21 7 4664 5187 575525981 575526510 0.000000e+00 747.0
14 TraesCS5D01G387700 chr5A 85.013 754 73 21 1 724 575520985 575521728 0.000000e+00 730.0
15 TraesCS5D01G387700 chr6B 83.333 90 13 2 2135 2223 455121438 455121526 1.200000e-11 82.4
16 TraesCS5D01G387700 chr2A 80.682 88 14 3 2133 2219 555496929 555497014 1.210000e-06 65.8


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 TraesCS5D01G387700 chr5D 457623479 457628665 5186 False 9579.000000 9579 100.000000 1 5187 1 chr5D.!!$F1 5186
1 TraesCS5D01G387700 chr5B 559676975 559683144 6169 False 1183.666667 2307 91.216000 1 5185 6 chr5B.!!$F2 5184
2 TraesCS5D01G387700 chr5A 575520985 575526510 5525 False 1132.833333 2041 90.788667 1 5187 6 chr5A.!!$F1 5186

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
732 771 0.107508 ATTGATCCACCGCTCCACTG 60.108 55.0 0.00 0.00 0.00 3.66 F
1402 1827 0.238289 CTCACCATGCACCACGAAAC 59.762 55.0 0.00 0.00 0.00 2.78 F
2606 3805 0.601558 GCCATGGCATTGCTAGATGG 59.398 55.0 32.08 21.07 41.49 3.51 F
2869 4068 0.736636 GGCGGGGAATTTTCTTACCG 59.263 55.0 13.37 13.37 39.77 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1752 2177 0.180171 CCCCATGTGCATTCCGACTA 59.820 55.000 0.00 0.0 0.00 2.59 R
2996 4195 0.906775 TGGTCTGATGCTGATGCTGA 59.093 50.000 0.00 0.0 40.48 4.26 R
4108 5369 1.002430 CAAGACTGGTAAGCAGCTCCA 59.998 52.381 0.00 0.0 0.00 3.86 R
4672 5952 0.823356 GGCTCCAGTGGCAAAGTCAA 60.823 55.000 3.51 0.0 0.00 3.18 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
29 30 5.880054 AATCTTTCGAATCCGTGTCAAAT 57.120 34.783 0.00 0.00 37.05 2.32
70 71 5.437191 AATCCCAAACTGTAGAACCCTAG 57.563 43.478 0.00 0.00 0.00 3.02
134 135 1.090052 GCAACCCATGTCTAGGTCGC 61.090 60.000 0.00 0.00 34.45 5.19
143 144 4.849329 CTAGGTCGCCGTCCGTGC 62.849 72.222 0.00 0.00 38.35 5.34
145 146 3.974835 TAGGTCGCCGTCCGTGCTA 62.975 63.158 0.00 0.00 38.35 3.49
147 148 2.717485 GTCGCCGTCCGTGCTATA 59.283 61.111 0.00 0.00 38.35 1.31
205 206 2.595463 GCAGTGAGGTTGGCAGCA 60.595 61.111 3.14 0.00 0.00 4.41
235 236 3.815396 GCTGAGCAGAGAGATAGGGAGAT 60.815 52.174 0.00 0.00 0.00 2.75
239 240 3.141838 AGCAGAGAGATAGGGAGATTGGA 59.858 47.826 0.00 0.00 0.00 3.53
249 258 1.144936 GAGATTGGACAGCCGAGGG 59.855 63.158 0.00 0.00 36.79 4.30
251 260 3.406595 GATTGGACAGCCGAGGGGG 62.407 68.421 0.00 0.00 36.79 5.40
289 314 2.179018 CGCATGCCCTTTTGACCG 59.821 61.111 13.15 0.00 0.00 4.79
346 371 2.305405 GCTGATCAGCGACATGGAC 58.695 57.895 30.64 3.71 45.29 4.02
360 385 3.366396 ACATGGACCTGAGTAGACGAAT 58.634 45.455 0.00 0.00 0.00 3.34
385 410 1.251527 GGAGAGTGAGCGACCAAGGA 61.252 60.000 0.00 0.00 0.00 3.36
442 467 2.283676 GACCTCCCAGGGTGACGA 60.284 66.667 9.36 0.00 40.58 4.20
509 543 5.705441 TGTCATAAACCTGGTCAAAGCTTAG 59.295 40.000 0.00 0.00 0.00 2.18
572 606 8.816640 AATTTGTGATAGTTTTCAGCGAATTT 57.183 26.923 0.00 0.00 0.00 1.82
575 609 9.737427 TTTGTGATAGTTTTCAGCGAATTTTAA 57.263 25.926 0.00 0.00 0.00 1.52
626 660 4.573607 CCTCAATACCGGTAGTTTTAAGCC 59.426 45.833 20.91 0.00 0.00 4.35
638 677 4.010349 AGTTTTAAGCCATACAGCACTCC 58.990 43.478 0.00 0.00 34.23 3.85
668 707 3.495453 CGTCTCCAAAACCAACCCTTCTA 60.495 47.826 0.00 0.00 0.00 2.10
695 734 8.567104 TCACAAAATCACAAATCATATATCCGG 58.433 33.333 0.00 0.00 0.00 5.14
710 749 3.795688 ATCCGGAATATGACTGCCAAT 57.204 42.857 9.01 0.00 0.00 3.16
729 768 1.199615 TACATTGATCCACCGCTCCA 58.800 50.000 0.00 0.00 0.00 3.86
732 771 0.107508 ATTGATCCACCGCTCCACTG 60.108 55.000 0.00 0.00 0.00 3.66
780 1191 4.565166 CACAAGGAAACCTTTTCGAAAACC 59.435 41.667 19.08 17.17 41.69 3.27
821 1232 4.147322 GCGCATTCCGTGACACCG 62.147 66.667 0.30 0.00 39.71 4.94
874 1289 4.377708 ACGCACGCATCTGCCAGA 62.378 61.111 0.00 0.00 37.91 3.86
1014 1430 4.467084 GCGATGCAGGTTCCGGGA 62.467 66.667 0.00 0.00 0.00 5.14
1177 1593 6.837992 TCTGAATATTGTTTCCGTTGTTAGC 58.162 36.000 0.00 0.00 0.00 3.09
1193 1609 6.505272 GTTGTTAGCTTGTCTCCGATATACT 58.495 40.000 0.00 0.00 0.00 2.12
1194 1610 6.710597 TGTTAGCTTGTCTCCGATATACTT 57.289 37.500 0.00 0.00 0.00 2.24
1195 1611 6.736123 TGTTAGCTTGTCTCCGATATACTTC 58.264 40.000 0.00 0.00 0.00 3.01
1196 1612 6.546403 TGTTAGCTTGTCTCCGATATACTTCT 59.454 38.462 0.00 0.00 0.00 2.85
1197 1613 7.718314 TGTTAGCTTGTCTCCGATATACTTCTA 59.282 37.037 0.00 0.00 0.00 2.10
1198 1614 8.732531 GTTAGCTTGTCTCCGATATACTTCTAT 58.267 37.037 0.00 0.00 0.00 1.98
1204 1620 7.925622 TGTCTCCGATATACTTCTATAAGGGA 58.074 38.462 0.00 0.00 37.01 4.20
1233 1649 8.627208 AGAGTGATTGCTTTCTTGAATCTTTA 57.373 30.769 0.00 0.00 0.00 1.85
1402 1827 0.238289 CTCACCATGCACCACGAAAC 59.762 55.000 0.00 0.00 0.00 2.78
1458 1883 1.342496 CCATCTCTCTCGCCTGCATTA 59.658 52.381 0.00 0.00 0.00 1.90
1557 1982 0.908910 TATGTCCACATTCGGTGCCT 59.091 50.000 0.00 0.00 46.50 4.75
1615 2040 5.045215 CGGCAAATATTCAGTTCCGTACTA 58.955 41.667 0.00 0.00 34.56 1.82
1616 2041 5.175126 CGGCAAATATTCAGTTCCGTACTAG 59.825 44.000 0.00 0.00 34.56 2.57
1617 2042 6.047231 GGCAAATATTCAGTTCCGTACTAGT 58.953 40.000 0.00 0.00 34.56 2.57
1670 2095 1.040646 GATCTGTCCGGCTACATCCA 58.959 55.000 0.00 0.00 0.00 3.41
1672 2097 1.040646 TCTGTCCGGCTACATCCATC 58.959 55.000 0.00 0.00 0.00 3.51
1756 2181 7.034397 GTGTACCACTGAGGAATTAACTAGTC 58.966 42.308 0.00 0.00 41.22 2.59
1757 2182 5.326200 ACCACTGAGGAATTAACTAGTCG 57.674 43.478 0.00 0.00 41.22 4.18
1758 2183 4.159879 ACCACTGAGGAATTAACTAGTCGG 59.840 45.833 0.00 0.00 41.22 4.79
1759 2184 4.401519 CCACTGAGGAATTAACTAGTCGGA 59.598 45.833 0.00 0.00 41.22 4.55
1795 2220 4.552365 GCGGCTGCTATGGCCTGA 62.552 66.667 11.21 0.00 46.73 3.86
1837 2263 4.024809 GGAGCCATGTTTTCTATAGTTCGC 60.025 45.833 0.00 0.00 0.00 4.70
1921 2347 4.461081 TGGTTACCCAAACACAAGATATGC 59.539 41.667 0.00 0.00 40.08 3.14
1933 2359 6.265577 ACACAAGATATGCCTTTTTATTCGC 58.734 36.000 0.00 0.00 0.00 4.70
1977 2403 3.230743 AGCAAAGCGTTTTCAGTTTGT 57.769 38.095 0.00 0.00 33.33 2.83
2002 2428 3.578688 CTCATTAGTTTTGGTGGCAAGC 58.421 45.455 0.00 0.00 0.00 4.01
2042 2468 6.575162 AACTAGGGAACTGCTTAACAAATG 57.425 37.500 0.00 0.00 43.88 2.32
2152 2841 6.253946 ACCACTCCCTCTTATCCAAAATAG 57.746 41.667 0.00 0.00 0.00 1.73
2156 2845 5.970640 ACTCCCTCTTATCCAAAATAGGTGA 59.029 40.000 0.00 0.00 0.00 4.02
2168 2857 1.722011 ATAGGTGACGCGGTTTTGAG 58.278 50.000 12.47 0.00 0.00 3.02
2191 2880 1.268625 GGGGTTAGTTCAAAACTGCGG 59.731 52.381 2.65 0.00 42.84 5.69
2203 2892 4.697828 TCAAAACTGCGGCACTTATTATGA 59.302 37.500 0.00 0.00 0.00 2.15
2206 2895 5.835113 AACTGCGGCACTTATTATGAATT 57.165 34.783 0.00 0.00 0.00 2.17
2208 2897 4.881273 ACTGCGGCACTTATTATGAATTGA 59.119 37.500 0.00 0.00 0.00 2.57
2209 2898 5.008019 ACTGCGGCACTTATTATGAATTGAG 59.992 40.000 0.00 0.00 0.00 3.02
2211 2900 4.275936 GCGGCACTTATTATGAATTGAGGT 59.724 41.667 0.00 0.00 0.00 3.85
2246 2935 2.387757 ACACCCTTTGTCAGTTTGCAT 58.612 42.857 0.00 0.00 29.79 3.96
2349 3548 8.673626 TTGGTTACGTACTTAAGTTCTAATCG 57.326 34.615 14.49 11.25 0.00 3.34
2606 3805 0.601558 GCCATGGCATTGCTAGATGG 59.398 55.000 32.08 21.07 41.49 3.51
2617 3816 5.619309 GCATTGCTAGATGGATGTTATGCTG 60.619 44.000 0.16 0.00 34.56 4.41
2618 3817 4.694760 TGCTAGATGGATGTTATGCTGT 57.305 40.909 0.00 0.00 0.00 4.40
2624 3823 8.571336 GCTAGATGGATGTTATGCTGTAAAATT 58.429 33.333 0.00 0.00 0.00 1.82
2691 3890 7.481275 AGTATTGTTGCAAGTTCAAATTTGG 57.519 32.000 17.90 2.88 0.00 3.28
2768 3967 3.855950 GGTGGTAAATTCTACTGTCGACG 59.144 47.826 11.62 8.41 0.00 5.12
2828 4027 7.615582 ACATATTCAATCAGTTTGACGACAT 57.384 32.000 0.00 0.00 43.99 3.06
2869 4068 0.736636 GGCGGGGAATTTTCTTACCG 59.263 55.000 13.37 13.37 39.77 4.02
2874 4073 4.231439 CGGGGAATTTTCTTACCGTTTTG 58.769 43.478 10.98 0.00 35.69 2.44
2940 4139 7.017319 TCTATCAGCATCAGATCATTGGATT 57.983 36.000 0.00 0.00 32.67 3.01
2942 4141 8.599792 TCTATCAGCATCAGATCATTGGATTTA 58.400 33.333 0.00 0.00 32.67 1.40
2943 4142 9.397280 CTATCAGCATCAGATCATTGGATTTAT 57.603 33.333 0.00 0.00 32.67 1.40
2944 4143 7.448748 TCAGCATCAGATCATTGGATTTATG 57.551 36.000 0.00 0.00 32.67 1.90
2946 4145 7.390718 TCAGCATCAGATCATTGGATTTATGAG 59.609 37.037 0.00 0.00 35.63 2.90
2947 4146 7.390718 CAGCATCAGATCATTGGATTTATGAGA 59.609 37.037 0.00 0.00 35.63 3.27
2948 4147 7.608376 AGCATCAGATCATTGGATTTATGAGAG 59.392 37.037 0.00 0.00 35.63 3.20
2949 4148 7.606839 GCATCAGATCATTGGATTTATGAGAGA 59.393 37.037 0.00 0.00 35.63 3.10
2950 4149 8.937884 CATCAGATCATTGGATTTATGAGAGAC 58.062 37.037 0.00 0.00 35.63 3.36
2951 4150 8.260099 TCAGATCATTGGATTTATGAGAGACT 57.740 34.615 0.00 0.00 35.63 3.24
2952 4151 8.148999 TCAGATCATTGGATTTATGAGAGACTG 58.851 37.037 0.00 0.00 35.63 3.51
2954 4153 8.369424 AGATCATTGGATTTATGAGAGACTGAG 58.631 37.037 0.00 0.00 35.63 3.35
2955 4154 7.666063 TCATTGGATTTATGAGAGACTGAGA 57.334 36.000 0.00 0.00 0.00 3.27
2956 4155 7.495901 TCATTGGATTTATGAGAGACTGAGAC 58.504 38.462 0.00 0.00 0.00 3.36
2957 4156 7.344093 TCATTGGATTTATGAGAGACTGAGACT 59.656 37.037 0.00 0.00 0.00 3.24
2958 4157 6.707440 TGGATTTATGAGAGACTGAGACTC 57.293 41.667 3.74 3.74 34.95 3.36
2959 4158 6.190587 TGGATTTATGAGAGACTGAGACTCA 58.809 40.000 13.93 4.78 43.25 3.41
2977 4176 8.087136 TGAGACTCAGATCATTGTATTATCAGC 58.913 37.037 0.00 0.00 0.00 4.26
2978 4177 7.960262 AGACTCAGATCATTGTATTATCAGCA 58.040 34.615 0.00 0.00 0.00 4.41
2979 4178 8.595421 AGACTCAGATCATTGTATTATCAGCAT 58.405 33.333 0.00 0.00 0.00 3.79
2980 4179 8.774890 ACTCAGATCATTGTATTATCAGCATC 57.225 34.615 0.00 0.00 0.00 3.91
2981 4180 8.373220 ACTCAGATCATTGTATTATCAGCATCA 58.627 33.333 0.00 0.00 0.00 3.07
2982 4181 8.773404 TCAGATCATTGTATTATCAGCATCAG 57.227 34.615 0.00 0.00 0.00 2.90
2983 4182 8.591072 TCAGATCATTGTATTATCAGCATCAGA 58.409 33.333 0.00 0.00 0.00 3.27
2984 4183 9.384764 CAGATCATTGTATTATCAGCATCAGAT 57.615 33.333 0.00 0.00 0.00 2.90
2985 4184 9.602568 AGATCATTGTATTATCAGCATCAGATC 57.397 33.333 0.00 0.00 0.00 2.75
2986 4185 9.379791 GATCATTGTATTATCAGCATCAGATCA 57.620 33.333 0.00 0.00 0.00 2.92
2987 4186 9.907229 ATCATTGTATTATCAGCATCAGATCAT 57.093 29.630 0.00 0.00 0.00 2.45
2988 4187 9.734984 TCATTGTATTATCAGCATCAGATCATT 57.265 29.630 0.00 0.00 0.00 2.57
2989 4188 9.774742 CATTGTATTATCAGCATCAGATCATTG 57.225 33.333 0.00 0.00 0.00 2.82
2990 4189 7.916914 TGTATTATCAGCATCAGATCATTGG 57.083 36.000 0.00 0.00 0.00 3.16
2991 4190 7.682628 TGTATTATCAGCATCAGATCATTGGA 58.317 34.615 0.00 0.00 0.00 3.53
2992 4191 8.326529 TGTATTATCAGCATCAGATCATTGGAT 58.673 33.333 0.00 0.00 36.13 3.41
3005 4204 6.912203 GATCATTGGATCTATCAGCATCAG 57.088 41.667 0.00 0.00 45.32 2.90
3006 4205 4.576879 TCATTGGATCTATCAGCATCAGC 58.423 43.478 0.00 0.00 42.56 4.26
3007 4206 4.041198 TCATTGGATCTATCAGCATCAGCA 59.959 41.667 0.00 0.00 45.49 4.41
3008 4207 4.635699 TTGGATCTATCAGCATCAGCAT 57.364 40.909 0.00 0.00 45.49 3.79
3009 4208 4.203654 TGGATCTATCAGCATCAGCATC 57.796 45.455 0.00 0.00 45.49 3.91
3010 4209 3.581332 TGGATCTATCAGCATCAGCATCA 59.419 43.478 0.00 0.00 45.49 3.07
3011 4210 4.185394 GGATCTATCAGCATCAGCATCAG 58.815 47.826 0.00 0.00 45.49 2.90
3012 4211 4.081586 GGATCTATCAGCATCAGCATCAGA 60.082 45.833 0.00 0.00 45.49 3.27
3013 4212 4.254402 TCTATCAGCATCAGCATCAGAC 57.746 45.455 0.00 0.00 45.49 3.51
3014 4213 2.257691 ATCAGCATCAGCATCAGACC 57.742 50.000 0.00 0.00 45.49 3.85
3015 4214 0.906775 TCAGCATCAGCATCAGACCA 59.093 50.000 0.00 0.00 45.49 4.02
3016 4215 1.489230 TCAGCATCAGCATCAGACCAT 59.511 47.619 0.00 0.00 45.49 3.55
3017 4216 2.092592 TCAGCATCAGCATCAGACCATT 60.093 45.455 0.00 0.00 45.49 3.16
3018 4217 2.688446 CAGCATCAGCATCAGACCATTT 59.312 45.455 0.00 0.00 45.49 2.32
3019 4218 2.950309 AGCATCAGCATCAGACCATTTC 59.050 45.455 0.00 0.00 45.49 2.17
3110 4313 8.475639 CCTAGTCAGTAAAACTAGCAAGGATTA 58.524 37.037 5.05 0.00 43.16 1.75
3285 4490 3.253188 TGCTCCTTCATGCACAGTAAAAC 59.747 43.478 0.00 0.00 33.94 2.43
3411 4621 2.553079 TGAACTCGTTGTTTTGTGGC 57.447 45.000 0.00 0.00 39.30 5.01
3469 4679 3.342377 TGGACATGAACGAAAGCCATA 57.658 42.857 0.00 0.00 0.00 2.74
3513 4723 3.740321 GCTCATGATGCTTCACTAGTAGC 59.260 47.826 10.22 10.22 38.50 3.58
3684 4898 3.702045 AGCTAGGTATCTGTCCTTGACAC 59.298 47.826 0.00 0.00 37.67 3.67
3696 4910 7.851228 TCTGTCCTTGACACAATTATCTGTAT 58.149 34.615 0.00 0.00 37.67 2.29
3845 5096 1.681793 ACTGCAAGAGTACGTGTCAGT 59.318 47.619 0.00 13.24 37.68 3.41
3850 5101 4.505191 TGCAAGAGTACGTGTCAGTAAAAC 59.495 41.667 0.00 0.00 0.00 2.43
3852 5103 4.248691 AGAGTACGTGTCAGTAAAACCC 57.751 45.455 0.00 0.00 0.00 4.11
3872 5124 4.401202 ACCCCGATCAATTCACATTTTACC 59.599 41.667 0.00 0.00 0.00 2.85
3873 5125 4.400884 CCCCGATCAATTCACATTTTACCA 59.599 41.667 0.00 0.00 0.00 3.25
4021 5276 8.788806 CCTGTGTAAGTAACCACAAAAATATCA 58.211 33.333 0.00 0.00 40.77 2.15
4194 5455 4.573900 TGCTGGTTTTTGTGACAAAATGT 58.426 34.783 22.41 0.00 0.00 2.71
4265 5541 3.668447 TCACAATCTCTGTTGAAGGAGC 58.332 45.455 0.00 0.00 35.47 4.70
4382 5658 4.576053 TGTGCATTACATTATCTCTGGTGC 59.424 41.667 0.00 0.00 33.42 5.01
4585 5865 3.988379 TGTTGCTGTGAATGGAACTTC 57.012 42.857 0.00 0.00 36.83 3.01
4600 5880 5.376625 TGGAACTTCTGCTATTTTGTGAGT 58.623 37.500 0.00 0.00 0.00 3.41
4601 5881 5.470098 TGGAACTTCTGCTATTTTGTGAGTC 59.530 40.000 0.00 0.00 0.00 3.36
4602 5882 5.703130 GGAACTTCTGCTATTTTGTGAGTCT 59.297 40.000 0.00 0.00 0.00 3.24
4603 5883 6.348050 GGAACTTCTGCTATTTTGTGAGTCTG 60.348 42.308 0.00 0.00 0.00 3.51
4604 5884 5.858381 ACTTCTGCTATTTTGTGAGTCTGA 58.142 37.500 0.00 0.00 0.00 3.27
4605 5885 6.471146 ACTTCTGCTATTTTGTGAGTCTGAT 58.529 36.000 0.00 0.00 0.00 2.90
4606 5886 6.939163 ACTTCTGCTATTTTGTGAGTCTGATT 59.061 34.615 0.00 0.00 0.00 2.57
4607 5887 8.097038 ACTTCTGCTATTTTGTGAGTCTGATTA 58.903 33.333 0.00 0.00 0.00 1.75
4624 5904 9.761504 AGTCTGATTATCTGATTACAACATGAG 57.238 33.333 0.00 0.00 0.00 2.90
4628 5908 9.330063 TGATTATCTGATTACAACATGAGGAAC 57.670 33.333 0.00 0.00 0.00 3.62
4648 5928 2.964464 ACATGCAACCTTCCATTTGACA 59.036 40.909 0.00 0.00 0.00 3.58
4649 5929 3.579586 ACATGCAACCTTCCATTTGACAT 59.420 39.130 0.00 0.00 0.00 3.06
4650 5930 4.040706 ACATGCAACCTTCCATTTGACATT 59.959 37.500 0.00 0.00 0.00 2.71
4651 5931 4.686191 TGCAACCTTCCATTTGACATTT 57.314 36.364 0.00 0.00 0.00 2.32
4652 5932 5.033589 TGCAACCTTCCATTTGACATTTT 57.966 34.783 0.00 0.00 0.00 1.82
4653 5933 5.435291 TGCAACCTTCCATTTGACATTTTT 58.565 33.333 0.00 0.00 0.00 1.94
4681 5961 5.652452 AGGATTACCTACCATTTGACTTTGC 59.348 40.000 0.00 0.00 45.83 3.68
4703 5983 2.045536 GGAGCCTGCCCAGACTTG 60.046 66.667 0.00 0.00 0.00 3.16
4704 5984 2.596851 GGAGCCTGCCCAGACTTGA 61.597 63.158 0.00 0.00 0.00 3.02
4705 5985 1.078567 GAGCCTGCCCAGACTTGAG 60.079 63.158 0.00 0.00 0.00 3.02
4706 5986 1.835927 GAGCCTGCCCAGACTTGAGT 61.836 60.000 0.00 0.00 0.00 3.41
4707 5987 1.673665 GCCTGCCCAGACTTGAGTG 60.674 63.158 0.00 0.00 0.00 3.51
4718 5999 3.571401 CAGACTTGAGTGAAAAGCCCAAT 59.429 43.478 0.00 0.00 0.00 3.16
4726 6007 5.779771 TGAGTGAAAAGCCCAATCCTAATTT 59.220 36.000 0.00 0.00 0.00 1.82
4733 6014 2.476199 CCCAATCCTAATTTGGCCCAA 58.524 47.619 0.00 0.00 41.93 4.12
4826 6120 3.649986 GCGCACACAGTCACCACC 61.650 66.667 0.30 0.00 0.00 4.61
4832 6126 0.908910 ACACAGTCACCACCTTCACA 59.091 50.000 0.00 0.00 0.00 3.58
4881 6175 0.179048 TACAGAGGATGGCAATGGCG 60.179 55.000 1.51 0.00 42.47 5.69
4882 6176 2.517875 AGAGGATGGCAATGGCGC 60.518 61.111 0.00 0.00 42.47 6.53
4925 6219 1.538876 CTTCCTCCACCACCTCCCA 60.539 63.158 0.00 0.00 0.00 4.37
4932 6226 1.341156 CCACCACCTCCCATCTCCTC 61.341 65.000 0.00 0.00 0.00 3.71
4935 6229 2.136878 CACCTCCCATCTCCTCCCG 61.137 68.421 0.00 0.00 0.00 5.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
48 49 4.324331 GCTAGGGTTCTACAGTTTGGGATT 60.324 45.833 0.00 0.00 0.00 3.01
49 50 3.200165 GCTAGGGTTCTACAGTTTGGGAT 59.800 47.826 0.00 0.00 0.00 3.85
50 51 2.570302 GCTAGGGTTCTACAGTTTGGGA 59.430 50.000 0.00 0.00 0.00 4.37
70 71 1.078426 TCTTTTCTGCGCCTAGGGC 60.078 57.895 11.72 12.84 46.75 5.19
134 135 1.658673 GGGAGTATAGCACGGACGG 59.341 63.158 0.00 0.00 0.00 4.79
143 144 2.376695 TGGAAGGACGGGGAGTATAG 57.623 55.000 0.00 0.00 0.00 1.31
145 146 1.062428 TCATGGAAGGACGGGGAGTAT 60.062 52.381 0.00 0.00 0.00 2.12
147 148 1.080354 TCATGGAAGGACGGGGAGT 59.920 57.895 0.00 0.00 0.00 3.85
205 206 0.676184 TCTCTGCTCAGCTTGACGTT 59.324 50.000 0.00 0.00 0.00 3.99
249 258 2.370189 CTCTCTCTCTCTCTCTCTCCCC 59.630 59.091 0.00 0.00 0.00 4.81
251 260 3.243569 CGTCTCTCTCTCTCTCTCTCTCC 60.244 56.522 0.00 0.00 0.00 3.71
289 314 0.607489 AGCATTCTGTCACCCTGCAC 60.607 55.000 0.00 0.00 35.32 4.57
335 360 1.107114 CTACTCAGGTCCATGTCGCT 58.893 55.000 0.00 0.00 0.00 4.93
341 366 5.050126 TCTATTCGTCTACTCAGGTCCAT 57.950 43.478 0.00 0.00 0.00 3.41
346 371 4.963373 TCCTCTCTATTCGTCTACTCAGG 58.037 47.826 0.00 0.00 0.00 3.86
360 385 1.134340 GGTCGCTCACTCTCCTCTCTA 60.134 57.143 0.00 0.00 0.00 2.43
415 440 2.037367 GGGAGGTCAAAAGGGCCC 59.963 66.667 16.46 16.46 0.00 5.80
604 638 5.180271 TGGCTTAAAACTACCGGTATTGAG 58.820 41.667 16.25 13.51 0.00 3.02
626 660 2.537529 CGATTTTGCGGAGTGCTGTATG 60.538 50.000 0.00 0.00 46.63 2.39
638 677 2.287308 TGGTTTTGGAGACGATTTTGCG 60.287 45.455 0.00 0.00 37.29 4.85
690 729 3.795688 ATTGGCAGTCATATTCCGGAT 57.204 42.857 4.15 0.00 0.00 4.18
692 731 3.738982 TGTATTGGCAGTCATATTCCGG 58.261 45.455 0.00 0.00 0.00 5.14
695 734 7.175467 TGGATCAATGTATTGGCAGTCATATTC 59.825 37.037 4.89 0.00 38.30 1.75
710 749 1.134521 GTGGAGCGGTGGATCAATGTA 60.135 52.381 0.00 0.00 0.00 2.29
732 771 4.474113 GACGACGGATGGACTGATAATAC 58.526 47.826 0.00 0.00 0.00 1.89
821 1232 0.597377 CGAAGCCAACCAAACCAAGC 60.597 55.000 0.00 0.00 0.00 4.01
1177 1593 8.679100 CCCTTATAGAAGTATATCGGAGACAAG 58.321 40.741 0.00 0.00 42.51 3.16
1193 1609 8.109634 AGCAATCACTCTTTTTCCCTTATAGAA 58.890 33.333 0.00 0.00 0.00 2.10
1194 1610 7.633789 AGCAATCACTCTTTTTCCCTTATAGA 58.366 34.615 0.00 0.00 0.00 1.98
1195 1611 7.872113 AGCAATCACTCTTTTTCCCTTATAG 57.128 36.000 0.00 0.00 0.00 1.31
1196 1612 8.650143 AAAGCAATCACTCTTTTTCCCTTATA 57.350 30.769 0.00 0.00 0.00 0.98
1197 1613 7.452813 AGAAAGCAATCACTCTTTTTCCCTTAT 59.547 33.333 0.00 0.00 33.14 1.73
1198 1614 6.777580 AGAAAGCAATCACTCTTTTTCCCTTA 59.222 34.615 0.00 0.00 33.14 2.69
1204 1620 8.419442 AGATTCAAGAAAGCAATCACTCTTTTT 58.581 29.630 0.00 0.00 33.14 1.94
1214 1630 5.718607 AGGCCTAAAGATTCAAGAAAGCAAT 59.281 36.000 1.29 0.00 0.00 3.56
1233 1649 5.419542 GAAACAAAGTCAAAGAAAAGGCCT 58.580 37.500 0.00 0.00 0.00 5.19
1402 1827 0.460987 GAGGTCTGCCATGTCGAAGG 60.461 60.000 0.00 0.00 37.19 3.46
1435 1860 1.739049 CAGGCGAGAGAGATGGACC 59.261 63.158 0.00 0.00 0.00 4.46
1557 1982 4.980805 GGTGTGCGCGACCAAGGA 62.981 66.667 20.51 0.00 33.25 3.36
1615 2040 4.540502 AGAAAAGGCCCAGGAAATACTACT 59.459 41.667 0.00 0.00 0.00 2.57
1616 2041 4.856509 AGAAAAGGCCCAGGAAATACTAC 58.143 43.478 0.00 0.00 0.00 2.73
1617 2042 4.788617 AGAGAAAAGGCCCAGGAAATACTA 59.211 41.667 0.00 0.00 0.00 1.82
1670 2095 2.909006 TCTTCAGCAGAGAAACTGGGAT 59.091 45.455 0.00 0.00 45.82 3.85
1672 2097 2.847327 TCTTCAGCAGAGAAACTGGG 57.153 50.000 0.00 0.00 45.82 4.45
1752 2177 0.180171 CCCCATGTGCATTCCGACTA 59.820 55.000 0.00 0.00 0.00 2.59
1756 2181 1.378382 TCACCCCATGTGCATTCCG 60.378 57.895 0.00 0.00 45.03 4.30
1757 2182 1.039233 CCTCACCCCATGTGCATTCC 61.039 60.000 0.00 0.00 45.03 3.01
1758 2183 1.669999 GCCTCACCCCATGTGCATTC 61.670 60.000 0.00 0.00 45.03 2.67
1759 2184 1.683365 GCCTCACCCCATGTGCATT 60.683 57.895 0.00 0.00 45.03 3.56
1787 2212 4.044390 AGGTCCCCCTCAGGCCAT 62.044 66.667 5.01 0.00 35.62 4.40
1795 2220 3.341629 CATGCACCAGGTCCCCCT 61.342 66.667 0.00 0.00 44.02 4.79
1921 2347 2.161609 AGCTGTTCCGCGAATAAAAAGG 59.838 45.455 8.23 0.00 34.40 3.11
1933 2359 4.510340 ACAGTACTTGTTTTAGCTGTTCCG 59.490 41.667 0.00 0.00 36.31 4.30
1977 2403 4.339748 TGCCACCAAAACTAATGAGCATA 58.660 39.130 0.00 0.00 0.00 3.14
1992 2418 1.678635 GCATACCAGCTTGCCACCA 60.679 57.895 0.00 0.00 32.66 4.17
2002 2428 0.951558 GTTTATGGGCCGCATACCAG 59.048 55.000 12.02 0.00 40.67 4.00
2042 2468 9.555727 TGTAAGGACTACCAAAATAATATGAGC 57.444 33.333 0.00 0.00 38.94 4.26
2121 2810 5.395435 GGATAAGAGGGAGTGGTACAACTTC 60.395 48.000 3.90 1.46 44.16 3.01
2152 2841 2.251371 GCTCAAAACCGCGTCACC 59.749 61.111 4.92 0.00 0.00 4.02
2156 2845 2.978010 CCCAGCTCAAAACCGCGT 60.978 61.111 4.92 0.00 0.00 6.01
2168 2857 2.288213 GCAGTTTTGAACTAACCCCAGC 60.288 50.000 0.00 0.00 40.46 4.85
2231 2920 7.137490 TCATTCTCTATGCAAACTGACAAAG 57.863 36.000 0.00 0.00 34.06 2.77
2236 2925 7.362315 CCAATGTTCATTCTCTATGCAAACTGA 60.362 37.037 0.00 0.00 34.06 3.41
2240 2929 5.185442 TGCCAATGTTCATTCTCTATGCAAA 59.815 36.000 0.00 0.00 34.06 3.68
2246 2935 6.417258 TCAGATTGCCAATGTTCATTCTCTA 58.583 36.000 0.00 0.00 0.00 2.43
2414 3613 5.382573 TTGAAATTGCAAGTACAAAACGC 57.617 34.783 4.94 0.00 32.27 4.84
2566 3765 4.323868 GGCCCTGGTCCTTGAATCTATATC 60.324 50.000 0.00 0.00 0.00 1.63
2569 3768 1.777272 GGCCCTGGTCCTTGAATCTAT 59.223 52.381 0.00 0.00 0.00 1.98
2673 3872 5.732185 CGTTTTCCAAATTTGAACTTGCAAC 59.268 36.000 19.86 10.33 0.00 4.17
2691 3890 9.302345 TCAAGACTCAATACTCATATCGTTTTC 57.698 33.333 0.00 0.00 0.00 2.29
2810 4009 5.729510 TGGATATGTCGTCAAACTGATTGA 58.270 37.500 0.00 0.00 45.71 2.57
2828 4027 9.613428 CCGCCAGAATAGATAAATATTTGGATA 57.387 33.333 11.05 1.44 31.71 2.59
2869 4068 4.752604 GTCTCTCTCTGGACCTTTCAAAAC 59.247 45.833 0.00 0.00 0.00 2.43
2874 4073 3.513515 ACATGTCTCTCTCTGGACCTTTC 59.486 47.826 0.00 0.00 0.00 2.62
2913 4112 7.284820 TCCAATGATCTGATGCTGATAGAAAA 58.715 34.615 0.00 0.00 0.00 2.29
2940 4139 6.657875 TGATCTGAGTCTCAGTCTCTCATAA 58.342 40.000 25.68 7.09 44.58 1.90
2942 4141 5.114764 TGATCTGAGTCTCAGTCTCTCAT 57.885 43.478 25.68 13.15 44.58 2.90
2943 4142 4.566426 TGATCTGAGTCTCAGTCTCTCA 57.434 45.455 25.68 20.13 44.58 3.27
2944 4143 5.357878 ACAATGATCTGAGTCTCAGTCTCTC 59.642 44.000 25.68 18.33 44.58 3.20
2946 4145 5.581126 ACAATGATCTGAGTCTCAGTCTC 57.419 43.478 25.68 22.22 44.58 3.36
2947 4146 7.658525 AATACAATGATCTGAGTCTCAGTCT 57.341 36.000 25.68 16.13 44.58 3.24
2948 4147 9.624697 GATAATACAATGATCTGAGTCTCAGTC 57.375 37.037 25.68 21.41 44.58 3.51
2949 4148 9.140874 TGATAATACAATGATCTGAGTCTCAGT 57.859 33.333 25.68 15.14 44.58 3.41
2950 4149 9.628746 CTGATAATACAATGATCTGAGTCTCAG 57.371 37.037 21.95 21.95 45.59 3.35
2951 4150 8.087136 GCTGATAATACAATGATCTGAGTCTCA 58.913 37.037 1.78 1.78 0.00 3.27
2952 4151 8.087136 TGCTGATAATACAATGATCTGAGTCTC 58.913 37.037 0.00 0.00 0.00 3.36
2954 4153 8.774890 ATGCTGATAATACAATGATCTGAGTC 57.225 34.615 0.00 0.00 0.00 3.36
2955 4154 8.373220 TGATGCTGATAATACAATGATCTGAGT 58.627 33.333 0.00 0.00 0.00 3.41
2956 4155 8.773404 TGATGCTGATAATACAATGATCTGAG 57.227 34.615 0.00 0.00 0.00 3.35
2957 4156 8.591072 TCTGATGCTGATAATACAATGATCTGA 58.409 33.333 0.00 0.00 0.00 3.27
2958 4157 8.773404 TCTGATGCTGATAATACAATGATCTG 57.227 34.615 0.00 0.00 0.00 2.90
2959 4158 9.602568 GATCTGATGCTGATAATACAATGATCT 57.397 33.333 0.00 0.00 0.00 2.75
2960 4159 9.379791 TGATCTGATGCTGATAATACAATGATC 57.620 33.333 0.00 0.00 0.00 2.92
2961 4160 9.907229 ATGATCTGATGCTGATAATACAATGAT 57.093 29.630 0.00 0.00 0.00 2.45
2962 4161 9.734984 AATGATCTGATGCTGATAATACAATGA 57.265 29.630 0.00 0.00 0.00 2.57
2963 4162 9.774742 CAATGATCTGATGCTGATAATACAATG 57.225 33.333 0.00 0.00 0.00 2.82
2964 4163 8.957466 CCAATGATCTGATGCTGATAATACAAT 58.043 33.333 0.00 0.00 0.00 2.71
2965 4164 8.158789 TCCAATGATCTGATGCTGATAATACAA 58.841 33.333 0.00 0.00 0.00 2.41
2966 4165 7.682628 TCCAATGATCTGATGCTGATAATACA 58.317 34.615 0.00 0.00 0.00 2.29
2967 4166 8.734218 ATCCAATGATCTGATGCTGATAATAC 57.266 34.615 0.00 0.00 0.00 1.89
2968 4167 8.959705 GATCCAATGATCTGATGCTGATAATA 57.040 34.615 0.00 0.00 43.44 0.98
2969 4168 7.867305 GATCCAATGATCTGATGCTGATAAT 57.133 36.000 0.00 0.00 43.44 1.28
2980 4179 8.797374 GCTGATGCTGATAGATCCAATGATCTG 61.797 44.444 13.85 0.56 45.29 2.90
2981 4180 6.854051 GCTGATGCTGATAGATCCAATGATCT 60.854 42.308 9.76 9.76 46.28 2.75
2982 4181 5.294799 GCTGATGCTGATAGATCCAATGATC 59.705 44.000 0.00 0.00 40.87 2.92
2983 4182 5.186942 GCTGATGCTGATAGATCCAATGAT 58.813 41.667 0.00 0.00 36.03 2.45
2984 4183 4.041198 TGCTGATGCTGATAGATCCAATGA 59.959 41.667 0.00 0.00 40.48 2.57
2985 4184 4.324267 TGCTGATGCTGATAGATCCAATG 58.676 43.478 0.00 0.00 40.48 2.82
2986 4185 4.635699 TGCTGATGCTGATAGATCCAAT 57.364 40.909 0.00 0.00 40.48 3.16
2987 4186 4.041198 TGATGCTGATGCTGATAGATCCAA 59.959 41.667 0.00 0.00 40.48 3.53
2988 4187 3.581332 TGATGCTGATGCTGATAGATCCA 59.419 43.478 0.00 0.00 40.48 3.41
2989 4188 4.081586 TCTGATGCTGATGCTGATAGATCC 60.082 45.833 0.00 0.00 40.48 3.36
2990 4189 4.865925 GTCTGATGCTGATGCTGATAGATC 59.134 45.833 0.00 0.00 40.48 2.75
2991 4190 4.322877 GGTCTGATGCTGATGCTGATAGAT 60.323 45.833 0.00 0.00 40.48 1.98
2992 4191 3.006644 GGTCTGATGCTGATGCTGATAGA 59.993 47.826 0.00 0.00 40.48 1.98
2993 4192 3.244112 TGGTCTGATGCTGATGCTGATAG 60.244 47.826 0.00 0.00 40.48 2.08
2994 4193 2.701951 TGGTCTGATGCTGATGCTGATA 59.298 45.455 0.00 0.00 40.48 2.15
2995 4194 1.489230 TGGTCTGATGCTGATGCTGAT 59.511 47.619 0.00 0.00 40.48 2.90
2996 4195 0.906775 TGGTCTGATGCTGATGCTGA 59.093 50.000 0.00 0.00 40.48 4.26
2997 4196 1.968704 ATGGTCTGATGCTGATGCTG 58.031 50.000 0.00 0.00 40.48 4.41
2998 4197 2.730934 AATGGTCTGATGCTGATGCT 57.269 45.000 0.00 0.00 40.48 3.79
2999 4198 2.950309 AGAAATGGTCTGATGCTGATGC 59.050 45.455 0.00 0.00 34.29 3.91
3000 4199 5.120363 CGATAGAAATGGTCTGATGCTGATG 59.880 44.000 0.00 0.00 37.12 3.07
3001 4200 5.011431 TCGATAGAAATGGTCTGATGCTGAT 59.989 40.000 0.00 0.00 46.15 2.90
3002 4201 4.342092 TCGATAGAAATGGTCTGATGCTGA 59.658 41.667 0.00 0.00 46.15 4.26
3003 4202 4.625028 TCGATAGAAATGGTCTGATGCTG 58.375 43.478 0.00 0.00 46.15 4.41
3004 4203 4.944619 TCGATAGAAATGGTCTGATGCT 57.055 40.909 0.00 0.00 46.15 3.79
3017 4216 7.392673 AGTACAAAAGTACAGAGGTCGATAGAA 59.607 37.037 8.32 0.00 38.47 2.10
3018 4217 6.883217 AGTACAAAAGTACAGAGGTCGATAGA 59.117 38.462 8.32 0.00 35.95 1.98
3019 4218 6.967767 CAGTACAAAAGTACAGAGGTCGATAG 59.032 42.308 8.32 0.00 32.56 2.08
3056 4255 6.121613 ACGTAGATGACTACTCAAGTAAGC 57.878 41.667 0.00 0.00 44.65 3.09
3110 4313 7.731054 AGTTTGTAAACTCTCAGTCTCTCATT 58.269 34.615 4.25 0.00 45.65 2.57
3324 4534 3.371168 ACACACGTGCATTTTCATTGTC 58.629 40.909 17.22 0.00 0.00 3.18
3411 4621 2.052237 GAACACAACCACGCAGCG 60.052 61.111 14.82 14.82 0.00 5.18
3448 4658 2.198827 TGGCTTTCGTTCATGTCCAT 57.801 45.000 0.00 0.00 0.00 3.41
3469 4679 9.890629 TGAGCTCTCACTTATTTGTACATAAAT 57.109 29.630 16.19 0.00 34.14 1.40
3656 4870 4.406456 AGGACAGATACCTAGCTCATCAG 58.594 47.826 0.00 0.00 35.84 2.90
3696 4910 6.602803 TGCAAGAAATTCTATTGTGCCAGATA 59.397 34.615 13.00 0.00 0.00 1.98
3845 5096 6.597832 AAATGTGAATTGATCGGGGTTTTA 57.402 33.333 0.00 0.00 0.00 1.52
3850 5101 4.400884 TGGTAAAATGTGAATTGATCGGGG 59.599 41.667 0.00 0.00 0.00 5.73
3852 5103 7.809331 CCATATGGTAAAATGTGAATTGATCGG 59.191 37.037 14.09 0.00 0.00 4.18
3912 5167 1.077265 CAGCCCCCAGTCACCAATT 59.923 57.895 0.00 0.00 0.00 2.32
4037 5298 9.082313 AGTTGACAAAAATGTTCAGATAATCCT 57.918 29.630 0.00 0.00 0.00 3.24
4108 5369 1.002430 CAAGACTGGTAAGCAGCTCCA 59.998 52.381 0.00 0.00 0.00 3.86
4132 5393 1.515521 GCGGACCTTCAAACCACCTG 61.516 60.000 0.00 0.00 0.00 4.00
4265 5541 2.100916 CCACAGTACCCTTCTCATACCG 59.899 54.545 0.00 0.00 0.00 4.02
4382 5658 6.040278 TGAGCTAAGATCTCATACTTCACCAG 59.960 42.308 0.00 0.00 35.81 4.00
4585 5865 8.549548 CAGATAATCAGACTCACAAAATAGCAG 58.450 37.037 0.00 0.00 0.00 4.24
4600 5880 8.927411 TCCTCATGTTGTAATCAGATAATCAGA 58.073 33.333 0.00 0.00 0.00 3.27
4601 5881 9.551734 TTCCTCATGTTGTAATCAGATAATCAG 57.448 33.333 0.00 0.00 0.00 2.90
4602 5882 9.330063 GTTCCTCATGTTGTAATCAGATAATCA 57.670 33.333 0.00 0.00 0.00 2.57
4603 5883 9.330063 TGTTCCTCATGTTGTAATCAGATAATC 57.670 33.333 0.00 0.00 0.00 1.75
4604 5884 9.857656 ATGTTCCTCATGTTGTAATCAGATAAT 57.142 29.630 0.00 0.00 35.19 1.28
4605 5885 9.112725 CATGTTCCTCATGTTGTAATCAGATAA 57.887 33.333 0.00 0.00 46.18 1.75
4606 5886 8.667076 CATGTTCCTCATGTTGTAATCAGATA 57.333 34.615 0.00 0.00 46.18 1.98
4607 5887 7.563888 CATGTTCCTCATGTTGTAATCAGAT 57.436 36.000 0.00 0.00 46.18 2.90
4624 5904 3.006752 TCAAATGGAAGGTTGCATGTTCC 59.993 43.478 13.01 13.01 39.28 3.62
4628 5908 3.663995 TGTCAAATGGAAGGTTGCATG 57.336 42.857 0.00 0.00 39.28 4.06
4651 5931 7.947890 AGTCAAATGGTAGGTAATCCTCAAAAA 59.052 33.333 0.00 0.00 43.94 1.94
4652 5932 7.466804 AGTCAAATGGTAGGTAATCCTCAAAA 58.533 34.615 0.00 0.00 43.94 2.44
4653 5933 7.027874 AGTCAAATGGTAGGTAATCCTCAAA 57.972 36.000 0.00 0.00 43.94 2.69
4654 5934 6.636454 AGTCAAATGGTAGGTAATCCTCAA 57.364 37.500 0.00 0.00 43.94 3.02
4655 5935 6.636454 AAGTCAAATGGTAGGTAATCCTCA 57.364 37.500 0.00 0.00 43.94 3.86
4656 5936 6.183360 GCAAAGTCAAATGGTAGGTAATCCTC 60.183 42.308 0.00 0.00 43.94 3.71
4658 5938 5.163550 GGCAAAGTCAAATGGTAGGTAATCC 60.164 44.000 0.00 0.00 0.00 3.01
4659 5939 5.417580 TGGCAAAGTCAAATGGTAGGTAATC 59.582 40.000 0.00 0.00 0.00 1.75
4660 5940 5.185056 GTGGCAAAGTCAAATGGTAGGTAAT 59.815 40.000 0.00 0.00 0.00 1.89
4661 5941 4.521256 GTGGCAAAGTCAAATGGTAGGTAA 59.479 41.667 0.00 0.00 0.00 2.85
4662 5942 4.076394 GTGGCAAAGTCAAATGGTAGGTA 58.924 43.478 0.00 0.00 0.00 3.08
4663 5943 2.890945 GTGGCAAAGTCAAATGGTAGGT 59.109 45.455 0.00 0.00 0.00 3.08
4664 5944 3.057315 CAGTGGCAAAGTCAAATGGTAGG 60.057 47.826 0.00 0.00 0.00 3.18
4665 5945 3.057315 CCAGTGGCAAAGTCAAATGGTAG 60.057 47.826 0.00 0.00 0.00 3.18
4666 5946 2.890311 CCAGTGGCAAAGTCAAATGGTA 59.110 45.455 0.00 0.00 0.00 3.25
4667 5947 1.688197 CCAGTGGCAAAGTCAAATGGT 59.312 47.619 0.00 0.00 0.00 3.55
4668 5948 1.962807 TCCAGTGGCAAAGTCAAATGG 59.037 47.619 3.51 0.00 30.49 3.16
4669 5949 2.608752 GCTCCAGTGGCAAAGTCAAATG 60.609 50.000 3.51 0.00 0.00 2.32
4670 5950 1.615392 GCTCCAGTGGCAAAGTCAAAT 59.385 47.619 3.51 0.00 0.00 2.32
4671 5951 1.032014 GCTCCAGTGGCAAAGTCAAA 58.968 50.000 3.51 0.00 0.00 2.69
4672 5952 0.823356 GGCTCCAGTGGCAAAGTCAA 60.823 55.000 3.51 0.00 0.00 3.18
4673 5953 1.228245 GGCTCCAGTGGCAAAGTCA 60.228 57.895 3.51 0.00 0.00 3.41
4674 5954 1.073897 AGGCTCCAGTGGCAAAGTC 59.926 57.895 3.51 0.00 34.73 3.01
4675 5955 1.228367 CAGGCTCCAGTGGCAAAGT 60.228 57.895 3.51 0.00 34.73 2.66
4676 5956 2.633509 GCAGGCTCCAGTGGCAAAG 61.634 63.158 3.51 0.00 34.73 2.77
4677 5957 2.598394 GCAGGCTCCAGTGGCAAA 60.598 61.111 3.51 0.00 34.73 3.68
4681 5961 4.421515 CTGGGCAGGCTCCAGTGG 62.422 72.222 12.89 1.40 44.97 4.00
4699 5979 2.893489 GGATTGGGCTTTTCACTCAAGT 59.107 45.455 0.00 0.00 0.00 3.16
4703 5983 5.921962 AATTAGGATTGGGCTTTTCACTC 57.078 39.130 0.00 0.00 0.00 3.51
4704 5984 5.046376 CCAAATTAGGATTGGGCTTTTCACT 60.046 40.000 0.00 0.00 42.95 3.41
4705 5985 5.178061 CCAAATTAGGATTGGGCTTTTCAC 58.822 41.667 0.00 0.00 42.95 3.18
4706 5986 5.419239 CCAAATTAGGATTGGGCTTTTCA 57.581 39.130 0.00 0.00 42.95 2.69
4826 6120 1.882623 GGGTTCTTTCTGGCTGTGAAG 59.117 52.381 0.00 0.00 0.00 3.02
4832 6126 1.003233 GCTCGGGTTCTTTCTGGCT 60.003 57.895 0.00 0.00 0.00 4.75
4908 6202 0.914417 GATGGGAGGTGGTGGAGGAA 60.914 60.000 0.00 0.00 0.00 3.36
4925 6219 2.609920 GGGAGGACGGGAGGAGAT 59.390 66.667 0.00 0.00 0.00 2.75
4932 6226 2.448542 ATGGATGGGGAGGACGGG 60.449 66.667 0.00 0.00 0.00 5.28
4935 6229 1.055040 CAGAGATGGATGGGGAGGAC 58.945 60.000 0.00 0.00 0.00 3.85


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

AutoCloner maintained by Alex Coulton.