Multiple sequence alignment - TraesCS3A01G006700

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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 TraesCS3A01G006700 chr3A 100.000 3020 0 0 1 3020 7313272 7310253 0.000000e+00 5578.0
1 TraesCS3A01G006700 chr3A 89.409 1794 166 11 469 2255 7386325 7384549 0.000000e+00 2239.0
2 TraesCS3A01G006700 chr3A 84.149 429 42 21 2613 3019 7363909 7363485 2.820000e-105 392.0
3 TraesCS3A01G006700 chr3A 86.533 349 44 3 2255 2603 7384518 7384173 6.110000e-102 381.0
4 TraesCS3A01G006700 chr3A 77.640 161 29 4 294 451 550145046 550144890 1.150000e-14 91.6
5 TraesCS3A01G006700 chr3A 78.289 152 26 4 294 442 690219861 690220008 1.150000e-14 91.6
6 TraesCS3A01G006700 chr3A 75.497 151 30 5 294 441 691401075 691401221 1.940000e-07 67.6
7 TraesCS3A01G006700 chr3B 89.526 1795 159 14 469 2255 4703715 4705488 0.000000e+00 2246.0
8 TraesCS3A01G006700 chr3B 89.365 1796 160 16 469 2255 3805235 3807008 0.000000e+00 2230.0
9 TraesCS3A01G006700 chr3B 92.727 770 38 7 2255 3020 3807039 3807794 0.000000e+00 1096.0
10 TraesCS3A01G006700 chr3B 92.338 770 41 7 2255 3020 4705519 4706274 0.000000e+00 1079.0
11 TraesCS3A01G006700 chr3D 93.033 1507 94 5 753 2255 1658169 1659668 0.000000e+00 2191.0
12 TraesCS3A01G006700 chr3D 93.455 550 33 3 2257 2804 1659701 1660249 0.000000e+00 813.0
13 TraesCS3A01G006700 chr3D 86.376 712 47 19 2 670 1657100 1657804 0.000000e+00 732.0
14 TraesCS3A01G006700 chr3D 89.136 359 32 7 2665 3020 1647737 1648091 9.940000e-120 440.0
15 TraesCS3A01G006700 chr3D 92.237 219 13 4 2802 3020 1660482 1660696 1.050000e-79 307.0
16 TraesCS3A01G006700 chr3D 96.667 60 2 0 1504 1563 1708269 1708328 1.920000e-17 100.0
17 TraesCS3A01G006700 chr6A 79.054 1036 189 20 869 1893 574526099 574525081 0.000000e+00 686.0
18 TraesCS3A01G006700 chr6A 77.848 158 28 4 294 448 588365493 588365340 1.150000e-14 91.6
19 TraesCS3A01G006700 chr6B 79.138 1021 185 19 869 1878 646742446 646741443 0.000000e+00 680.0
20 TraesCS3A01G006700 chr7B 75.758 198 40 6 216 409 468404041 468404234 3.210000e-15 93.5
21 TraesCS3A01G006700 chr4A 77.439 164 29 5 294 453 556629259 556629100 1.150000e-14 91.6
22 TraesCS3A01G006700 chr1A 78.289 152 26 5 294 442 30569762 30569909 1.150000e-14 91.6
23 TraesCS3A01G006700 chr1D 78.676 136 18 11 216 344 240665934 240666065 2.500000e-11 80.5
24 TraesCS3A01G006700 chr2A 77.863 131 26 3 224 351 724421537 724421407 8.980000e-11 78.7
25 TraesCS3A01G006700 chr2D 79.412 102 15 5 94 189 45687457 45687356 1.940000e-07 67.6


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 TraesCS3A01G006700 chr3A 7310253 7313272 3019 True 5578.00 5578 100.00000 1 3020 1 chr3A.!!$R1 3019
1 TraesCS3A01G006700 chr3A 7384173 7386325 2152 True 1310.00 2239 87.97100 469 2603 2 chr3A.!!$R4 2134
2 TraesCS3A01G006700 chr3B 3805235 3807794 2559 False 1663.00 2230 91.04600 469 3020 2 chr3B.!!$F1 2551
3 TraesCS3A01G006700 chr3B 4703715 4706274 2559 False 1662.50 2246 90.93200 469 3020 2 chr3B.!!$F2 2551
4 TraesCS3A01G006700 chr3D 1657100 1660696 3596 False 1010.75 2191 91.27525 2 3020 4 chr3D.!!$F3 3018
5 TraesCS3A01G006700 chr6A 574525081 574526099 1018 True 686.00 686 79.05400 869 1893 1 chr6A.!!$R1 1024
6 TraesCS3A01G006700 chr6B 646741443 646742446 1003 True 680.00 680 79.13800 869 1878 1 chr6B.!!$R1 1009

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
946 1292 1.00534 CAAGAGACAAGCGCTGATCC 58.995 55.0 12.58 6.14 0.0 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2882 3504 0.892755 TCGCATTAACCACCGTCTCT 59.107 50.0 0.0 0.0 0.0 3.1 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 6.421202 GTCTTGTCTAACGAAGGCCTATATTG 59.579 42.308 5.16 0.00 0.00 1.90
81 82 7.837505 TCTTATAGATACGTCGCAAATTGTTG 58.162 34.615 0.00 0.00 37.83 3.33
103 113 4.649674 TGCTATAATACATCCTCCGATCCC 59.350 45.833 0.00 0.00 0.00 3.85
113 123 3.112263 TCCTCCGATCCCAAATAAGTGT 58.888 45.455 0.00 0.00 0.00 3.55
115 125 3.118408 CCTCCGATCCCAAATAAGTGTCA 60.118 47.826 0.00 0.00 0.00 3.58
117 127 3.262151 TCCGATCCCAAATAAGTGTCACA 59.738 43.478 5.62 0.00 0.00 3.58
121 131 3.674997 TCCCAAATAAGTGTCACAGCTC 58.325 45.455 5.62 0.00 0.00 4.09
122 132 3.327757 TCCCAAATAAGTGTCACAGCTCT 59.672 43.478 5.62 0.00 0.00 4.09
125 135 5.122396 CCCAAATAAGTGTCACAGCTCTAAC 59.878 44.000 5.62 0.00 0.00 2.34
135 151 6.144724 GTGTCACAGCTCTAACTAAAGTTGAG 59.855 42.308 5.62 10.51 38.90 3.02
136 152 5.635700 GTCACAGCTCTAACTAAAGTTGAGG 59.364 44.000 16.78 8.95 38.90 3.86
167 183 8.514136 TTAGTTCAAAGTTGTGACACTTTTTG 57.486 30.769 16.81 16.81 43.17 2.44
168 184 6.744112 AGTTCAAAGTTGTGACACTTTTTGA 58.256 32.000 19.43 19.43 43.17 2.69
169 185 7.206687 AGTTCAAAGTTGTGACACTTTTTGAA 58.793 30.769 24.79 24.79 43.17 2.69
170 186 7.872483 AGTTCAAAGTTGTGACACTTTTTGAAT 59.128 29.630 27.77 20.31 43.17 2.57
171 187 7.810766 TCAAAGTTGTGACACTTTTTGAATC 57.189 32.000 20.30 0.00 43.17 2.52
172 188 6.526325 TCAAAGTTGTGACACTTTTTGAATCG 59.474 34.615 20.30 2.73 43.17 3.34
187 205 8.817092 TTTTTGAATCGGAGGGAGTATATTTT 57.183 30.769 0.00 0.00 0.00 1.82
194 212 8.666129 ATCGGAGGGAGTATATTTTATTGAGA 57.334 34.615 0.00 0.00 0.00 3.27
213 231 6.669125 TGAGATTTGGTTCATTGTTTGGAT 57.331 33.333 0.00 0.00 0.00 3.41
217 235 9.657419 GAGATTTGGTTCATTGTTTGGATTAAT 57.343 29.630 0.00 0.00 0.00 1.40
404 448 4.788840 GCTGAAGTGATATGCTTGCATGTC 60.789 45.833 20.40 20.40 0.00 3.06
420 464 5.730550 TGCATGTCGAGAAATAGGTTAGTT 58.269 37.500 0.00 0.00 0.00 2.24
421 465 5.580691 TGCATGTCGAGAAATAGGTTAGTTG 59.419 40.000 0.00 0.00 0.00 3.16
422 466 5.006746 GCATGTCGAGAAATAGGTTAGTTGG 59.993 44.000 0.00 0.00 0.00 3.77
423 467 5.080969 TGTCGAGAAATAGGTTAGTTGGG 57.919 43.478 0.00 0.00 0.00 4.12
424 468 4.081309 TGTCGAGAAATAGGTTAGTTGGGG 60.081 45.833 0.00 0.00 0.00 4.96
432 476 8.823794 AGAAATAGGTTAGTTGGGGCTATATAC 58.176 37.037 0.00 0.00 0.00 1.47
567 611 1.864669 ATTTGCCCGGTGGATTCAAT 58.135 45.000 0.00 0.00 0.00 2.57
657 701 6.713276 TGGTCTTGGAGAAAAATTCGGTATA 58.287 36.000 0.00 0.00 34.02 1.47
658 702 7.343357 TGGTCTTGGAGAAAAATTCGGTATAT 58.657 34.615 0.00 0.00 34.02 0.86
670 714 3.969117 TCGGTATATGTACGTCCACAC 57.031 47.619 0.00 0.00 0.00 3.82
684 734 3.321111 CGTCCACACCTTATGCCTACTAT 59.679 47.826 0.00 0.00 0.00 2.12
686 736 5.564259 CGTCCACACCTTATGCCTACTATAC 60.564 48.000 0.00 0.00 0.00 1.47
687 737 5.303589 GTCCACACCTTATGCCTACTATACA 59.696 44.000 0.00 0.00 0.00 2.29
688 738 5.900699 TCCACACCTTATGCCTACTATACAA 59.099 40.000 0.00 0.00 0.00 2.41
689 739 6.557253 TCCACACCTTATGCCTACTATACAAT 59.443 38.462 0.00 0.00 0.00 2.71
729 1070 7.792374 ATCAACATTATGTGTACCAGATCAC 57.208 36.000 0.00 0.00 41.14 3.06
731 1072 8.073467 TCAACATTATGTGTACCAGATCACTA 57.927 34.615 0.00 0.00 41.14 2.74
733 1074 8.768019 CAACATTATGTGTACCAGATCACTATG 58.232 37.037 0.00 0.00 41.14 2.23
746 1087 9.911788 ACCAGATCACTATGTTTAATTTCATCT 57.088 29.630 0.00 0.00 0.00 2.90
764 1105 8.498054 TTTCATCTAAGATTCTTAGTGCCAAG 57.502 34.615 25.49 13.99 0.00 3.61
820 1163 2.528564 TCTCTTTTGCCCCAAATGAGG 58.471 47.619 22.47 11.62 46.35 3.86
833 1176 4.332819 CCCAAATGAGGAATGACGACTAAC 59.667 45.833 0.00 0.00 0.00 2.34
834 1177 4.332819 CCAAATGAGGAATGACGACTAACC 59.667 45.833 0.00 0.00 0.00 2.85
835 1178 5.178797 CAAATGAGGAATGACGACTAACCT 58.821 41.667 0.00 0.00 0.00 3.50
836 1179 5.422214 AATGAGGAATGACGACTAACCTT 57.578 39.130 0.00 0.00 0.00 3.50
837 1180 4.188247 TGAGGAATGACGACTAACCTTG 57.812 45.455 0.00 0.00 0.00 3.61
838 1181 3.056107 TGAGGAATGACGACTAACCTTGG 60.056 47.826 0.00 0.00 0.00 3.61
839 1182 2.007608 GGAATGACGACTAACCTTGGC 58.992 52.381 0.00 0.00 0.00 4.52
840 1183 2.614481 GGAATGACGACTAACCTTGGCA 60.614 50.000 0.00 0.00 0.00 4.92
841 1184 3.270877 GAATGACGACTAACCTTGGCAT 58.729 45.455 0.00 0.00 0.00 4.40
842 1185 2.380084 TGACGACTAACCTTGGCATC 57.620 50.000 0.00 0.00 0.00 3.91
939 1285 3.791973 AGGAGTATCAAGAGACAAGCG 57.208 47.619 0.00 0.00 36.25 4.68
946 1292 1.005340 CAAGAGACAAGCGCTGATCC 58.995 55.000 12.58 6.14 0.00 3.36
979 1325 3.196901 TGAATACTATCAACAGCACGGGT 59.803 43.478 0.00 0.00 0.00 5.28
980 1326 4.403113 TGAATACTATCAACAGCACGGGTA 59.597 41.667 0.00 0.00 0.00 3.69
981 1327 5.105269 TGAATACTATCAACAGCACGGGTAA 60.105 40.000 0.00 0.00 0.00 2.85
1149 1501 3.103911 GTCGACGGCAAGGACACG 61.104 66.667 0.00 0.00 0.00 4.49
1179 1531 3.127030 CGGTAAAAAGATGCAAGGAGGTC 59.873 47.826 0.00 0.00 0.00 3.85
1182 1534 3.356529 AAAAGATGCAAGGAGGTCGAT 57.643 42.857 0.00 0.00 0.00 3.59
1203 1555 1.273886 GAGAGCAGGACGAAGGACTTT 59.726 52.381 0.00 0.00 0.00 2.66
1344 1696 2.680805 GCAGGAGCTATTGTACAGCCAA 60.681 50.000 0.00 0.00 39.99 4.52
1428 1780 2.488355 GCGTACCTGCACTCGCTA 59.512 61.111 11.09 0.00 44.28 4.26
1430 1782 1.801332 CGTACCTGCACTCGCTAGT 59.199 57.895 0.00 0.00 39.64 2.57
1654 2006 1.078823 TCCTTCTGGAGCTCCTAACCA 59.921 52.381 32.28 12.59 37.46 3.67
1716 2068 4.162320 GTGATGGTTCAAGAGTCTATGGGA 59.838 45.833 0.00 0.00 32.48 4.37
1824 2176 1.270094 CGATGCTTAGTTATGCCGGGA 60.270 52.381 2.18 0.00 0.00 5.14
1893 2245 2.595463 GACCAAGTGCAGCAGCCA 60.595 61.111 0.00 0.00 41.13 4.75
1908 2260 0.681175 AGCCATTGGTTTTGGAGTGC 59.319 50.000 4.26 0.00 36.26 4.40
1983 2335 1.063266 ACTGGGGTTTTCAGCCTTGAA 60.063 47.619 0.00 0.00 41.44 2.69
2024 2376 8.005192 AGCATAGAATTCGCTAGATGATATCA 57.995 34.615 8.10 8.10 33.25 2.15
2026 2378 8.701540 GCATAGAATTCGCTAGATGATATCATG 58.298 37.037 22.86 9.77 36.57 3.07
2134 2486 7.852971 AGCTTAGCACCAAATAATTTACGTA 57.147 32.000 7.07 0.00 0.00 3.57
2172 2524 5.948162 ACTTGACCTCCTACGTATGTAAAGA 59.052 40.000 14.11 2.26 0.00 2.52
2196 2548 7.914871 AGAAGGTTTGCAACAATTTTAATTTGC 59.085 29.630 0.00 5.37 34.38 3.68
2244 2596 5.927689 CCTCTCTTCATCAGCTCATATGTTC 59.072 44.000 1.90 0.00 0.00 3.18
2245 2597 6.462628 CCTCTCTTCATCAGCTCATATGTTCA 60.463 42.308 1.90 0.00 0.00 3.18
2322 2705 3.701205 ATGATTATGCGGCCTACATCA 57.299 42.857 11.09 6.86 0.00 3.07
2336 2719 5.931146 GGCCTACATCAATCTCATGTCTAAG 59.069 44.000 0.00 0.00 35.95 2.18
2361 2744 8.993424 AGGACTAAAAGAAAGCCTAGATATGAA 58.007 33.333 0.00 0.00 0.00 2.57
2563 2946 5.422214 ACGAAAGTTTGTCTCATATCCCT 57.578 39.130 0.00 0.00 46.40 4.20
2564 2947 5.178797 ACGAAAGTTTGTCTCATATCCCTG 58.821 41.667 0.00 0.00 46.40 4.45
2571 2954 8.095452 AGTTTGTCTCATATCCCTGTATCTTT 57.905 34.615 0.00 0.00 0.00 2.52
2619 3002 9.066892 GTGCAACCCATGAAATCTTATCTATAA 57.933 33.333 0.00 0.00 0.00 0.98
2620 3003 9.066892 TGCAACCCATGAAATCTTATCTATAAC 57.933 33.333 0.00 0.00 0.00 1.89
2771 3157 9.130661 CCCTATATGATACAAAAATGTTCACCA 57.869 33.333 0.00 0.00 0.00 4.17
2819 3441 6.380995 TGTTAATTGATGTCATGCAAGTGAC 58.619 36.000 12.58 12.58 46.75 3.67
2859 3481 9.703892 AGCACTCTCATGTAAATAGCTTAATAG 57.296 33.333 0.00 0.00 0.00 1.73
2872 3494 4.284178 AGCTTAATAGAGTACCGTCCCAA 58.716 43.478 0.00 0.00 0.00 4.12
2889 3511 2.415625 CCCAACGAAGAGTAAGAGACGG 60.416 54.545 0.00 0.00 0.00 4.79
2914 3536 5.219633 GGTTAATGCGAATGTTGAGTTGTT 58.780 37.500 0.00 0.00 0.00 2.83
2919 3541 3.874543 TGCGAATGTTGAGTTGTTACAGT 59.125 39.130 0.00 0.00 0.00 3.55
2950 3572 4.464244 TGAATTGGTTGTTTTGGTGTCTGA 59.536 37.500 0.00 0.00 0.00 3.27
2951 3573 5.047021 TGAATTGGTTGTTTTGGTGTCTGAA 60.047 36.000 0.00 0.00 0.00 3.02
2972 3594 9.109393 TCTGAAAAGATTATAATTTGGACCGAG 57.891 33.333 0.00 0.00 0.00 4.63
3006 3628 4.043561 TGAGGGGTAAAATGAAGTGGCTAA 59.956 41.667 0.00 0.00 0.00 3.09
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 3.135994 GGCCTTCGTTAGACAAGACAAA 58.864 45.455 0.00 0.00 0.00 2.83
4 5 2.367567 AGGCCTTCGTTAGACAAGACAA 59.632 45.455 0.00 0.00 0.00 3.18
11 12 8.521176 TCTAATCAATATAGGCCTTCGTTAGAC 58.479 37.037 12.58 0.00 0.00 2.59
13 14 9.307121 CATCTAATCAATATAGGCCTTCGTTAG 57.693 37.037 12.58 10.44 0.00 2.34
53 54 8.700644 ACAATTTGCGACGTATCTATAAGATTC 58.299 33.333 0.00 0.00 36.20 2.52
81 82 4.649674 TGGGATCGGAGGATGTATTATAGC 59.350 45.833 0.00 0.00 31.51 2.97
82 83 6.791867 TTGGGATCGGAGGATGTATTATAG 57.208 41.667 0.00 0.00 31.51 1.31
91 101 3.716872 ACACTTATTTGGGATCGGAGGAT 59.283 43.478 0.00 0.00 34.96 3.24
92 102 3.112263 ACACTTATTTGGGATCGGAGGA 58.888 45.455 0.00 0.00 0.00 3.71
97 107 3.063997 GCTGTGACACTTATTTGGGATCG 59.936 47.826 7.20 0.00 0.00 3.69
103 113 8.534333 TTAGTTAGAGCTGTGACACTTATTTG 57.466 34.615 8.54 0.00 0.00 2.32
113 123 5.304614 ACCTCAACTTTAGTTAGAGCTGTGA 59.695 40.000 0.00 0.00 36.32 3.58
115 125 5.810080 ACCTCAACTTTAGTTAGAGCTGT 57.190 39.130 0.00 0.00 36.32 4.40
117 127 6.497606 AGGTTACCTCAACTTTAGTTAGAGCT 59.502 38.462 0.00 0.00 36.32 4.09
135 151 6.316890 TGTCACAACTTTGAACTAAGGTTACC 59.683 38.462 0.00 0.00 36.55 2.85
136 152 7.065443 AGTGTCACAACTTTGAACTAAGGTTAC 59.935 37.037 5.62 0.00 36.55 2.50
167 183 9.372369 CTCAATAAAATATACTCCCTCCGATTC 57.628 37.037 0.00 0.00 0.00 2.52
168 184 9.101325 TCTCAATAAAATATACTCCCTCCGATT 57.899 33.333 0.00 0.00 0.00 3.34
169 185 8.666129 TCTCAATAAAATATACTCCCTCCGAT 57.334 34.615 0.00 0.00 0.00 4.18
170 186 8.666129 ATCTCAATAAAATATACTCCCTCCGA 57.334 34.615 0.00 0.00 0.00 4.55
171 187 9.726438 AAATCTCAATAAAATATACTCCCTCCG 57.274 33.333 0.00 0.00 0.00 4.63
187 205 8.187913 TCCAAACAATGAACCAAATCTCAATA 57.812 30.769 0.00 0.00 0.00 1.90
189 207 6.477053 TCCAAACAATGAACCAAATCTCAA 57.523 33.333 0.00 0.00 0.00 3.02
363 407 5.678132 TCAGCATGCAACATACATACATC 57.322 39.130 21.98 0.00 34.76 3.06
404 448 3.118371 AGCCCCAACTAACCTATTTCTCG 60.118 47.826 0.00 0.00 0.00 4.04
555 599 2.850321 CAACGACAATTGAATCCACCG 58.150 47.619 13.59 6.18 0.00 4.94
603 647 2.315925 TTCTCTCGCATGTCCCATTC 57.684 50.000 0.00 0.00 0.00 2.67
657 701 2.419574 GGCATAAGGTGTGGACGTACAT 60.420 50.000 2.42 0.00 32.43 2.29
658 702 1.066716 GGCATAAGGTGTGGACGTACA 60.067 52.381 0.00 0.00 0.00 2.90
717 1058 9.952030 TGAAATTAAACATAGTGATCTGGTACA 57.048 29.630 0.00 0.00 0.00 2.90
744 1085 9.601217 GAATTACTTGGCACTAAGAATCTTAGA 57.399 33.333 30.30 10.36 0.00 2.10
745 1086 8.831550 GGAATTACTTGGCACTAAGAATCTTAG 58.168 37.037 24.09 24.09 0.00 2.18
746 1087 8.325787 TGGAATTACTTGGCACTAAGAATCTTA 58.674 33.333 2.44 2.44 0.00 2.10
747 1088 7.175104 TGGAATTACTTGGCACTAAGAATCTT 58.825 34.615 0.00 0.00 0.00 2.40
748 1089 6.721318 TGGAATTACTTGGCACTAAGAATCT 58.279 36.000 0.34 0.00 0.00 2.40
749 1090 7.500559 AGATGGAATTACTTGGCACTAAGAATC 59.499 37.037 0.34 0.00 0.00 2.52
750 1091 7.349598 AGATGGAATTACTTGGCACTAAGAAT 58.650 34.615 0.34 0.00 0.00 2.40
751 1092 6.721318 AGATGGAATTACTTGGCACTAAGAA 58.279 36.000 0.34 0.00 0.00 2.52
788 1130 4.507756 GGGCAAAAGAGAACATGTGTTTTC 59.492 41.667 0.00 8.01 38.56 2.29
791 1134 2.365293 GGGGCAAAAGAGAACATGTGTT 59.635 45.455 0.00 0.00 41.64 3.32
792 1135 1.963515 GGGGCAAAAGAGAACATGTGT 59.036 47.619 0.00 0.00 0.00 3.72
820 1163 2.695359 TGCCAAGGTTAGTCGTCATTC 58.305 47.619 0.00 0.00 0.00 2.67
833 1176 2.158842 CCTGAAGAGTAGGATGCCAAGG 60.159 54.545 0.00 0.00 37.52 3.61
834 1177 2.768527 TCCTGAAGAGTAGGATGCCAAG 59.231 50.000 0.00 0.00 39.36 3.61
835 1178 2.768527 CTCCTGAAGAGTAGGATGCCAA 59.231 50.000 0.00 0.00 43.10 4.52
836 1179 2.392662 CTCCTGAAGAGTAGGATGCCA 58.607 52.381 0.00 0.00 43.10 4.92
857 1203 3.800604 GCCAACCAGAATAACGCCAAAAA 60.801 43.478 0.00 0.00 0.00 1.94
908 1254 3.328382 TGATACTCCTTTTGTGACGGG 57.672 47.619 0.00 0.00 0.00 5.28
939 1285 1.406898 TCATCACTCTGTCGGATCAGC 59.593 52.381 0.00 0.00 35.63 4.26
946 1292 7.196331 TGTTGATAGTATTCATCACTCTGTCG 58.804 38.462 0.00 0.00 32.23 4.35
1005 1351 3.259876 TGAACCCAATGTTACGCTCTACT 59.740 43.478 0.00 0.00 37.29 2.57
1149 1501 2.595386 CATCTTTTTACCGCCACAAGC 58.405 47.619 0.00 0.00 38.52 4.01
1179 1531 0.248825 CCTTCGTCCTGCTCTCATCG 60.249 60.000 0.00 0.00 0.00 3.84
1182 1534 0.251386 AGTCCTTCGTCCTGCTCTCA 60.251 55.000 0.00 0.00 0.00 3.27
1203 1555 0.250234 GTATCACCAGCTCCTGCACA 59.750 55.000 0.00 0.00 42.74 4.57
1428 1780 1.898154 GTGGAGTATCGGGTGCACT 59.102 57.895 17.98 0.00 34.37 4.40
1430 1782 2.717044 CCGTGGAGTATCGGGTGCA 61.717 63.158 0.00 0.00 42.61 4.57
1654 2006 0.108585 TTTGACAGCGGCTTCTTCCT 59.891 50.000 0.00 0.00 0.00 3.36
1680 2032 1.637553 ACCATCACCATGAGGCTCTTT 59.362 47.619 16.72 0.00 39.06 2.52
1797 2149 3.633235 CATAACTAAGCATCGAGTCGCT 58.367 45.455 7.92 0.00 41.20 4.93
1824 2176 1.079127 CATCGCCGGTCTCCTGTTT 60.079 57.895 1.90 0.00 0.00 2.83
1908 2260 7.046652 CCATATCTTTGATAGTGAGGCTATGG 58.953 42.308 0.00 0.00 40.30 2.74
1965 2317 2.166907 TTTCAAGGCTGAAAACCCCA 57.833 45.000 8.88 0.00 46.24 4.96
1983 2335 0.961019 TGCTCAATGCGGCTTTCTTT 59.039 45.000 0.00 0.00 46.63 2.52
2024 2376 7.968405 GCAAACCGTTTCTAATATGTTTCTCAT 59.032 33.333 0.00 0.00 40.25 2.90
2026 2378 7.527457 AGCAAACCGTTTCTAATATGTTTCTC 58.473 34.615 0.00 0.00 0.00 2.87
2134 2486 6.069963 AGGAGGTCAAGTGAGTGCTTATAAAT 60.070 38.462 0.00 0.00 0.00 1.40
2219 2571 5.146298 ACATATGAGCTGATGAAGAGAGGA 58.854 41.667 10.38 0.00 0.00 3.71
2336 2719 9.267084 CTTCATATCTAGGCTTTCTTTTAGTCC 57.733 37.037 0.00 0.00 0.00 3.85
2361 2744 3.492102 ATATATGTTTCAGCACCGCCT 57.508 42.857 0.00 0.00 0.00 5.52
2404 2787 2.092699 AGCTAGCTCATCCAAAACTCCC 60.093 50.000 12.68 0.00 0.00 4.30
2546 2929 7.682787 AAGATACAGGGATATGAGACAAACT 57.317 36.000 0.00 0.00 0.00 2.66
2571 2954 6.239600 GCACCCACCAGATCATTATTAGAGTA 60.240 42.308 0.00 0.00 0.00 2.59
2660 3046 3.922240 CACACTTTTCATATGGTGCAAGC 59.078 43.478 2.13 0.00 33.53 4.01
2662 3048 3.305950 GCCACACTTTTCATATGGTGCAA 60.306 43.478 2.13 0.00 33.53 4.08
2663 3049 2.230992 GCCACACTTTTCATATGGTGCA 59.769 45.455 2.13 0.00 33.53 4.57
2819 3441 4.641645 TGCTGCGTCCAACCCTGG 62.642 66.667 0.00 0.00 45.08 4.45
2829 3451 2.455674 TTTACATGAGAGTGCTGCGT 57.544 45.000 0.00 0.00 0.00 5.24
2831 3453 4.125703 AGCTATTTACATGAGAGTGCTGC 58.874 43.478 0.00 0.00 0.00 5.25
2872 3494 1.811359 CCACCGTCTCTTACTCTTCGT 59.189 52.381 0.00 0.00 0.00 3.85
2882 3504 0.892755 TCGCATTAACCACCGTCTCT 59.107 50.000 0.00 0.00 0.00 3.10
2889 3511 4.419522 ACTCAACATTCGCATTAACCAC 57.580 40.909 0.00 0.00 0.00 4.16
2914 3536 8.862325 AACAACCAATTCATATGAGAACTGTA 57.138 30.769 5.39 0.00 0.00 2.74
2919 3541 7.871973 CACCAAAACAACCAATTCATATGAGAA 59.128 33.333 5.39 0.00 0.00 2.87
2951 3573 9.238368 TGTTTCTCGGTCCAAATTATAATCTTT 57.762 29.630 0.00 0.00 0.00 2.52
2972 3594 6.713450 TCATTTTACCCCTCACTACTTGTTTC 59.287 38.462 0.00 0.00 0.00 2.78
2975 3597 5.836024 TCATTTTACCCCTCACTACTTGT 57.164 39.130 0.00 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.