Multiple sequence alignment - TraesCS7B01G240900

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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 TraesCS7B01G240900 chr7B 100.000 3423 0 0 567 3989 448345138 448341716 0.000000e+00 6322.0
1 TraesCS7B01G240900 chr7B 100.000 424 0 0 1 424 448345704 448345281 0.000000e+00 784.0
2 TraesCS7B01G240900 chr7B 91.549 568 28 9 1822 2388 623463257 623463805 0.000000e+00 765.0
3 TraesCS7B01G240900 chr7B 97.051 373 11 0 2712 3084 623471443 623471071 2.620000e-176 628.0
4 TraesCS7B01G240900 chr7B 97.778 270 6 0 2119 2388 623265392 623265661 2.170000e-127 466.0
5 TraesCS7B01G240900 chr7B 92.674 273 18 2 1822 2093 623264912 623265183 3.740000e-105 392.0
6 TraesCS7B01G240900 chr7B 94.048 252 13 1 2379 2628 623470221 623470472 8.090000e-102 381.0
7 TraesCS7B01G240900 chr7B 97.285 221 6 0 2864 3084 623266487 623266267 3.760000e-100 375.0
8 TraesCS7B01G240900 chr7B 96.815 157 5 0 2712 2868 623267973 623267817 3.060000e-66 263.0
9 TraesCS7B01G240900 chr7D 95.620 3105 95 16 925 3989 430928901 430925798 0.000000e+00 4942.0
10 TraesCS7B01G240900 chr7D 83.281 317 44 6 86 395 430929932 430929618 2.350000e-72 283.0
11 TraesCS7B01G240900 chr7A 93.766 3096 134 25 925 3989 501974163 501977230 0.000000e+00 4593.0
12 TraesCS7B01G240900 chr7A 84.591 318 41 4 1 310 501973317 501973634 3.870000e-80 309.0
13 TraesCS7B01G240900 chr1B 95.946 814 26 1 1822 2628 122922065 122922878 0.000000e+00 1314.0
14 TraesCS7B01G240900 chr1B 97.067 375 9 1 2712 3084 122923854 122923480 7.270000e-177 630.0
15 TraesCS7B01G240900 chr2B 71.757 609 114 51 1349 1928 791471278 791471857 7.000000e-23 119.0
16 TraesCS7B01G240900 chr2D 71.119 599 111 53 1361 1928 644375531 644374964 1.530000e-14 91.6
17 TraesCS7B01G240900 chr2A 74.144 263 48 18 1676 1928 769501551 769501299 1.530000e-14 91.6
18 TraesCS7B01G240900 chr2A 100.000 30 0 0 232 261 100779427 100779456 5.570000e-04 56.5


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 TraesCS7B01G240900 chr7B 448341716 448345704 3988 True 3553.0 6322 100.0000 1 3989 2 chr7B.!!$R2 3988
1 TraesCS7B01G240900 chr7B 623463257 623463805 548 False 765.0 765 91.5490 1822 2388 1 chr7B.!!$F1 566
2 TraesCS7B01G240900 chr7B 623264912 623265661 749 False 429.0 466 95.2260 1822 2388 2 chr7B.!!$F3 566
3 TraesCS7B01G240900 chr7B 623266267 623267973 1706 True 319.0 375 97.0500 2712 3084 2 chr7B.!!$R3 372
4 TraesCS7B01G240900 chr7D 430925798 430929932 4134 True 2612.5 4942 89.4505 86 3989 2 chr7D.!!$R1 3903
5 TraesCS7B01G240900 chr7A 501973317 501977230 3913 False 2451.0 4593 89.1785 1 3989 2 chr7A.!!$F1 3988
6 TraesCS7B01G240900 chr1B 122922065 122922878 813 False 1314.0 1314 95.9460 1822 2628 1 chr1B.!!$F1 806

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
423 443 0.107017 AATGGTGCAGATCGGGGAAG 60.107 55.0 0.0 0.0 0.0 3.46 F
650 885 0.392998 CGACAATGGGGGAGGTTGAG 60.393 60.0 0.0 0.0 0.0 3.02 F
2283 2730 0.179084 CCATCTACATCAACGCCGGT 60.179 55.0 1.9 0.0 0.0 5.28 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2010 2256 0.647738 AGGGATGGGGTATCTGGTCA 59.352 55.000 0.0 0.0 36.03 4.02 R
2646 3100 2.282251 AGCGACACCGAGACCAGA 60.282 61.111 0.0 0.0 38.22 3.86 R
3939 5770 2.513897 GTCCACCACATAGCGGCC 60.514 66.667 0.0 0.0 0.00 6.13 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
26 29 5.402630 TGCTCACCTATATAGACCCATGAA 58.597 41.667 11.53 0.00 0.00 2.57
31 34 9.799106 CTCACCTATATAGACCCATGAATTTTT 57.201 33.333 11.53 0.00 0.00 1.94
33 36 9.799106 CACCTATATAGACCCATGAATTTTTCT 57.201 33.333 11.53 0.00 0.00 2.52
74 77 7.811653 TCATACGAAATTAAAGTTGCATGACA 58.188 30.769 0.00 0.00 0.00 3.58
79 82 7.538678 ACGAAATTAAAGTTGCATGACAAGATC 59.461 33.333 0.00 0.00 39.50 2.75
83 86 2.153645 AGTTGCATGACAAGATCGCAA 58.846 42.857 0.00 0.00 39.50 4.85
102 105 5.011125 TCGCAAATTATTGTTGGAAAAGGGA 59.989 36.000 0.00 0.00 38.85 4.20
163 167 3.736094 TGAGAGGTAGTGGGGATTTGAT 58.264 45.455 0.00 0.00 0.00 2.57
178 182 4.095932 GGATTTGATCCGTAAGTTTCCACC 59.904 45.833 0.00 0.00 40.13 4.61
216 220 5.399727 CCCTTAGGTTTAGCCCCATTCAATA 60.400 44.000 0.00 0.00 38.26 1.90
259 268 4.865776 TGTGTTTGCTAAATGTAAGGTGC 58.134 39.130 0.00 0.00 0.00 5.01
261 270 3.891977 TGTTTGCTAAATGTAAGGTGCCA 59.108 39.130 0.00 0.00 0.00 4.92
262 271 4.526262 TGTTTGCTAAATGTAAGGTGCCAT 59.474 37.500 0.00 0.00 0.00 4.40
265 274 7.093552 TGTTTGCTAAATGTAAGGTGCCATAAT 60.094 33.333 0.00 0.00 0.00 1.28
280 289 5.959618 GCCATAATATTTTTAGGGCGTCT 57.040 39.130 6.76 0.00 41.16 4.18
289 298 3.872511 TTTAGGGCGTCTGTCGATTTA 57.127 42.857 0.00 0.00 42.86 1.40
292 301 1.754803 AGGGCGTCTGTCGATTTATGA 59.245 47.619 0.00 0.00 42.86 2.15
294 303 3.572682 AGGGCGTCTGTCGATTTATGATA 59.427 43.478 0.00 0.00 42.86 2.15
298 307 5.864474 GGCGTCTGTCGATTTATGATATTCT 59.136 40.000 0.00 0.00 42.86 2.40
299 308 6.366332 GGCGTCTGTCGATTTATGATATTCTT 59.634 38.462 0.00 0.00 42.86 2.52
334 344 2.895680 GACATGAGGAGCGGCAGA 59.104 61.111 0.00 0.00 0.00 4.26
336 346 2.108566 CATGAGGAGCGGCAGAGG 59.891 66.667 1.45 0.00 0.00 3.69
339 349 4.527583 GAGGAGCGGCAGAGGCAG 62.528 72.222 1.45 0.00 43.71 4.85
405 425 2.132762 GAAGCGACTCCGAAACTTGAA 58.867 47.619 0.00 0.00 38.22 2.69
406 426 2.457366 AGCGACTCCGAAACTTGAAT 57.543 45.000 0.00 0.00 38.22 2.57
409 429 2.413837 CGACTCCGAAACTTGAATGGT 58.586 47.619 0.00 0.00 38.22 3.55
411 431 1.880027 ACTCCGAAACTTGAATGGTGC 59.120 47.619 0.00 0.00 0.00 5.01
412 432 1.879380 CTCCGAAACTTGAATGGTGCA 59.121 47.619 0.00 0.00 0.00 4.57
414 434 1.879380 CCGAAACTTGAATGGTGCAGA 59.121 47.619 0.00 0.00 0.00 4.26
418 438 1.742761 ACTTGAATGGTGCAGATCGG 58.257 50.000 0.00 0.00 0.00 4.18
419 439 1.019673 CTTGAATGGTGCAGATCGGG 58.980 55.000 0.00 0.00 0.00 5.14
420 440 0.394216 TTGAATGGTGCAGATCGGGG 60.394 55.000 0.00 0.00 0.00 5.73
421 441 1.271127 TGAATGGTGCAGATCGGGGA 61.271 55.000 0.00 0.00 0.00 4.81
422 442 0.107214 GAATGGTGCAGATCGGGGAA 60.107 55.000 0.00 0.00 0.00 3.97
423 443 0.107017 AATGGTGCAGATCGGGGAAG 60.107 55.000 0.00 0.00 0.00 3.46
590 823 4.637534 GTCACCAGAGTTGTTGCATATCAT 59.362 41.667 0.00 0.00 0.00 2.45
596 829 3.947196 GAGTTGTTGCATATCATGGTGGA 59.053 43.478 0.00 0.00 0.00 4.02
598 831 2.300433 TGTTGCATATCATGGTGGAGC 58.700 47.619 0.00 0.00 0.00 4.70
600 833 1.142936 TGCATATCATGGTGGAGCCT 58.857 50.000 0.00 0.00 38.35 4.58
605 840 5.014018 TGCATATCATGGTGGAGCCTTATAA 59.986 40.000 0.00 0.00 38.35 0.98
606 841 5.587844 GCATATCATGGTGGAGCCTTATAAG 59.412 44.000 5.43 5.43 38.35 1.73
650 885 0.392998 CGACAATGGGGGAGGTTGAG 60.393 60.000 0.00 0.00 0.00 3.02
651 886 0.991920 GACAATGGGGGAGGTTGAGA 59.008 55.000 0.00 0.00 0.00 3.27
664 899 3.905153 TTGAGAGGAGGGCGAGGCA 62.905 63.158 0.00 0.00 0.00 4.75
666 901 4.390556 AGAGGAGGGCGAGGCAGT 62.391 66.667 0.00 0.00 0.00 4.40
670 905 3.695606 GAGGGCGAGGCAGTGTGA 61.696 66.667 0.00 0.00 0.00 3.58
676 911 1.662608 CGAGGCAGTGTGAGACAGT 59.337 57.895 0.00 0.00 30.48 3.55
683 918 1.598130 GTGTGAGACAGTGCCCACC 60.598 63.158 7.41 0.00 0.00 4.61
687 922 3.909086 GAGACAGTGCCCACCAGCC 62.909 68.421 0.00 0.00 0.00 4.85
688 923 4.269523 GACAGTGCCCACCAGCCA 62.270 66.667 0.00 0.00 0.00 4.75
716 952 2.361104 GGGATGCAAGCGGTTGGA 60.361 61.111 27.01 25.40 38.53 3.53
754 990 6.253727 GCAAATGCATGATGAAGAAGAAAGAG 59.746 38.462 15.02 0.00 41.59 2.85
756 992 7.883391 AATGCATGATGAAGAAGAAAGAGAT 57.117 32.000 0.00 0.00 0.00 2.75
769 1005 9.517868 AAGAAGAAAGAGATGTTGAAGATGAAT 57.482 29.630 0.00 0.00 0.00 2.57
785 1027 6.305272 AGATGAATAGTGTGAGGTGATTGT 57.695 37.500 0.00 0.00 0.00 2.71
857 1102 4.116747 TGTTTTCACAAATTGGCGTTCT 57.883 36.364 0.00 0.00 0.00 3.01
858 1103 4.499183 TGTTTTCACAAATTGGCGTTCTT 58.501 34.783 0.00 0.00 0.00 2.52
865 1110 6.092092 TCACAAATTGGCGTTCTTGATATTG 58.908 36.000 0.00 0.00 0.00 1.90
884 1129 9.932207 TGATATTGTTTTTCAGAAATTGCATCT 57.068 25.926 0.00 0.00 0.00 2.90
896 1141 9.932207 TCAGAAATTGCATCTCATTAATTTTGT 57.068 25.926 0.00 0.00 34.07 2.83
900 1145 9.932207 AAATTGCATCTCATTAATTTTGTCTCA 57.068 25.926 0.00 0.00 30.86 3.27
901 1146 8.922058 ATTGCATCTCATTAATTTTGTCTCAC 57.078 30.769 0.00 0.00 0.00 3.51
902 1147 7.692460 TGCATCTCATTAATTTTGTCTCACT 57.308 32.000 0.00 0.00 0.00 3.41
903 1148 7.755591 TGCATCTCATTAATTTTGTCTCACTC 58.244 34.615 0.00 0.00 0.00 3.51
904 1149 7.391275 TGCATCTCATTAATTTTGTCTCACTCA 59.609 33.333 0.00 0.00 0.00 3.41
905 1150 8.404000 GCATCTCATTAATTTTGTCTCACTCAT 58.596 33.333 0.00 0.00 0.00 2.90
906 1151 9.932699 CATCTCATTAATTTTGTCTCACTCATC 57.067 33.333 0.00 0.00 0.00 2.92
907 1152 9.902684 ATCTCATTAATTTTGTCTCACTCATCT 57.097 29.630 0.00 0.00 0.00 2.90
908 1153 9.376075 TCTCATTAATTTTGTCTCACTCATCTC 57.624 33.333 0.00 0.00 0.00 2.75
909 1154 8.189709 TCATTAATTTTGTCTCACTCATCTCG 57.810 34.615 0.00 0.00 0.00 4.04
910 1155 4.935885 AATTTTGTCTCACTCATCTCGC 57.064 40.909 0.00 0.00 0.00 5.03
911 1156 3.385193 TTTTGTCTCACTCATCTCGCA 57.615 42.857 0.00 0.00 0.00 5.10
912 1157 3.385193 TTTGTCTCACTCATCTCGCAA 57.615 42.857 0.00 0.00 0.00 4.85
913 1158 3.385193 TTGTCTCACTCATCTCGCAAA 57.615 42.857 0.00 0.00 0.00 3.68
914 1159 3.385193 TGTCTCACTCATCTCGCAAAA 57.615 42.857 0.00 0.00 0.00 2.44
915 1160 3.727726 TGTCTCACTCATCTCGCAAAAA 58.272 40.909 0.00 0.00 0.00 1.94
960 1205 2.125512 ACGCTCTCATTCGGCACC 60.126 61.111 0.00 0.00 0.00 5.01
993 1239 8.422566 CAAAAGGTACAACCAAACCCTAAATAA 58.577 33.333 0.00 0.00 41.95 1.40
1096 1342 4.443978 TCCTCCATTGAATCCTTCCATC 57.556 45.455 0.00 0.00 0.00 3.51
1099 1345 2.158623 TCCATTGAATCCTTCCATCCCG 60.159 50.000 0.00 0.00 0.00 5.14
1175 1421 2.240612 GAACCTGACAATGCCGACGC 62.241 60.000 0.00 0.00 0.00 5.19
1182 1428 3.179265 AATGCCGACGCGTCTTCG 61.179 61.111 33.94 22.92 38.08 3.79
1205 1451 2.094906 CAGCACCCAAGAATGTCATGTG 60.095 50.000 0.00 0.00 0.00 3.21
1410 1656 1.446792 CACGCTGCTCGACATCCTT 60.447 57.895 5.98 0.00 41.67 3.36
1422 1668 4.015406 ATCCTTGCGGTGCGGACA 62.015 61.111 9.96 0.00 0.00 4.02
2010 2256 0.683504 AGTACGCCCTCGAGGTCATT 60.684 55.000 29.25 13.23 39.41 2.57
2283 2730 0.179084 CCATCTACATCAACGCCGGT 60.179 55.000 1.90 0.00 0.00 5.28
2646 3100 1.067212 GACTACATCGCGGGAATGTCT 59.933 52.381 14.35 2.85 0.00 3.41
2652 3106 1.519455 CGCGGGAATGTCTCTGGTC 60.519 63.158 0.00 0.00 0.00 4.02
2685 3139 1.267121 CCGGGTTCTTCCTCTTCTCA 58.733 55.000 0.00 0.00 36.25 3.27
3032 4828 2.426381 CGTCTCCTCCCTTTACTACACC 59.574 54.545 0.00 0.00 0.00 4.16
3154 4950 6.014327 ACAGAGTGGTTAACCGGTAATTAAGA 60.014 38.462 19.65 0.00 39.43 2.10
3310 5107 7.314393 GTTGGTCGATAGTATAGAGGGAATTC 58.686 42.308 0.00 0.00 37.40 2.17
3457 5254 0.036199 TTTTGAATGCCTGGCCATGC 60.036 50.000 24.59 24.59 0.00 4.06
3572 5370 2.096318 GCCATGCATTTTTGTTCCAACG 60.096 45.455 0.00 0.00 0.00 4.10
3642 5440 5.629435 GCTAAAGTTGTGCAATTTCAGTACC 59.371 40.000 0.00 0.00 0.00 3.34
3649 5447 5.080337 TGTGCAATTTCAGTACCCCAATTA 58.920 37.500 0.00 0.00 0.00 1.40
3665 5485 5.535030 CCCCAATTATAAGTGGCTAAGGTTC 59.465 44.000 23.54 0.00 42.54 3.62
3696 5516 6.019779 TCAGCCAAACATACAATTACCAAC 57.980 37.500 0.00 0.00 0.00 3.77
3700 5520 5.407084 GCCAAACATACAATTACCAACAACC 59.593 40.000 0.00 0.00 0.00 3.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 6.552445 ATTCATGGGTCTATATAGGTGAGC 57.448 41.667 9.89 1.02 0.00 4.26
7 8 9.799106 AGAAAAATTCATGGGTCTATATAGGTG 57.201 33.333 9.89 2.73 0.00 4.00
47 50 9.929722 GTCATGCAACTTTAATTTCGTATGATA 57.070 29.630 0.00 0.00 0.00 2.15
55 58 7.461938 GCGATCTTGTCATGCAACTTTAATTTC 60.462 37.037 0.00 0.00 32.90 2.17
74 77 7.331687 CCTTTTCCAACAATAATTTGCGATCTT 59.668 33.333 0.00 0.00 36.22 2.40
79 82 5.233988 TCCCTTTTCCAACAATAATTTGCG 58.766 37.500 0.00 0.00 36.22 4.85
83 86 5.250543 CCCCTTCCCTTTTCCAACAATAATT 59.749 40.000 0.00 0.00 0.00 1.40
102 105 1.360393 TTGTGGGCTCACTTCCCCTT 61.360 55.000 19.48 0.00 43.24 3.95
163 167 2.036733 CTCACAGGTGGAAACTTACGGA 59.963 50.000 0.00 0.00 0.00 4.69
178 182 4.974399 ACCTAAGGGAAGTTTTCTCACAG 58.026 43.478 0.00 0.00 36.25 3.66
238 246 4.234574 GGCACCTTACATTTAGCAAACAC 58.765 43.478 0.00 0.00 0.00 3.32
239 248 3.891977 TGGCACCTTACATTTAGCAAACA 59.108 39.130 0.00 0.00 0.00 2.83
259 268 6.347402 CGACAGACGCCCTAAAAATATTATGG 60.347 42.308 0.00 0.00 34.51 2.74
261 270 6.518493 TCGACAGACGCCCTAAAAATATTAT 58.482 36.000 0.00 0.00 42.26 1.28
262 271 5.904941 TCGACAGACGCCCTAAAAATATTA 58.095 37.500 0.00 0.00 42.26 0.98
265 274 3.872511 TCGACAGACGCCCTAAAAATA 57.127 42.857 0.00 0.00 42.26 1.40
280 289 6.650807 GGCCTCAAGAATATCATAAATCGACA 59.349 38.462 0.00 0.00 0.00 4.35
289 298 3.244700 CCCTTCGGCCTCAAGAATATCAT 60.245 47.826 11.94 0.00 0.00 2.45
292 301 1.421646 CCCCTTCGGCCTCAAGAATAT 59.578 52.381 11.94 0.00 0.00 1.28
294 303 1.609783 CCCCTTCGGCCTCAAGAAT 59.390 57.895 11.94 0.00 0.00 2.40
311 320 4.554036 GCTCCTCATGTCGCCCCC 62.554 72.222 0.00 0.00 0.00 5.40
312 321 4.899239 CGCTCCTCATGTCGCCCC 62.899 72.222 0.00 0.00 0.00 5.80
316 325 2.584418 CTGCCGCTCCTCATGTCG 60.584 66.667 0.00 0.00 0.00 4.35
334 344 3.790437 CAGGGTCGATGCCTGCCT 61.790 66.667 0.00 0.00 0.00 4.75
338 348 3.790437 CTGCCAGGGTCGATGCCT 61.790 66.667 0.00 0.00 0.00 4.75
339 349 4.864334 CCTGCCAGGGTCGATGCC 62.864 72.222 1.63 0.00 0.00 4.40
359 369 1.802880 GCTATCGCTCGTCCACAACAT 60.803 52.381 0.00 0.00 0.00 2.71
405 425 1.528824 CTTCCCCGATCTGCACCAT 59.471 57.895 0.00 0.00 0.00 3.55
406 426 2.989639 CTTCCCCGATCTGCACCA 59.010 61.111 0.00 0.00 0.00 4.17
566 586 1.609208 ATGCAACAACTCTGGTGACC 58.391 50.000 0.00 0.00 43.55 4.02
567 587 4.002982 TGATATGCAACAACTCTGGTGAC 58.997 43.478 0.00 0.00 43.55 3.67
568 588 4.284829 TGATATGCAACAACTCTGGTGA 57.715 40.909 0.00 0.00 43.55 4.02
569 589 4.201980 CCATGATATGCAACAACTCTGGTG 60.202 45.833 0.00 0.00 43.71 4.17
570 590 3.949754 CCATGATATGCAACAACTCTGGT 59.050 43.478 0.00 0.00 0.00 4.00
571 591 3.949754 ACCATGATATGCAACAACTCTGG 59.050 43.478 0.00 0.00 0.00 3.86
572 592 4.201980 CCACCATGATATGCAACAACTCTG 60.202 45.833 0.00 0.00 0.00 3.35
573 593 3.949754 CCACCATGATATGCAACAACTCT 59.050 43.478 0.00 0.00 0.00 3.24
574 594 3.947196 TCCACCATGATATGCAACAACTC 59.053 43.478 0.00 0.00 0.00 3.01
575 595 3.949754 CTCCACCATGATATGCAACAACT 59.050 43.478 0.00 0.00 0.00 3.16
576 596 3.489738 GCTCCACCATGATATGCAACAAC 60.490 47.826 0.00 0.00 0.00 3.32
590 823 2.711009 CCATCCTTATAAGGCTCCACCA 59.289 50.000 24.52 7.85 46.06 4.17
596 829 1.000955 CGCGACCATCCTTATAAGGCT 59.999 52.381 24.52 14.06 46.06 4.58
600 833 0.319211 CGCCGCGACCATCCTTATAA 60.319 55.000 8.23 0.00 0.00 0.98
622 857 1.178534 CCCCATTGTCGGTGCTTGTT 61.179 55.000 0.00 0.00 0.00 2.83
623 858 1.603455 CCCCATTGTCGGTGCTTGT 60.603 57.895 0.00 0.00 0.00 3.16
630 865 1.378514 CAACCTCCCCCATTGTCGG 60.379 63.158 0.00 0.00 0.00 4.79
635 870 0.121197 TCCTCTCAACCTCCCCCATT 59.879 55.000 0.00 0.00 0.00 3.16
636 871 0.327000 CTCCTCTCAACCTCCCCCAT 60.327 60.000 0.00 0.00 0.00 4.00
650 885 4.154347 CACTGCCTCGCCCTCCTC 62.154 72.222 0.00 0.00 0.00 3.71
664 899 1.447643 GTGGGCACTGTCTCACACT 59.552 57.895 5.10 0.00 0.00 3.55
666 901 2.043604 CTGGTGGGCACTGTCTCACA 62.044 60.000 10.81 0.00 32.29 3.58
670 905 3.958860 GGCTGGTGGGCACTGTCT 61.959 66.667 0.00 0.00 40.53 3.41
695 931 3.645268 AACCGCTTGCATCCCCCTC 62.645 63.158 0.00 0.00 0.00 4.30
696 932 3.661648 AACCGCTTGCATCCCCCT 61.662 61.111 0.00 0.00 0.00 4.79
731 967 7.698506 TCTCTTTCTTCTTCATCATGCATTT 57.301 32.000 0.00 0.00 0.00 2.32
754 990 6.820656 ACCTCACACTATTCATCTTCAACATC 59.179 38.462 0.00 0.00 0.00 3.06
756 992 5.934043 CACCTCACACTATTCATCTTCAACA 59.066 40.000 0.00 0.00 0.00 3.33
769 1005 3.582647 ACATCCACAATCACCTCACACTA 59.417 43.478 0.00 0.00 0.00 2.74
770 1006 2.373169 ACATCCACAATCACCTCACACT 59.627 45.455 0.00 0.00 0.00 3.55
819 1064 2.540265 ACAAATTTGGCGCCATTCAA 57.460 40.000 33.25 22.80 0.00 2.69
826 1071 3.665173 TTGTGAAAACAAATTTGGCGC 57.335 38.095 21.74 13.97 0.00 6.53
849 1094 6.016693 TCTGAAAAACAATATCAAGAACGCCA 60.017 34.615 0.00 0.00 0.00 5.69
858 1103 9.932207 AGATGCAATTTCTGAAAAACAATATCA 57.068 25.926 6.95 0.00 0.00 2.15
882 1127 9.376075 GAGATGAGTGAGACAAAATTAATGAGA 57.624 33.333 0.00 0.00 0.00 3.27
884 1129 7.201556 GCGAGATGAGTGAGACAAAATTAATGA 60.202 37.037 0.00 0.00 0.00 2.57
893 1138 3.385193 TTTGCGAGATGAGTGAGACAA 57.615 42.857 0.00 0.00 0.00 3.18
894 1139 3.385193 TTTTGCGAGATGAGTGAGACA 57.615 42.857 0.00 0.00 0.00 3.41
919 1164 5.652014 TGGACTGTTGAGTGAGACAATTTTT 59.348 36.000 0.00 0.00 30.16 1.94
920 1165 5.066505 GTGGACTGTTGAGTGAGACAATTTT 59.933 40.000 0.00 0.00 30.16 1.82
921 1166 4.576463 GTGGACTGTTGAGTGAGACAATTT 59.424 41.667 0.00 0.00 30.16 1.82
922 1167 4.130118 GTGGACTGTTGAGTGAGACAATT 58.870 43.478 0.00 0.00 30.16 2.32
923 1168 3.733337 GTGGACTGTTGAGTGAGACAAT 58.267 45.455 0.00 0.00 30.16 2.71
935 1180 1.670087 CGAATGAGAGCGTGGACTGTT 60.670 52.381 0.00 0.00 0.00 3.16
960 1205 4.927978 TGGTTGTACCTTTTGGACAATG 57.072 40.909 0.00 0.00 44.07 2.82
993 1239 3.382546 GGTGAATTAGCCACATTGCTGAT 59.617 43.478 0.00 0.00 42.77 2.90
1096 1342 1.815421 CGGAGATGGCAAGAACGGG 60.815 63.158 0.00 0.00 0.00 5.28
1118 1364 3.295973 GTTATGGTGGCCATTGTGGTAT 58.704 45.455 9.72 0.00 42.23 2.73
1119 1365 2.621929 GGTTATGGTGGCCATTGTGGTA 60.622 50.000 9.72 0.00 42.23 3.25
1175 1421 4.680237 TGGGTGCTGGCGAAGACG 62.680 66.667 0.00 0.00 41.59 4.18
1182 1428 0.895100 TGACATTCTTGGGTGCTGGC 60.895 55.000 0.00 0.00 0.00 4.85
1186 1432 1.403249 GCACATGACATTCTTGGGTGC 60.403 52.381 0.00 9.67 28.74 5.01
1908 2154 4.640690 AGGGAGCCGTGGTGGAGT 62.641 66.667 0.00 0.00 42.00 3.85
1974 2220 0.900647 ACTCTAGCGGGTTGAGCTGT 60.901 55.000 16.53 0.00 45.60 4.40
2010 2256 0.647738 AGGGATGGGGTATCTGGTCA 59.352 55.000 0.00 0.00 36.03 4.02
2646 3100 2.282251 AGCGACACCGAGACCAGA 60.282 61.111 0.00 0.00 38.22 3.86
2685 3139 2.711922 CCGCGACAGGAAGTAGCCT 61.712 63.158 8.23 0.00 44.85 4.58
2973 4761 0.908198 ATGGTCACCTCTTGGCTCTC 59.092 55.000 0.00 0.00 36.63 3.20
3457 5254 4.403453 CTTTCGAATGCTTAAAAGACGGG 58.597 43.478 0.00 0.00 31.81 5.28
3572 5370 7.640852 TCTCTAGTAAGATTGTATGAAGCGAC 58.359 38.462 0.00 0.00 0.00 5.19
3642 5440 6.263168 CAGAACCTTAGCCACTTATAATTGGG 59.737 42.308 20.09 8.25 33.01 4.12
3649 5447 5.700402 ATGTCAGAACCTTAGCCACTTAT 57.300 39.130 0.00 0.00 0.00 1.73
3743 5563 9.696917 GATCAGTGGTCAAATCAAACTTTTATT 57.303 29.630 0.00 0.00 0.00 1.40
3744 5564 8.023128 CGATCAGTGGTCAAATCAAACTTTTAT 58.977 33.333 3.88 0.00 0.00 1.40
3939 5770 2.513897 GTCCACCACATAGCGGCC 60.514 66.667 0.00 0.00 0.00 6.13


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

AutoCloner maintained by Alex Coulton.