Multiple sequence alignment - TraesCS1D01G317700

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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 TraesCS1D01G317700 chr1D 100.000 2570 0 0 1 2570 412506222 412508791 0.000000e+00 4747.0
1 TraesCS1D01G317700 chr1D 86.935 1194 119 21 984 2171 412642213 412643375 0.000000e+00 1306.0
2 TraesCS1D01G317700 chr1D 86.935 1194 119 21 984 2171 412746191 412747353 0.000000e+00 1306.0
3 TraesCS1D01G317700 chr1D 86.935 1194 119 21 984 2171 412763354 412764516 0.000000e+00 1306.0
4 TraesCS1D01G317700 chr1D 86.880 1189 121 18 1001 2184 412660486 412661644 0.000000e+00 1299.0
5 TraesCS1D01G317700 chr1D 87.511 1145 114 16 1042 2184 412814479 412815596 0.000000e+00 1295.0
6 TraesCS1D01G317700 chr1D 86.869 1188 119 17 1001 2184 412897768 412898922 0.000000e+00 1295.0
7 TraesCS1D01G317700 chr1D 87.072 1168 117 16 1018 2184 412684094 412685228 0.000000e+00 1290.0
8 TraesCS1D01G317700 chr1D 85.190 736 94 6 1449 2184 412855226 412855946 0.000000e+00 741.0
9 TraesCS1D01G317700 chr1D 100.000 330 0 0 2855 3184 412509076 412509405 7.550000e-171 610.0
10 TraesCS1D01G317700 chr1B 93.931 2455 92 23 2 2456 556107147 556109544 0.000000e+00 3655.0
11 TraesCS1D01G317700 chr1B 87.203 1180 111 21 999 2171 556264816 556265962 0.000000e+00 1306.0
12 TraesCS1D01G317700 chr1B 86.588 1193 120 21 999 2184 556251421 556252580 0.000000e+00 1280.0
13 TraesCS1D01G317700 chr1A 93.209 2459 105 27 3 2446 509035640 509038051 0.000000e+00 3559.0
14 TraesCS1D01G317700 chr1A 86.824 1184 114 21 999 2171 509703516 509702364 0.000000e+00 1284.0
15 TraesCS1D01G317700 chr1A 87.005 1162 112 20 1018 2171 509776743 509775613 0.000000e+00 1273.0
16 TraesCS1D01G317700 chr1A 86.418 1178 119 20 999 2171 509914782 509913641 0.000000e+00 1251.0
17 TraesCS1D01G317700 chr1A 86.172 1186 116 28 990 2171 509493630 509492489 0.000000e+00 1238.0
18 TraesCS1D01G317700 chr1A 86.088 1186 118 28 990 2171 510185157 510186299 0.000000e+00 1232.0
19 TraesCS1D01G317700 chr1A 93.750 64 4 0 2470 2533 509038237 509038300 2.610000e-16 97.1
20 TraesCS1D01G317700 chr7D 95.131 267 11 2 2919 3184 137853666 137853931 1.370000e-113 420.0
21 TraesCS1D01G317700 chr7D 98.675 151 2 0 3034 3184 137853683 137853533 5.240000e-68 268.0
22 TraesCS1D01G317700 chr7D 100.000 62 0 0 2886 2947 137853398 137853459 7.220000e-22 115.0
23 TraesCS1D01G317700 chr6B 92.350 183 11 2 3002 3184 717425951 717426130 1.130000e-64 257.0
24 TraesCS1D01G317700 chr6B 87.952 83 7 2 2457 2539 153401371 153401292 9.400000e-16 95.3
25 TraesCS1D01G317700 chr7A 93.671 158 9 1 3027 3184 13388473 13388317 5.310000e-58 235.0
26 TraesCS1D01G317700 chr4A 90.476 147 11 2 2973 3117 622057734 622057879 1.170000e-44 191.0
27 TraesCS1D01G317700 chr4A 85.882 85 9 3 2457 2539 6819431 6819348 1.570000e-13 87.9
28 TraesCS1D01G317700 chr4A 94.444 36 1 1 2912 2946 622057622 622057657 2.000000e-03 54.7
29 TraesCS1D01G317700 chr7B 82.301 113 14 6 2447 2556 319591794 319591685 3.380000e-15 93.5
30 TraesCS1D01G317700 chr5D 86.747 83 10 1 2457 2539 446679054 446678973 1.220000e-14 91.6
31 TraesCS1D01G317700 chr5D 86.585 82 11 0 2458 2539 499087350 499087431 1.220000e-14 91.6
32 TraesCS1D01G317700 chr3B 87.805 82 5 4 2457 2535 606204992 606205071 1.220000e-14 91.6
33 TraesCS1D01G317700 chr6D 87.500 80 6 4 2457 2535 309728298 309728222 4.370000e-14 89.8
34 TraesCS1D01G317700 chr2D 84.884 86 9 4 2457 2539 441772464 441772380 2.040000e-12 84.2


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 TraesCS1D01G317700 chr1D 412506222 412509405 3183 False 2678.50 4747 100.0000 1 3184 2 chr1D.!!$F9 3183
1 TraesCS1D01G317700 chr1D 412642213 412643375 1162 False 1306.00 1306 86.9350 984 2171 1 chr1D.!!$F1 1187
2 TraesCS1D01G317700 chr1D 412746191 412747353 1162 False 1306.00 1306 86.9350 984 2171 1 chr1D.!!$F4 1187
3 TraesCS1D01G317700 chr1D 412763354 412764516 1162 False 1306.00 1306 86.9350 984 2171 1 chr1D.!!$F5 1187
4 TraesCS1D01G317700 chr1D 412660486 412661644 1158 False 1299.00 1299 86.8800 1001 2184 1 chr1D.!!$F2 1183
5 TraesCS1D01G317700 chr1D 412814479 412815596 1117 False 1295.00 1295 87.5110 1042 2184 1 chr1D.!!$F6 1142
6 TraesCS1D01G317700 chr1D 412897768 412898922 1154 False 1295.00 1295 86.8690 1001 2184 1 chr1D.!!$F8 1183
7 TraesCS1D01G317700 chr1D 412684094 412685228 1134 False 1290.00 1290 87.0720 1018 2184 1 chr1D.!!$F3 1166
8 TraesCS1D01G317700 chr1D 412855226 412855946 720 False 741.00 741 85.1900 1449 2184 1 chr1D.!!$F7 735
9 TraesCS1D01G317700 chr1B 556107147 556109544 2397 False 3655.00 3655 93.9310 2 2456 1 chr1B.!!$F1 2454
10 TraesCS1D01G317700 chr1B 556264816 556265962 1146 False 1306.00 1306 87.2030 999 2171 1 chr1B.!!$F3 1172
11 TraesCS1D01G317700 chr1B 556251421 556252580 1159 False 1280.00 1280 86.5880 999 2184 1 chr1B.!!$F2 1185
12 TraesCS1D01G317700 chr1A 509035640 509038300 2660 False 1828.05 3559 93.4795 3 2533 2 chr1A.!!$F2 2530
13 TraesCS1D01G317700 chr1A 509702364 509703516 1152 True 1284.00 1284 86.8240 999 2171 1 chr1A.!!$R2 1172
14 TraesCS1D01G317700 chr1A 509775613 509776743 1130 True 1273.00 1273 87.0050 1018 2171 1 chr1A.!!$R3 1153
15 TraesCS1D01G317700 chr1A 509913641 509914782 1141 True 1251.00 1251 86.4180 999 2171 1 chr1A.!!$R4 1172
16 TraesCS1D01G317700 chr1A 509492489 509493630 1141 True 1238.00 1238 86.1720 990 2171 1 chr1A.!!$R1 1181
17 TraesCS1D01G317700 chr1A 510185157 510186299 1142 False 1232.00 1232 86.0880 990 2171 1 chr1A.!!$F1 1181
18 TraesCS1D01G317700 chr7D 137853398 137853931 533 False 267.50 420 97.5655 2886 3184 2 chr7D.!!$F1 298

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
434 448 0.095935 CCTGAAATCGCGAGCACAAG 59.904 55.0 16.66 8.23 0.0 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2425 2482 0.623723 TATTTGGGACCCACTGGAGC 59.376 55.0 14.59 0.0 30.78 4.7 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
31 32 2.301870 ACTTCGGTAATGAGCCTCACAA 59.698 45.455 0.00 0.00 0.00 3.33
45 46 2.478134 CCTCACAAGAGAAAGAAGCACG 59.522 50.000 0.00 0.00 44.98 5.34
74 75 0.746563 AACATTGCCCGACATACCCG 60.747 55.000 0.00 0.00 0.00 5.28
83 84 0.099968 CGACATACCCGTCACACGAT 59.900 55.000 0.00 0.00 46.05 3.73
87 88 2.492881 ACATACCCGTCACACGATAACA 59.507 45.455 0.00 0.00 46.05 2.41
93 94 1.266842 CGTCACACGATAACATTGCCG 60.267 52.381 0.00 0.00 46.05 5.69
122 123 0.319083 ACCGCGACATAACAACTCCA 59.681 50.000 8.23 0.00 0.00 3.86
132 133 4.272504 ACATAACAACTCCAACTTCACACG 59.727 41.667 0.00 0.00 0.00 4.49
138 144 1.195448 CTCCAACTTCACACGACATGC 59.805 52.381 0.00 0.00 0.00 4.06
141 147 0.944386 AACTTCACACGACATGCCAC 59.056 50.000 0.00 0.00 0.00 5.01
144 150 0.179059 TTCACACGACATGCCACACT 60.179 50.000 0.00 0.00 0.00 3.55
148 154 1.301716 ACGACATGCCACACTGTCC 60.302 57.895 0.00 0.00 38.83 4.02
149 155 2.382746 CGACATGCCACACTGTCCG 61.383 63.158 0.00 0.00 38.83 4.79
150 156 2.669569 ACATGCCACACTGTCCGC 60.670 61.111 0.00 0.00 0.00 5.54
160 166 4.421479 CTGTCCGCGACGAAGGCT 62.421 66.667 8.23 0.00 34.95 4.58
161 167 3.916392 CTGTCCGCGACGAAGGCTT 62.916 63.158 8.23 0.00 34.95 4.35
162 168 3.479269 GTCCGCGACGAAGGCTTG 61.479 66.667 8.23 0.00 0.00 4.01
163 169 4.735132 TCCGCGACGAAGGCTTGG 62.735 66.667 8.23 5.97 0.00 3.61
208 222 2.778679 GTCATTGCCGCACGAGTC 59.221 61.111 0.00 0.00 0.00 3.36
241 255 6.126409 TCCACCACTATCTTGTTTTTCACTT 58.874 36.000 0.00 0.00 0.00 3.16
242 256 6.262273 TCCACCACTATCTTGTTTTTCACTTC 59.738 38.462 0.00 0.00 0.00 3.01
297 311 6.054941 CACCCCCTATAATTTTGGAAAATGC 58.945 40.000 0.00 0.00 38.53 3.56
363 377 2.462456 ACCGATTGATCCATCATCCG 57.538 50.000 7.49 0.00 36.56 4.18
364 378 1.970640 ACCGATTGATCCATCATCCGA 59.029 47.619 7.49 0.00 36.56 4.55
413 427 1.865788 GCTTGAAAGATGCGTGCCCA 61.866 55.000 0.00 0.00 0.00 5.36
429 443 2.464459 CCACCCTGAAATCGCGAGC 61.464 63.158 16.66 7.23 0.00 5.03
432 446 1.741401 CCCTGAAATCGCGAGCACA 60.741 57.895 16.66 12.84 0.00 4.57
434 448 0.095935 CCTGAAATCGCGAGCACAAG 59.904 55.000 16.66 8.23 0.00 3.16
455 469 3.559238 CGTAGGTACGTACACAAACCT 57.441 47.619 26.02 17.98 44.13 3.50
595 609 7.710044 TCTCACTCCGTGACTAGTAATAACTAG 59.290 40.741 10.31 10.31 44.61 2.57
612 626 4.662468 ACTAGGCTGATGTGATGTAGTG 57.338 45.455 0.00 0.00 0.00 2.74
875 889 0.962356 GGTTCCATCCACCAGCACAG 60.962 60.000 0.00 0.00 34.04 3.66
972 986 1.066587 CCTAGCGGAGAAGGAAGCG 59.933 63.158 0.00 0.00 34.62 4.68
973 987 1.066587 CTAGCGGAGAAGGAAGCGG 59.933 63.158 0.00 0.00 34.34 5.52
974 988 1.379443 TAGCGGAGAAGGAAGCGGA 60.379 57.895 0.00 0.00 34.34 5.54
975 989 1.384989 TAGCGGAGAAGGAAGCGGAG 61.385 60.000 0.00 0.00 34.34 4.63
976 990 2.711922 GCGGAGAAGGAAGCGGAGA 61.712 63.158 0.00 0.00 0.00 3.71
977 991 2.022240 GCGGAGAAGGAAGCGGAGAT 62.022 60.000 0.00 0.00 0.00 2.75
978 992 1.319541 CGGAGAAGGAAGCGGAGATA 58.680 55.000 0.00 0.00 0.00 1.98
979 993 1.268352 CGGAGAAGGAAGCGGAGATAG 59.732 57.143 0.00 0.00 0.00 2.08
980 994 2.312390 GGAGAAGGAAGCGGAGATAGT 58.688 52.381 0.00 0.00 0.00 2.12
981 995 2.696187 GGAGAAGGAAGCGGAGATAGTT 59.304 50.000 0.00 0.00 0.00 2.24
982 996 3.491792 GGAGAAGGAAGCGGAGATAGTTG 60.492 52.174 0.00 0.00 0.00 3.16
1015 1029 2.123854 AGATGGCGTCGAGGGCTA 60.124 61.111 28.39 17.06 0.00 3.93
1149 1166 2.031163 GTGAGGGCGCTGTCACTT 59.969 61.111 25.79 0.56 40.05 3.16
1264 1298 3.705638 CCGTCGTGTGCAGTGCAG 61.706 66.667 20.42 7.34 40.08 4.41
1265 1299 2.961721 CGTCGTGTGCAGTGCAGT 60.962 61.111 20.42 0.00 40.08 4.40
1266 1300 2.628106 GTCGTGTGCAGTGCAGTG 59.372 61.111 20.42 17.56 40.08 3.66
1267 1301 3.271586 TCGTGTGCAGTGCAGTGC 61.272 61.111 34.65 34.65 40.08 4.40
2288 2343 4.292306 TCCTTTTAGATTGCTTCCTCCCTT 59.708 41.667 0.00 0.00 0.00 3.95
2451 2508 0.035820 TGGGTCCCAAATAGCGTGAC 60.036 55.000 8.65 0.00 0.00 3.67
2488 2707 7.067008 TCCGGAAAAACTTCCATTCTATTCATC 59.933 37.037 0.00 0.00 41.16 2.92
2491 2710 9.794685 GGAAAAACTTCCATTCTATTCATCTTC 57.205 33.333 0.00 0.00 40.79 2.87
2547 2766 7.903995 ATAAAAATTACAACCATGCAAGTGG 57.096 32.000 4.73 4.73 45.04 4.00
2548 2767 3.959535 AATTACAACCATGCAAGTGGG 57.040 42.857 11.02 3.63 43.77 4.61
2549 2768 0.965439 TTACAACCATGCAAGTGGGC 59.035 50.000 11.02 0.00 43.77 5.36
2550 2769 0.897863 TACAACCATGCAAGTGGGCC 60.898 55.000 11.02 0.00 43.77 5.80
2551 2770 2.200930 AACCATGCAAGTGGGCCA 59.799 55.556 0.00 0.00 43.77 5.36
2552 2771 2.209315 AACCATGCAAGTGGGCCAC 61.209 57.895 29.32 29.32 43.77 5.01
2553 2772 3.384532 CCATGCAAGTGGGCCACC 61.385 66.667 32.30 18.08 34.49 4.61
2554 2773 2.283388 CATGCAAGTGGGCCACCT 60.283 61.111 32.30 18.55 37.76 4.00
2555 2774 1.001020 CATGCAAGTGGGCCACCTA 60.001 57.895 32.30 16.64 37.76 3.08
2556 2775 0.611618 CATGCAAGTGGGCCACCTAA 60.612 55.000 32.30 16.45 37.76 2.69
2557 2776 0.114168 ATGCAAGTGGGCCACCTAAA 59.886 50.000 32.30 16.83 37.76 1.85
2558 2777 0.105964 TGCAAGTGGGCCACCTAAAA 60.106 50.000 32.30 12.51 37.76 1.52
2559 2778 1.266178 GCAAGTGGGCCACCTAAAAT 58.734 50.000 32.30 10.75 37.76 1.82
2560 2779 1.623311 GCAAGTGGGCCACCTAAAATT 59.377 47.619 32.30 16.47 37.76 1.82
2561 2780 2.612721 GCAAGTGGGCCACCTAAAATTG 60.613 50.000 32.30 26.71 37.76 2.32
2562 2781 2.896685 CAAGTGGGCCACCTAAAATTGA 59.103 45.455 32.30 0.00 37.76 2.57
2563 2782 2.525368 AGTGGGCCACCTAAAATTGAC 58.475 47.619 32.30 3.44 37.76 3.18
2564 2783 2.110011 AGTGGGCCACCTAAAATTGACT 59.890 45.455 32.30 6.95 37.76 3.41
2565 2784 2.492088 GTGGGCCACCTAAAATTGACTC 59.508 50.000 26.51 0.00 37.76 3.36
2566 2785 2.378547 TGGGCCACCTAAAATTGACTCT 59.621 45.455 0.00 0.00 37.76 3.24
2567 2786 3.017442 GGGCCACCTAAAATTGACTCTC 58.983 50.000 4.39 0.00 0.00 3.20
2568 2787 3.561313 GGGCCACCTAAAATTGACTCTCA 60.561 47.826 4.39 0.00 0.00 3.27
2569 2788 3.440522 GGCCACCTAAAATTGACTCTCAC 59.559 47.826 0.00 0.00 0.00 3.51
2871 3090 4.929707 ATTTCGGATCGCCCCCGC 62.930 66.667 0.00 0.00 46.10 6.13
3042 3496 0.872021 CTAATCTCCAGCGGCGTGAC 60.872 60.000 9.37 0.00 0.00 3.67
3172 3626 0.394192 GGGACATCATCATCCAGCGA 59.606 55.000 0.00 0.00 36.65 4.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 5.482908 TCTTTCTCTTGTGAGGCTCATTAC 58.517 41.667 21.84 8.62 40.58 1.89
20 21 3.805108 GCTTCTTTCTCTTGTGAGGCTCA 60.805 47.826 14.43 14.43 40.58 4.26
31 32 1.517242 CAAGGCGTGCTTCTTTCTCT 58.483 50.000 0.00 0.00 0.00 3.10
70 71 2.343101 CAATGTTATCGTGTGACGGGT 58.657 47.619 0.00 0.00 42.81 5.28
74 75 1.730064 ACGGCAATGTTATCGTGTGAC 59.270 47.619 0.00 0.00 34.40 3.67
83 84 2.438148 CGACGCGACGGCAATGTTA 61.438 57.895 22.72 0.00 39.92 2.41
113 114 2.676342 GTCGTGTGAAGTTGGAGTTGTT 59.324 45.455 0.00 0.00 0.00 2.83
122 123 0.944386 GTGGCATGTCGTGTGAAGTT 59.056 50.000 0.00 0.00 0.00 2.66
132 133 2.680913 GCGGACAGTGTGGCATGTC 61.681 63.158 0.00 10.52 44.10 3.06
138 144 3.834447 TTCGTCGCGGACAGTGTGG 62.834 63.158 6.13 0.00 32.09 4.17
141 147 2.805353 CCTTCGTCGCGGACAGTG 60.805 66.667 6.13 0.00 32.09 3.66
144 150 3.986006 AAGCCTTCGTCGCGGACA 61.986 61.111 6.13 0.00 32.09 4.02
164 170 4.148825 AGTAAGAGCAGGCCCGCG 62.149 66.667 5.03 0.00 36.85 6.46
165 171 2.512515 CAGTAAGAGCAGGCCCGC 60.513 66.667 1.48 1.48 0.00 6.13
166 172 2.512515 GCAGTAAGAGCAGGCCCG 60.513 66.667 0.00 0.00 0.00 6.13
168 174 1.746991 GTGGCAGTAAGAGCAGGCC 60.747 63.158 0.00 0.00 44.82 5.19
169 175 1.746991 GGTGGCAGTAAGAGCAGGC 60.747 63.158 0.00 0.00 0.00 4.85
170 176 0.254178 ATGGTGGCAGTAAGAGCAGG 59.746 55.000 0.00 0.00 0.00 4.85
173 187 0.108138 ACGATGGTGGCAGTAAGAGC 60.108 55.000 0.00 0.00 0.00 4.09
208 222 0.179111 ATAGTGGTGGATCGTGTGCG 60.179 55.000 0.00 0.00 39.92 5.34
297 311 1.333619 CAACCACACAGGAAAAGTCGG 59.666 52.381 0.00 0.00 41.22 4.79
363 377 7.317390 TCACATGATATGGCATTGCATTATTC 58.683 34.615 4.78 1.43 33.60 1.75
364 378 7.234661 TCACATGATATGGCATTGCATTATT 57.765 32.000 4.78 0.00 33.60 1.40
413 427 1.741770 GTGCTCGCGATTTCAGGGT 60.742 57.895 10.36 0.00 0.00 4.34
455 469 2.882137 TGATACTCGTGCATCATCCGTA 59.118 45.455 0.00 0.00 0.00 4.02
595 609 2.028420 TGCACTACATCACATCAGCC 57.972 50.000 0.00 0.00 0.00 4.85
805 819 2.606587 ATGTGGTGGGCTGTCCTCC 61.607 63.158 12.38 12.38 46.71 4.30
960 974 2.312390 ACTATCTCCGCTTCCTTCTCC 58.688 52.381 0.00 0.00 0.00 3.71
972 986 1.808133 CGCCAGAAGCCAACTATCTCC 60.808 57.143 0.00 0.00 38.78 3.71
973 987 1.134670 ACGCCAGAAGCCAACTATCTC 60.135 52.381 0.00 0.00 38.78 2.75
974 988 0.905357 ACGCCAGAAGCCAACTATCT 59.095 50.000 0.00 0.00 38.78 1.98
975 989 1.009829 CACGCCAGAAGCCAACTATC 58.990 55.000 0.00 0.00 38.78 2.08
976 990 0.324943 ACACGCCAGAAGCCAACTAT 59.675 50.000 0.00 0.00 38.78 2.12
977 991 0.602638 CACACGCCAGAAGCCAACTA 60.603 55.000 0.00 0.00 38.78 2.24
978 992 1.893808 CACACGCCAGAAGCCAACT 60.894 57.895 0.00 0.00 38.78 3.16
979 993 2.639286 CACACGCCAGAAGCCAAC 59.361 61.111 0.00 0.00 38.78 3.77
980 994 2.594303 CCACACGCCAGAAGCCAA 60.594 61.111 0.00 0.00 38.78 4.52
981 995 3.535629 CTCCACACGCCAGAAGCCA 62.536 63.158 0.00 0.00 38.78 4.75
982 996 2.527951 ATCTCCACACGCCAGAAGCC 62.528 60.000 0.00 0.00 38.78 4.35
1015 1029 2.438975 CAGCACCGCCACCATCAT 60.439 61.111 0.00 0.00 0.00 2.45
1074 1091 1.467734 GTCTCGCCGTAGAACTTCTCA 59.532 52.381 0.00 0.00 0.00 3.27
1262 1296 2.670934 GGTCAGGCCACTGCACTG 60.671 66.667 5.01 0.00 44.54 3.66
1263 1297 3.170672 TGGTCAGGCCACTGCACT 61.171 61.111 5.01 0.00 43.61 4.40
1271 1305 1.078143 GACTCACCATGGTCAGGCC 60.078 63.158 20.94 7.68 37.90 5.19
1474 1512 0.831711 TACTCACCAGCCAGACTGCA 60.832 55.000 0.00 0.00 45.78 4.41
2288 2343 0.909610 GGGGTGTGTGAGGGATCAGA 60.910 60.000 0.00 0.00 0.00 3.27
2420 2477 1.524482 GGACCCACTGGAGCATCTC 59.476 63.158 0.00 0.00 33.73 2.75
2425 2482 0.623723 TATTTGGGACCCACTGGAGC 59.376 55.000 14.59 0.00 30.78 4.70
2533 2752 2.208619 TGGCCCACTTGCATGGTTG 61.209 57.895 0.00 0.00 38.16 3.77
2534 2753 2.200930 TGGCCCACTTGCATGGTT 59.799 55.556 0.00 0.00 38.16 3.67
2535 2754 2.601367 GTGGCCCACTTGCATGGT 60.601 61.111 6.63 0.00 38.16 3.55
2536 2755 2.497792 TAGGTGGCCCACTTGCATGG 62.498 60.000 14.71 1.66 39.71 3.66
2537 2756 0.611618 TTAGGTGGCCCACTTGCATG 60.612 55.000 14.71 0.00 34.40 4.06
2538 2757 0.114168 TTTAGGTGGCCCACTTGCAT 59.886 50.000 14.71 0.00 34.40 3.96
2539 2758 0.105964 TTTTAGGTGGCCCACTTGCA 60.106 50.000 14.71 0.00 34.40 4.08
2540 2759 1.266178 ATTTTAGGTGGCCCACTTGC 58.734 50.000 14.71 0.00 34.40 4.01
2541 2760 2.896685 TCAATTTTAGGTGGCCCACTTG 59.103 45.455 14.71 9.27 34.40 3.16
2542 2761 2.897326 GTCAATTTTAGGTGGCCCACTT 59.103 45.455 14.71 9.11 34.40 3.16
2543 2762 2.110011 AGTCAATTTTAGGTGGCCCACT 59.890 45.455 14.71 0.00 34.40 4.00
2544 2763 2.492088 GAGTCAATTTTAGGTGGCCCAC 59.508 50.000 4.93 4.93 0.00 4.61
2545 2764 2.378547 AGAGTCAATTTTAGGTGGCCCA 59.621 45.455 0.00 0.00 0.00 5.36
2546 2765 3.017442 GAGAGTCAATTTTAGGTGGCCC 58.983 50.000 0.00 0.00 0.00 5.80
2547 2766 3.440522 GTGAGAGTCAATTTTAGGTGGCC 59.559 47.826 0.00 0.00 0.00 5.36
2548 2767 4.686839 GTGAGAGTCAATTTTAGGTGGC 57.313 45.455 0.00 0.00 0.00 5.01
2981 3435 1.452651 CGCCTGGGAGTCATGCAAT 60.453 57.895 0.00 0.00 36.92 3.56
3042 3496 1.068472 ACTTCTTAGTGAGACACCGCG 60.068 52.381 0.00 0.00 34.49 6.46


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

AutoCloner maintained by Alex Coulton.