Multiple sequence alignment - TraesCS2D01G295200

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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 TraesCS2D01G295200 chr2D 100.000 2793 0 0 1 2793 377156484 377159276 0.000000e+00 5158
1 TraesCS2D01G295200 chr2A 93.918 2088 84 10 742 2793 511115690 511117770 0.000000e+00 3112
2 TraesCS2D01G295200 chr2A 94.231 260 11 1 1 256 511115099 511115358 7.250000e-106 394
3 TraesCS2D01G295200 chr2A 88.158 152 17 1 437 587 511115402 511115553 2.210000e-41 180
4 TraesCS2D01G295200 chr2B 92.594 2147 78 17 697 2793 448872839 448874954 0.000000e+00 3009
5 TraesCS2D01G295200 chr2B 91.204 216 12 1 1 209 448870785 448871000 1.270000e-73 287
6 TraesCS2D01G295200 chr2B 92.405 158 10 2 426 581 448871602 448871759 1.010000e-54 224
7 TraesCS2D01G295200 chr2B 81.215 181 28 2 1665 1845 13813802 13813976 1.040000e-29 141


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 TraesCS2D01G295200 chr2D 377156484 377159276 2792 False 5158.000000 5158 100.000000 1 2793 1 chr2D.!!$F1 2792
1 TraesCS2D01G295200 chr2A 511115099 511117770 2671 False 1228.666667 3112 92.102333 1 2793 3 chr2A.!!$F1 2792
2 TraesCS2D01G295200 chr2B 448870785 448874954 4169 False 1173.333333 3009 92.067667 1 2793 3 chr2B.!!$F2 2792

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
891 2333 0.109723 AACATTGTACCACCTGGCGT 59.89 50.0 0.0 0.0 39.32 5.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2230 3738 0.390472 AGTCTGCCGCTTGAGCTTAC 60.39 55.0 1.07 0.0 39.32 2.34 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 27 2.842939 GGTACGTTACGTGCTGTTTC 57.157 50.000 23.22 4.86 41.78 2.78
40 41 2.353406 GCTGTTTCATTCATTGCTGGCT 60.353 45.455 0.00 0.00 0.00 4.75
49 50 1.614903 TCATTGCTGGCTTGGTTCTTG 59.385 47.619 0.00 0.00 0.00 3.02
77 78 7.282224 CCTAGGAATTCGTTGGATTATGAAACA 59.718 37.037 19.77 0.00 0.00 2.83
231 620 0.807667 CTCCGTATGCAGACACCAGC 60.808 60.000 12.67 0.00 0.00 4.85
236 625 2.086869 GTATGCAGACACCAGCACATT 58.913 47.619 6.60 0.00 44.49 2.71
237 626 0.885879 ATGCAGACACCAGCACATTG 59.114 50.000 0.00 0.00 44.49 2.82
238 627 0.466007 TGCAGACACCAGCACATTGT 60.466 50.000 0.00 0.00 35.51 2.71
239 628 1.202746 TGCAGACACCAGCACATTGTA 60.203 47.619 0.00 0.00 35.51 2.41
240 629 2.086869 GCAGACACCAGCACATTGTAT 58.913 47.619 0.00 0.00 0.00 2.29
241 630 2.159476 GCAGACACCAGCACATTGTATG 60.159 50.000 0.00 0.00 35.91 2.39
242 631 2.421073 CAGACACCAGCACATTGTATGG 59.579 50.000 15.33 15.33 38.83 2.74
243 632 2.305635 AGACACCAGCACATTGTATGGA 59.694 45.455 21.16 0.00 36.62 3.41
244 633 2.679837 GACACCAGCACATTGTATGGAG 59.320 50.000 21.16 16.91 36.62 3.86
245 634 2.040278 ACACCAGCACATTGTATGGAGT 59.960 45.455 21.16 17.40 36.62 3.85
246 635 2.421073 CACCAGCACATTGTATGGAGTG 59.579 50.000 21.16 10.24 36.62 3.51
247 636 2.040278 ACCAGCACATTGTATGGAGTGT 59.960 45.455 21.16 2.52 36.62 3.55
248 637 3.084039 CCAGCACATTGTATGGAGTGTT 58.916 45.455 12.72 0.00 34.60 3.32
249 638 4.260985 CCAGCACATTGTATGGAGTGTTA 58.739 43.478 12.72 0.00 34.60 2.41
250 639 4.699735 CCAGCACATTGTATGGAGTGTTAA 59.300 41.667 12.72 0.00 34.60 2.01
251 640 5.182950 CCAGCACATTGTATGGAGTGTTAAA 59.817 40.000 12.72 0.00 34.60 1.52
252 641 6.294453 CCAGCACATTGTATGGAGTGTTAAAA 60.294 38.462 12.72 0.00 34.60 1.52
253 642 7.144661 CAGCACATTGTATGGAGTGTTAAAAA 58.855 34.615 0.00 0.00 34.59 1.94
301 690 2.876368 GATCCCCGTGCTTCAGTGGG 62.876 65.000 0.00 0.00 41.56 4.61
309 698 1.136891 GTGCTTCAGTGGGCTTTGTTT 59.863 47.619 9.63 0.00 0.00 2.83
322 711 2.043411 CTTTGTTTGTGCCGTGAATCG 58.957 47.619 0.00 0.00 39.52 3.34
333 722 1.328680 CCGTGAATCGAGGATGCAAAG 59.671 52.381 0.00 0.00 42.86 2.77
335 724 2.672874 CGTGAATCGAGGATGCAAAGAA 59.327 45.455 0.00 0.00 42.86 2.52
374 763 4.612264 ACTCTGAAAATGGCAGCATTTT 57.388 36.364 11.89 11.89 44.54 1.82
387 776 4.933400 GGCAGCATTTTCTGATTGTTGATT 59.067 37.500 0.00 0.00 36.19 2.57
399 788 4.739228 TGATTGTTGATTGCGTGAAAACAG 59.261 37.500 0.00 0.00 32.75 3.16
406 795 3.953874 TTGCGTGAAAACAGAATCGAA 57.046 38.095 0.00 0.00 0.00 3.71
415 807 6.732392 GTGAAAACAGAATCGAACACTTATCG 59.268 38.462 0.00 0.00 41.53 2.92
459 890 6.578944 AGATTATGTCTGTATACAAACGCCA 58.421 36.000 7.06 0.22 35.31 5.69
525 956 0.583438 CTGAAACACTGTCACGCTGG 59.417 55.000 0.00 0.00 0.00 4.85
532 963 2.596338 TGTCACGCTGGTCGAGGA 60.596 61.111 0.00 0.00 41.67 3.71
553 984 4.024556 GGATTGCTCCTGTGTATGAAATCG 60.025 45.833 0.00 0.00 38.65 3.34
566 998 6.248420 GTGTATGAAATCGTTCGACAAATTGG 59.752 38.462 0.00 0.00 35.28 3.16
575 1007 4.644954 GTTCGACAAATTGGATAACGGAC 58.355 43.478 0.00 0.00 0.00 4.79
582 1014 6.954944 ACAAATTGGATAACGGACGATATTG 58.045 36.000 0.00 0.00 0.00 1.90
587 1019 5.765176 TGGATAACGGACGATATTGTACTG 58.235 41.667 3.74 0.46 0.00 2.74
590 1022 1.068127 ACGGACGATATTGTACTGCCC 59.932 52.381 3.74 0.00 0.00 5.36
591 1023 1.779569 GGACGATATTGTACTGCCCG 58.220 55.000 0.00 0.00 0.00 6.13
592 1024 1.137513 GACGATATTGTACTGCCCGC 58.862 55.000 0.00 0.00 0.00 6.13
593 1025 0.462375 ACGATATTGTACTGCCCGCA 59.538 50.000 0.00 0.00 0.00 5.69
594 1026 1.134640 ACGATATTGTACTGCCCGCAA 60.135 47.619 0.00 0.00 0.00 4.85
655 1087 6.494893 TCCTCTGTCCAAAATTAATTGACG 57.505 37.500 0.39 3.00 31.84 4.35
659 1091 7.282224 CCTCTGTCCAAAATTAATTGACGGATA 59.718 37.037 20.52 14.76 31.53 2.59
661 1093 9.015367 TCTGTCCAAAATTAATTGACGGATAAA 57.985 29.630 18.09 3.35 31.84 1.40
665 1097 7.708752 TCCAAAATTAATTGACGGATAAATGGC 59.291 33.333 0.39 0.00 31.84 4.40
667 1099 9.743057 CAAAATTAATTGACGGATAAATGGCTA 57.257 29.630 0.39 0.00 31.84 3.93
673 1105 8.647143 AATTGACGGATAAATGGCTAAAAATG 57.353 30.769 0.00 0.00 0.00 2.32
674 1106 7.397892 TTGACGGATAAATGGCTAAAAATGA 57.602 32.000 0.00 0.00 0.00 2.57
676 1108 8.006298 TGACGGATAAATGGCTAAAAATGAAT 57.994 30.769 0.00 0.00 0.00 2.57
677 1109 7.920151 TGACGGATAAATGGCTAAAAATGAATG 59.080 33.333 0.00 0.00 0.00 2.67
678 1110 7.781056 ACGGATAAATGGCTAAAAATGAATGT 58.219 30.769 0.00 0.00 0.00 2.71
679 1111 8.908903 ACGGATAAATGGCTAAAAATGAATGTA 58.091 29.630 0.00 0.00 0.00 2.29
680 1112 9.912634 CGGATAAATGGCTAAAAATGAATGTAT 57.087 29.630 0.00 0.00 0.00 2.29
687 1119 9.950680 ATGGCTAAAAATGAATGTATCTAAACG 57.049 29.630 0.00 0.00 0.00 3.60
689 1121 8.617809 GGCTAAAAATGAATGTATCTAAACGGA 58.382 33.333 0.00 0.00 0.00 4.69
690 1122 9.651718 GCTAAAAATGAATGTATCTAAACGGAG 57.348 33.333 0.00 0.00 0.00 4.63
693 1125 6.494666 AATGAATGTATCTAAACGGAGGGA 57.505 37.500 0.00 0.00 0.00 4.20
694 1126 5.531122 TGAATGTATCTAAACGGAGGGAG 57.469 43.478 0.00 0.00 0.00 4.30
695 1127 4.960469 TGAATGTATCTAAACGGAGGGAGT 59.040 41.667 0.00 0.00 0.00 3.85
702 2111 5.184892 TCTAAACGGAGGGAGTTACTAGT 57.815 43.478 0.00 0.00 0.00 2.57
767 2209 4.219143 CGCACTCCGTACATACTCAATA 57.781 45.455 0.00 0.00 0.00 1.90
861 2303 0.249447 CTCAGCCGTCCATCGCATAA 60.249 55.000 0.00 0.00 38.35 1.90
891 2333 0.109723 AACATTGTACCACCTGGCGT 59.890 50.000 0.00 0.00 39.32 5.68
1073 2515 2.590114 GGTACCTCCACCGCAACCT 61.590 63.158 4.06 0.00 35.97 3.50
1080 2522 1.122632 TCCACCGCAACCTCCAGTTA 61.123 55.000 0.00 0.00 36.18 2.24
1093 2535 1.589716 CCAGTTACTGCAGCCCAAGC 61.590 60.000 15.27 0.00 40.32 4.01
1250 2692 1.673033 CCTCTGGAAGGTAAGCACGTG 60.673 57.143 12.28 12.28 40.67 4.49
1252 2694 0.602638 CTGGAAGGTAAGCACGTGCA 60.603 55.000 39.21 19.92 45.16 4.57
1257 2699 2.613506 GGTAAGCACGTGCACCACC 61.614 63.158 39.21 33.88 45.16 4.61
1268 2710 2.743928 CACCACCGCAGCCTTCTC 60.744 66.667 0.00 0.00 0.00 2.87
1272 2714 1.141881 CACCGCAGCCTTCTCGTAT 59.858 57.895 0.00 0.00 0.00 3.06
1273 2715 0.384309 CACCGCAGCCTTCTCGTATA 59.616 55.000 0.00 0.00 0.00 1.47
1274 2716 0.384669 ACCGCAGCCTTCTCGTATAC 59.615 55.000 0.00 0.00 0.00 1.47
1304 2746 4.549458 ACATGAAGTGAAATTTCCAAGCG 58.451 39.130 15.48 1.44 30.58 4.68
1313 2755 0.665835 ATTTCCAAGCGCACGTGAAA 59.334 45.000 22.23 13.11 0.00 2.69
1328 2770 2.495939 GTGAAATGAATCGTGTGACGC 58.504 47.619 0.00 0.00 42.21 5.19
1369 2811 5.713792 TCAGATATTTAGCTCGAAGGAGG 57.286 43.478 0.00 0.00 40.80 4.30
1370 2812 5.386060 TCAGATATTTAGCTCGAAGGAGGA 58.614 41.667 0.00 0.00 40.80 3.71
1371 2813 5.475220 TCAGATATTTAGCTCGAAGGAGGAG 59.525 44.000 0.00 0.00 40.80 3.69
1372 2814 4.770010 AGATATTTAGCTCGAAGGAGGAGG 59.230 45.833 0.00 0.00 40.80 4.30
1373 2815 2.526888 TTTAGCTCGAAGGAGGAGGA 57.473 50.000 0.00 0.00 40.80 3.71
1374 2816 2.060050 TTAGCTCGAAGGAGGAGGAG 57.940 55.000 0.00 0.00 40.80 3.69
1375 2817 0.183971 TAGCTCGAAGGAGGAGGAGG 59.816 60.000 0.00 0.00 40.80 4.30
1376 2818 2.131067 GCTCGAAGGAGGAGGAGGG 61.131 68.421 0.00 0.00 40.80 4.30
1377 2819 1.615814 CTCGAAGGAGGAGGAGGGA 59.384 63.158 0.00 0.00 36.61 4.20
1378 2820 0.467290 CTCGAAGGAGGAGGAGGGAG 60.467 65.000 0.00 0.00 36.61 4.30
1379 2821 1.456705 CGAAGGAGGAGGAGGGAGG 60.457 68.421 0.00 0.00 0.00 4.30
1380 2822 1.764454 GAAGGAGGAGGAGGGAGGC 60.764 68.421 0.00 0.00 0.00 4.70
1795 3275 0.970937 CCAAGGGAGGCGACTGACTA 60.971 60.000 0.00 0.00 44.43 2.59
1816 3296 1.520494 ACTGATGCAGCAGTCAAGTG 58.480 50.000 30.97 7.71 45.54 3.16
1833 3313 2.380084 GTGTAGGCACTTCGATCCAA 57.620 50.000 0.00 0.00 42.13 3.53
1859 3360 4.913924 GCACTTGCTGTTTTAGATGTTCTG 59.086 41.667 0.00 0.00 38.21 3.02
1860 3361 4.913924 CACTTGCTGTTTTAGATGTTCTGC 59.086 41.667 0.00 0.00 0.00 4.26
2054 3561 2.827322 TCAATGCTTGGGAAATGACCTG 59.173 45.455 0.00 0.00 0.00 4.00
2159 3666 5.428253 ACACGTCTGCCAGAATATTTACAT 58.572 37.500 0.00 0.00 0.00 2.29
2188 3696 2.282180 GAAGAACCAGGCGCCCAA 60.282 61.111 26.15 0.00 0.00 4.12
2230 3738 2.821969 CCAGTTGGAGAAAATCACCTGG 59.178 50.000 0.00 0.00 37.39 4.45
2297 3805 5.847111 ATGTACATACGCTAACTGGAAGA 57.153 39.130 6.56 0.00 37.43 2.87
2322 3830 1.892209 GTGAAACCATTGAGGGACGT 58.108 50.000 0.00 0.00 43.89 4.34
2398 3907 6.223120 GCAAAATTTGGTAGAAATCACCAGT 58.777 36.000 7.89 0.00 46.44 4.00
2670 4179 9.897744 TTAAACAAGATCACAGTGAATTCATTC 57.102 29.630 12.12 0.00 37.31 2.67
2768 4277 4.539870 CATCAACCTGCAAAAGTGTGTAG 58.460 43.478 0.00 0.00 0.00 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 2.232941 AGAACCAAGCCAGCAATGAATG 59.767 45.455 0.00 0.00 0.00 2.67
40 41 3.697166 GAATTCCTAGGCCAAGAACCAA 58.303 45.455 5.01 0.00 0.00 3.67
49 50 2.640316 ATCCAACGAATTCCTAGGCC 57.360 50.000 2.96 0.00 0.00 5.19
77 78 4.695231 CCCAACGCGTCGTCGACT 62.695 66.667 22.18 1.69 39.99 4.18
257 646 9.952030 TCATTTTCTCCATACAATGTACAGTAA 57.048 29.630 0.33 0.00 0.00 2.24
259 648 9.113838 GATCATTTTCTCCATACAATGTACAGT 57.886 33.333 0.33 0.00 0.00 3.55
260 649 8.562892 GGATCATTTTCTCCATACAATGTACAG 58.437 37.037 0.33 0.00 0.00 2.74
261 650 7.502226 GGGATCATTTTCTCCATACAATGTACA 59.498 37.037 0.00 0.00 32.90 2.90
262 651 7.040409 GGGGATCATTTTCTCCATACAATGTAC 60.040 40.741 0.00 0.00 36.18 2.90
263 652 7.004086 GGGGATCATTTTCTCCATACAATGTA 58.996 38.462 0.00 0.00 36.18 2.29
264 653 5.835280 GGGGATCATTTTCTCCATACAATGT 59.165 40.000 0.00 0.00 36.18 2.71
265 654 5.048504 CGGGGATCATTTTCTCCATACAATG 60.049 44.000 0.00 0.00 35.87 2.82
266 655 5.072741 CGGGGATCATTTTCTCCATACAAT 58.927 41.667 0.00 0.00 35.87 2.71
278 667 1.004745 ACTGAAGCACGGGGATCATTT 59.995 47.619 0.00 0.00 0.00 2.32
301 690 1.786579 GATTCACGGCACAAACAAAGC 59.213 47.619 0.00 0.00 0.00 3.51
309 698 0.460109 CATCCTCGATTCACGGCACA 60.460 55.000 0.00 0.00 42.82 4.57
322 711 0.095417 GCGTCGTTCTTTGCATCCTC 59.905 55.000 0.00 0.00 0.00 3.71
351 740 3.587797 ATGCTGCCATTTTCAGAGTTG 57.412 42.857 0.00 0.00 33.54 3.16
374 763 4.827304 TTTCACGCAATCAACAATCAGA 57.173 36.364 0.00 0.00 0.00 3.27
387 776 2.609916 TGTTCGATTCTGTTTTCACGCA 59.390 40.909 0.00 0.00 0.00 5.24
415 807 5.086104 TCTATGGTCTTTTCTGGCTACAC 57.914 43.478 0.00 0.00 0.00 2.90
459 890 3.135994 GCACGTTACCATCGGGATTATT 58.864 45.455 0.00 0.00 38.05 1.40
525 956 0.247736 ACACAGGAGCAATCCTCGAC 59.752 55.000 0.00 0.00 41.71 4.20
532 963 4.517285 ACGATTTCATACACAGGAGCAAT 58.483 39.130 0.00 0.00 0.00 3.56
553 984 4.644954 GTCCGTTATCCAATTTGTCGAAC 58.355 43.478 0.00 0.00 0.00 3.95
566 998 4.620184 GGCAGTACAATATCGTCCGTTATC 59.380 45.833 0.00 0.00 0.00 1.75
575 1007 1.577468 TTGCGGGCAGTACAATATCG 58.423 50.000 0.00 0.00 0.00 2.92
629 1061 8.028938 CGTCAATTAATTTTGGACAGAGGAAAT 58.971 33.333 14.18 0.00 0.00 2.17
630 1062 7.367285 CGTCAATTAATTTTGGACAGAGGAAA 58.633 34.615 14.18 0.00 0.00 3.13
631 1063 6.072175 CCGTCAATTAATTTTGGACAGAGGAA 60.072 38.462 14.18 0.00 0.00 3.36
632 1064 5.414454 CCGTCAATTAATTTTGGACAGAGGA 59.586 40.000 14.18 0.00 0.00 3.71
633 1065 5.414454 TCCGTCAATTAATTTTGGACAGAGG 59.586 40.000 14.18 9.17 0.00 3.69
634 1066 6.494893 TCCGTCAATTAATTTTGGACAGAG 57.505 37.500 14.18 5.70 0.00 3.35
635 1067 8.568676 TTATCCGTCAATTAATTTTGGACAGA 57.431 30.769 12.63 9.18 0.00 3.41
636 1068 9.801873 ATTTATCCGTCAATTAATTTTGGACAG 57.198 29.630 12.63 5.05 0.00 3.51
637 1069 9.579768 CATTTATCCGTCAATTAATTTTGGACA 57.420 29.630 12.63 2.20 0.00 4.02
638 1070 9.030301 CCATTTATCCGTCAATTAATTTTGGAC 57.970 33.333 12.63 9.82 0.00 4.02
640 1072 7.710475 AGCCATTTATCCGTCAATTAATTTTGG 59.290 33.333 0.00 1.14 0.00 3.28
647 1079 9.743057 CATTTTTAGCCATTTATCCGTCAATTA 57.257 29.630 0.00 0.00 0.00 1.40
648 1080 8.474025 TCATTTTTAGCCATTTATCCGTCAATT 58.526 29.630 0.00 0.00 0.00 2.32
649 1081 8.006298 TCATTTTTAGCCATTTATCCGTCAAT 57.994 30.769 0.00 0.00 0.00 2.57
651 1083 7.397892 TTCATTTTTAGCCATTTATCCGTCA 57.602 32.000 0.00 0.00 0.00 4.35
661 1093 9.950680 CGTTTAGATACATTCATTTTTAGCCAT 57.049 29.630 0.00 0.00 0.00 4.40
667 1099 7.832187 TCCCTCCGTTTAGATACATTCATTTTT 59.168 33.333 0.00 0.00 0.00 1.94
668 1100 7.343357 TCCCTCCGTTTAGATACATTCATTTT 58.657 34.615 0.00 0.00 0.00 1.82
670 1102 6.099845 ACTCCCTCCGTTTAGATACATTCATT 59.900 38.462 0.00 0.00 0.00 2.57
671 1103 5.602978 ACTCCCTCCGTTTAGATACATTCAT 59.397 40.000 0.00 0.00 0.00 2.57
672 1104 4.960469 ACTCCCTCCGTTTAGATACATTCA 59.040 41.667 0.00 0.00 0.00 2.57
673 1105 5.532664 ACTCCCTCCGTTTAGATACATTC 57.467 43.478 0.00 0.00 0.00 2.67
674 1106 5.952347 AACTCCCTCCGTTTAGATACATT 57.048 39.130 0.00 0.00 0.00 2.71
676 1108 5.513233 AGTAACTCCCTCCGTTTAGATACA 58.487 41.667 0.00 0.00 0.00 2.29
677 1109 6.770303 ACTAGTAACTCCCTCCGTTTAGATAC 59.230 42.308 0.00 0.00 0.00 2.24
678 1110 6.904626 ACTAGTAACTCCCTCCGTTTAGATA 58.095 40.000 0.00 0.00 0.00 1.98
679 1111 5.764432 ACTAGTAACTCCCTCCGTTTAGAT 58.236 41.667 0.00 0.00 0.00 1.98
680 1112 5.184892 ACTAGTAACTCCCTCCGTTTAGA 57.815 43.478 0.00 0.00 0.00 2.10
681 1113 6.375455 TGTTACTAGTAACTCCCTCCGTTTAG 59.625 42.308 34.33 0.00 44.21 1.85
682 1114 6.245408 TGTTACTAGTAACTCCCTCCGTTTA 58.755 40.000 34.33 15.50 44.21 2.01
683 1115 5.079643 TGTTACTAGTAACTCCCTCCGTTT 58.920 41.667 34.33 0.00 44.21 3.60
684 1116 4.666512 TGTTACTAGTAACTCCCTCCGTT 58.333 43.478 34.33 0.00 44.21 4.44
685 1117 4.307032 TGTTACTAGTAACTCCCTCCGT 57.693 45.455 34.33 0.00 44.21 4.69
686 1118 5.649782 TTTGTTACTAGTAACTCCCTCCG 57.350 43.478 34.33 0.00 44.21 4.63
687 1119 6.872547 CACTTTTGTTACTAGTAACTCCCTCC 59.127 42.308 34.33 15.74 44.21 4.30
689 1121 7.370905 ACACTTTTGTTACTAGTAACTCCCT 57.629 36.000 34.33 17.47 44.21 4.20
690 1122 9.546428 TTTACACTTTTGTTACTAGTAACTCCC 57.454 33.333 34.33 17.23 44.21 4.30
702 2111 7.692908 GCTCATTGCTTTTACACTTTTGTTA 57.307 32.000 0.00 0.00 36.55 2.41
861 2303 4.581409 GTGGTACAATGTTACTGGGTGTTT 59.419 41.667 0.00 0.00 44.16 2.83
891 2333 1.412649 GGAAGAGATAGGAACCGGGGA 60.413 57.143 6.32 0.00 0.00 4.81
897 2339 1.418264 GGGGCAGGAAGAGATAGGAAC 59.582 57.143 0.00 0.00 0.00 3.62
1008 2450 4.811364 GCAAGGGGGAGAGCTGGC 62.811 72.222 0.00 0.00 0.00 4.85
1073 2515 0.036732 CTTGGGCTGCAGTAACTGGA 59.963 55.000 16.64 0.00 31.21 3.86
1252 2694 4.379243 CGAGAAGGCTGCGGTGGT 62.379 66.667 0.00 0.00 0.00 4.16
1257 2699 2.918616 GTAGTATACGAGAAGGCTGCG 58.081 52.381 0.00 0.00 0.00 5.18
1274 2716 9.093970 TGGAAATTTCACTTCATGTATACGTAG 57.906 33.333 19.49 0.00 0.00 3.51
1313 2755 0.246360 TCAGGCGTCACACGATTCAT 59.754 50.000 0.00 0.00 46.05 2.57
1328 2770 0.381801 AAGCAAGCAAACACGTCAGG 59.618 50.000 0.00 0.00 0.00 3.86
1369 2811 2.042843 TTCCTCGCCTCCCTCCTC 60.043 66.667 0.00 0.00 0.00 3.71
1370 2812 2.042435 CTTCCTCGCCTCCCTCCT 60.042 66.667 0.00 0.00 0.00 3.69
1371 2813 3.157949 CCTTCCTCGCCTCCCTCC 61.158 72.222 0.00 0.00 0.00 4.30
1372 2814 3.157949 CCCTTCCTCGCCTCCCTC 61.158 72.222 0.00 0.00 0.00 4.30
1373 2815 4.806339 CCCCTTCCTCGCCTCCCT 62.806 72.222 0.00 0.00 0.00 4.20
1374 2816 4.798682 TCCCCTTCCTCGCCTCCC 62.799 72.222 0.00 0.00 0.00 4.30
1375 2817 3.157949 CTCCCCTTCCTCGCCTCC 61.158 72.222 0.00 0.00 0.00 4.30
1376 2818 3.157949 CCTCCCCTTCCTCGCCTC 61.158 72.222 0.00 0.00 0.00 4.70
1377 2819 3.684628 TCCTCCCCTTCCTCGCCT 61.685 66.667 0.00 0.00 0.00 5.52
1378 2820 3.157949 CTCCTCCCCTTCCTCGCC 61.158 72.222 0.00 0.00 0.00 5.54
1379 2821 3.157949 CCTCCTCCCCTTCCTCGC 61.158 72.222 0.00 0.00 0.00 5.03
1380 2822 2.444895 CCCTCCTCCCCTTCCTCG 60.445 72.222 0.00 0.00 0.00 4.63
1816 3296 2.271800 CACTTGGATCGAAGTGCCTAC 58.728 52.381 29.85 0.00 44.70 3.18
1833 3313 3.885297 ACATCTAAAACAGCAAGTGCACT 59.115 39.130 15.25 15.25 45.16 4.40
1846 3326 9.719355 TCATTTACACTAGCAGAACATCTAAAA 57.281 29.630 0.00 0.00 0.00 1.52
1859 3360 7.553881 TTAGCCAGATTTCATTTACACTAGC 57.446 36.000 0.00 0.00 0.00 3.42
1860 3361 9.167311 ACTTTAGCCAGATTTCATTTACACTAG 57.833 33.333 0.00 0.00 0.00 2.57
2011 3518 3.866651 AGGTTTCTGGACTCATCATTCG 58.133 45.455 0.00 0.00 0.00 3.34
2054 3561 5.574443 GCAAATTCCATGCAGAAGAGTTTAC 59.426 40.000 0.00 0.00 43.29 2.01
2159 3666 2.951642 CTGGTTCTTCCTCTGCAAAACA 59.048 45.455 0.00 0.00 37.07 2.83
2230 3738 0.390472 AGTCTGCCGCTTGAGCTTAC 60.390 55.000 1.07 0.00 39.32 2.34
2297 3805 2.225117 CCCTCAATGGTTTCACCTCCTT 60.225 50.000 0.00 0.00 39.58 3.36
2318 3826 6.462073 TCAGTAACTTATTGCTTTGACGTC 57.538 37.500 9.11 9.11 0.00 4.34
2322 3830 7.561021 TGTGTTCAGTAACTTATTGCTTTGA 57.439 32.000 0.00 0.00 36.51 2.69
2398 3907 2.158158 TCTTCCTGGGACTCTTTGGAGA 60.158 50.000 0.00 0.00 41.86 3.71
2670 4179 4.504858 AGAACAGCACGTATCCTTTAAGG 58.495 43.478 4.29 4.29 36.46 2.69
2768 4277 1.452833 GACCCAGGGCTCATGCTTC 60.453 63.158 4.91 0.00 39.59 3.86


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

AutoCloner maintained by Alex Coulton.