Multiple sequence alignment - TraesCS5B01G325300

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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 TraesCS5B01G325300 chr5B 100.000 2609 0 0 1 2609 509190202 509192810 0.000000e+00 4819.0
1 TraesCS5B01G325300 chr5B 84.770 1044 89 28 795 1799 509171942 509172954 0.000000e+00 983.0
2 TraesCS5B01G325300 chr5B 100.000 30 0 0 612 641 509190842 509190813 3.630000e-04 56.5
3 TraesCS5B01G325300 chr5A 88.221 1647 114 28 695 2299 535674026 535675634 0.000000e+00 1893.0
4 TraesCS5B01G325300 chr5A 84.261 1150 92 40 695 1799 535653327 535654432 0.000000e+00 1038.0
5 TraesCS5B01G325300 chr5A 89.951 617 36 4 1 606 535672949 535673550 0.000000e+00 773.0
6 TraesCS5B01G325300 chr5A 93.496 246 13 2 2364 2609 535676006 535676248 1.910000e-96 363.0
7 TraesCS5B01G325300 chr5D 90.828 1232 69 15 695 1900 422436663 422437876 0.000000e+00 1609.0
8 TraesCS5B01G325300 chr5D 84.825 1173 82 46 695 1799 422419905 422421049 0.000000e+00 1092.0
9 TraesCS5B01G325300 chr5D 92.233 618 34 3 1 606 422435743 422436358 0.000000e+00 863.0
10 TraesCS5B01G325300 chr5D 84.384 365 26 9 2138 2471 422437959 422438323 1.940000e-86 329.0
11 TraesCS5B01G325300 chr5D 89.130 138 12 2 2472 2609 422438424 422438558 4.470000e-38 169.0
12 TraesCS5B01G325300 chr6A 79.934 608 93 9 9 590 60440966 60440362 1.120000e-113 420.0
13 TraesCS5B01G325300 chr6B 79.276 608 97 12 9 590 115943164 115942560 5.230000e-107 398.0
14 TraesCS5B01G325300 chr6B 76.636 428 77 17 187 599 5783422 5783003 5.660000e-52 215.0
15 TraesCS5B01G325300 chr3D 78.686 624 101 18 6 604 297694051 297694667 1.130000e-103 387.0
16 TraesCS5B01G325300 chr2B 74.729 554 104 22 9 534 755924626 755924081 5.660000e-52 215.0
17 TraesCS5B01G325300 chr6D 76.944 360 64 13 194 540 1478822 1478469 1.230000e-43 187.0


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 TraesCS5B01G325300 chr5B 509190202 509192810 2608 False 4819.000000 4819 100.00000 1 2609 1 chr5B.!!$F2 2608
1 TraesCS5B01G325300 chr5B 509171942 509172954 1012 False 983.000000 983 84.77000 795 1799 1 chr5B.!!$F1 1004
2 TraesCS5B01G325300 chr5A 535653327 535654432 1105 False 1038.000000 1038 84.26100 695 1799 1 chr5A.!!$F1 1104
3 TraesCS5B01G325300 chr5A 535672949 535676248 3299 False 1009.666667 1893 90.55600 1 2609 3 chr5A.!!$F2 2608
4 TraesCS5B01G325300 chr5D 422419905 422421049 1144 False 1092.000000 1092 84.82500 695 1799 1 chr5D.!!$F1 1104
5 TraesCS5B01G325300 chr5D 422435743 422438558 2815 False 742.500000 1609 89.14375 1 2609 4 chr5D.!!$F2 2608
6 TraesCS5B01G325300 chr6A 60440362 60440966 604 True 420.000000 420 79.93400 9 590 1 chr6A.!!$R1 581
7 TraesCS5B01G325300 chr6B 115942560 115943164 604 True 398.000000 398 79.27600 9 590 1 chr6B.!!$R2 581
8 TraesCS5B01G325300 chr3D 297694051 297694667 616 False 387.000000 387 78.68600 6 604 1 chr3D.!!$F1 598
9 TraesCS5B01G325300 chr2B 755924081 755924626 545 True 215.000000 215 74.72900 9 534 1 chr2B.!!$R1 525

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
420 449 1.004918 CGTCGCCTTCCCAAAGAGT 60.005 57.895 0.0 0.0 34.14 3.24 F
772 1228 1.134560 GCGGAAATAGTCGGTGTCTCT 59.865 52.381 0.0 0.0 0.00 3.10 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1284 1796 0.105964 CGACCACCAAGAAGTCCACA 59.894 55.0 0.0 0.0 0.0 4.17 R
2221 2804 0.242017 GCCCTTTGTGTCTCATGTGC 59.758 55.0 0.0 0.0 0.0 4.57 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
197 213 6.924111 TCAGTTTTGAGGCCAAATTTATCTC 58.076 36.000 5.01 0.00 41.43 2.75
377 406 4.101645 TCCAAACCCGATTTAGGACAAA 57.898 40.909 0.00 0.00 0.00 2.83
378 407 4.471548 TCCAAACCCGATTTAGGACAAAA 58.528 39.130 0.00 0.00 0.00 2.44
403 432 6.648725 AAATTCTTGATCCGAAGTAAGTCG 57.351 37.500 0.00 0.00 40.77 4.18
407 436 1.202110 TGATCCGAAGTAAGTCGTCGC 60.202 52.381 0.00 0.00 44.22 5.19
420 449 1.004918 CGTCGCCTTCCCAAAGAGT 60.005 57.895 0.00 0.00 34.14 3.24
489 518 4.256920 ACAATCTGCATTAGGAGTGTGAC 58.743 43.478 6.04 0.00 38.92 3.67
491 520 4.833478 ATCTGCATTAGGAGTGTGACTT 57.167 40.909 0.00 0.00 34.40 3.01
560 589 7.342194 TCAAACTTTCGTTCTTAACAGAATCG 58.658 34.615 0.00 0.00 41.26 3.34
569 599 9.146984 TCGTTCTTAACAGAATCGTCAAATAAT 57.853 29.630 0.00 0.00 41.26 1.28
606 637 6.492087 TCTTTATCCGAAAGTTTGGAATTGGT 59.508 34.615 4.09 0.00 43.75 3.67
607 638 4.519540 ATCCGAAAGTTTGGAATTGGTG 57.480 40.909 4.09 0.00 43.75 4.17
608 639 3.556999 TCCGAAAGTTTGGAATTGGTGA 58.443 40.909 0.00 0.00 37.80 4.02
609 640 3.954904 TCCGAAAGTTTGGAATTGGTGAA 59.045 39.130 0.00 0.00 37.80 3.18
610 641 4.402793 TCCGAAAGTTTGGAATTGGTGAAA 59.597 37.500 0.00 0.00 37.80 2.69
611 642 4.744631 CCGAAAGTTTGGAATTGGTGAAAG 59.255 41.667 0.00 0.00 33.23 2.62
613 644 6.215845 CGAAAGTTTGGAATTGGTGAAAGAT 58.784 36.000 0.00 0.00 0.00 2.40
614 645 6.144402 CGAAAGTTTGGAATTGGTGAAAGATG 59.856 38.462 0.00 0.00 0.00 2.90
618 649 5.664294 TTGGAATTGGTGAAAGATGGATG 57.336 39.130 0.00 0.00 0.00 3.51
619 650 4.676109 TGGAATTGGTGAAAGATGGATGT 58.324 39.130 0.00 0.00 0.00 3.06
620 651 5.085920 TGGAATTGGTGAAAGATGGATGTT 58.914 37.500 0.00 0.00 0.00 2.71
648 1103 6.710744 GGTACCCTAACATCCATCAATTACTG 59.289 42.308 0.00 0.00 0.00 2.74
665 1120 6.605471 ATTACTGATTGATATGGCCGTAGA 57.395 37.500 11.11 0.00 0.00 2.59
666 1121 4.527509 ACTGATTGATATGGCCGTAGAG 57.472 45.455 11.11 2.30 0.00 2.43
667 1122 4.152647 ACTGATTGATATGGCCGTAGAGA 58.847 43.478 11.11 0.00 0.00 3.10
668 1123 4.588951 ACTGATTGATATGGCCGTAGAGAA 59.411 41.667 11.11 3.43 0.00 2.87
669 1124 5.070446 ACTGATTGATATGGCCGTAGAGAAA 59.930 40.000 11.11 2.73 0.00 2.52
670 1125 5.297547 TGATTGATATGGCCGTAGAGAAAC 58.702 41.667 11.11 2.90 0.00 2.78
671 1126 4.746535 TTGATATGGCCGTAGAGAAACA 57.253 40.909 11.11 1.53 0.00 2.83
672 1127 4.955811 TGATATGGCCGTAGAGAAACAT 57.044 40.909 11.11 0.00 0.00 2.71
673 1128 6.413783 TTGATATGGCCGTAGAGAAACATA 57.586 37.500 11.11 0.00 0.00 2.29
674 1129 6.605471 TGATATGGCCGTAGAGAAACATAT 57.395 37.500 11.11 0.00 35.06 1.78
675 1130 6.398095 TGATATGGCCGTAGAGAAACATATG 58.602 40.000 11.11 0.00 33.19 1.78
676 1131 3.469008 TGGCCGTAGAGAAACATATGG 57.531 47.619 7.80 0.00 0.00 2.74
677 1132 3.035363 TGGCCGTAGAGAAACATATGGA 58.965 45.455 7.80 0.00 30.80 3.41
678 1133 3.646162 TGGCCGTAGAGAAACATATGGAT 59.354 43.478 7.80 0.00 30.80 3.41
679 1134 4.102524 TGGCCGTAGAGAAACATATGGATT 59.897 41.667 7.80 1.56 30.80 3.01
680 1135 5.063880 GGCCGTAGAGAAACATATGGATTT 58.936 41.667 7.80 0.00 30.80 2.17
681 1136 5.531287 GGCCGTAGAGAAACATATGGATTTT 59.469 40.000 7.80 0.00 30.80 1.82
682 1137 6.039382 GGCCGTAGAGAAACATATGGATTTTT 59.961 38.462 7.80 0.00 30.80 1.94
767 1223 2.522638 GCGGCGGAAATAGTCGGTG 61.523 63.158 9.78 0.00 37.18 4.94
772 1228 1.134560 GCGGAAATAGTCGGTGTCTCT 59.865 52.381 0.00 0.00 0.00 3.10
773 1229 2.798680 CGGAAATAGTCGGTGTCTCTG 58.201 52.381 0.00 0.00 0.00 3.35
806 1285 1.826487 ACCCAGCCCAAAACGTGTC 60.826 57.895 0.00 0.00 0.00 3.67
851 1330 3.610669 CCCTGCCTCCCGATCGAG 61.611 72.222 18.66 2.49 0.00 4.04
879 1367 4.142966 GGTTGTCAACGCTTATTGGAGTAC 60.143 45.833 9.57 0.00 0.00 2.73
880 1368 4.530710 TGTCAACGCTTATTGGAGTACT 57.469 40.909 0.00 0.00 0.00 2.73
881 1369 4.491676 TGTCAACGCTTATTGGAGTACTC 58.508 43.478 14.87 14.87 0.00 2.59
932 1423 1.757764 GCACCAACCCTTTCTTCCCTT 60.758 52.381 0.00 0.00 0.00 3.95
997 1503 2.175202 GAGTGAGAGAAAGAGAGGCCA 58.825 52.381 5.01 0.00 0.00 5.36
1284 1796 0.848735 CCATGGTGGAGATGGATGGT 59.151 55.000 2.57 0.00 42.81 3.55
1612 2124 0.742990 CTTCCGGCGGCAGTAATTCA 60.743 55.000 23.83 0.00 0.00 2.57
1613 2125 0.321741 TTCCGGCGGCAGTAATTCAA 60.322 50.000 23.83 3.57 0.00 2.69
1614 2126 0.321741 TCCGGCGGCAGTAATTCAAA 60.322 50.000 23.83 0.00 0.00 2.69
1615 2127 0.098728 CCGGCGGCAGTAATTCAAAG 59.901 55.000 15.42 0.00 0.00 2.77
1616 2128 0.802494 CGGCGGCAGTAATTCAAAGT 59.198 50.000 10.53 0.00 0.00 2.66
1617 2129 1.199097 CGGCGGCAGTAATTCAAAGTT 59.801 47.619 10.53 0.00 0.00 2.66
1618 2130 2.351350 CGGCGGCAGTAATTCAAAGTTT 60.351 45.455 10.53 0.00 0.00 2.66
1619 2131 3.242518 GGCGGCAGTAATTCAAAGTTTC 58.757 45.455 3.07 0.00 0.00 2.78
1655 2167 4.751060 TCCTGTACATCAATCGGTTGTAC 58.249 43.478 8.54 5.27 46.13 2.90
1657 2188 4.804139 CCTGTACATCAATCGGTTGTACTC 59.196 45.833 8.54 0.00 46.11 2.59
1740 2288 1.133915 GGAGGGAAACTGTGGTGAACA 60.134 52.381 0.00 0.00 37.22 3.18
1813 2370 3.153919 TGTGAATTTGAGTACCCTTGGC 58.846 45.455 0.00 0.00 0.00 4.52
1860 2421 7.453393 AGATGGTCTCTTAAGTTCAACAATCA 58.547 34.615 1.63 0.00 0.00 2.57
1861 2422 7.939039 AGATGGTCTCTTAAGTTCAACAATCAA 59.061 33.333 1.63 0.00 0.00 2.57
1871 2432 4.036734 AGTTCAACAATCAAAGTGCATCGT 59.963 37.500 0.00 0.00 0.00 3.73
1929 2512 8.650714 GTTGAAATTAGCAAAATCATCTCCAAC 58.349 33.333 0.00 0.00 0.00 3.77
1969 2552 6.936335 TCTCATCCATATTAATTGACGCACAT 59.064 34.615 0.00 0.00 0.00 3.21
1973 2556 9.117145 CATCCATATTAATTGACGCACATTTAC 57.883 33.333 0.00 0.00 0.00 2.01
1974 2557 8.214721 TCCATATTAATTGACGCACATTTACA 57.785 30.769 0.00 0.00 0.00 2.41
1975 2558 8.845227 TCCATATTAATTGACGCACATTTACAT 58.155 29.630 0.00 0.00 0.00 2.29
1976 2559 9.462174 CCATATTAATTGACGCACATTTACATT 57.538 29.630 0.00 0.00 0.00 2.71
1986 2569 9.976255 TGACGCACATTTACATTTAGTATAAAC 57.024 29.630 0.00 0.00 31.53 2.01
2022 2605 9.712305 AGGTATAATCGATTTGAATAGAAGGTG 57.288 33.333 17.19 0.00 0.00 4.00
2035 2618 0.596600 GAAGGTGTCACGCTCGTTGA 60.597 55.000 0.00 0.00 0.00 3.18
2062 2645 0.876342 CTCTTCGTTCATAGGGCCGC 60.876 60.000 0.00 0.00 0.00 6.53
2063 2646 2.202824 TTCGTTCATAGGGCCGCG 60.203 61.111 0.00 0.00 0.00 6.46
2064 2647 2.622903 CTTCGTTCATAGGGCCGCGA 62.623 60.000 8.23 0.00 0.00 5.87
2065 2648 2.894240 TTCGTTCATAGGGCCGCGAC 62.894 60.000 8.23 0.00 0.00 5.19
2066 2649 2.185867 GTTCATAGGGCCGCGACA 59.814 61.111 8.23 0.00 0.00 4.35
2073 2656 2.932569 TAGGGCCGCGACATAAGGGA 62.933 60.000 8.23 0.00 0.00 4.20
2077 2660 1.067582 CCGCGACATAAGGGACCTC 59.932 63.158 8.23 0.00 0.00 3.85
2110 2693 0.331278 CCAAAGCCTATCCACCCACA 59.669 55.000 0.00 0.00 0.00 4.17
2115 2698 1.427368 AGCCTATCCACCCACAAACAA 59.573 47.619 0.00 0.00 0.00 2.83
2122 2705 0.804156 CACCCACAAACAACGGCAAC 60.804 55.000 0.00 0.00 0.00 4.17
2136 2719 6.276847 ACAACGGCAACAAAAATTGATAGAA 58.723 32.000 0.00 0.00 0.00 2.10
2198 2781 0.690762 GGCAACTCACTAGGTCCCAA 59.309 55.000 0.00 0.00 0.00 4.12
2209 2792 3.414700 GTCCCAACAGCGCACTCG 61.415 66.667 11.47 0.00 39.07 4.18
2238 2821 1.538512 CTGGCACATGAGACACAAAGG 59.461 52.381 0.00 0.00 38.20 3.11
2257 2840 3.740397 CCACACATGCGCCACCTG 61.740 66.667 4.18 0.00 0.00 4.00
2271 2887 0.179076 CACCTGTGAGCACTGACACA 60.179 55.000 8.79 0.00 43.31 3.72
2298 2914 2.542618 CGCAAAAAGCCATACACACACA 60.543 45.455 0.00 0.00 41.38 3.72
2306 2922 4.393834 AGCCATACACACACAACACATAA 58.606 39.130 0.00 0.00 0.00 1.90
2320 2936 4.766404 ACACATAAGTAGGCACAAAAGC 57.234 40.909 0.00 0.00 0.00 3.51
2410 3336 8.092521 GCATGACTGCTATGACAATAAGTATT 57.907 34.615 0.00 0.00 45.32 1.89
2411 3337 8.562892 GCATGACTGCTATGACAATAAGTATTT 58.437 33.333 0.00 0.00 45.32 1.40
2420 3346 9.537192 CTATGACAATAAGTATTTCCGTAACCA 57.463 33.333 0.00 0.00 0.00 3.67
2450 3376 3.133542 TCCTAGCTCCACTGTGAATGATG 59.866 47.826 9.86 0.00 0.00 3.07
2482 3508 7.057149 TGTTGCTCTAAAAAGTTAGCGTATC 57.943 36.000 0.00 0.00 37.27 2.24
2547 3573 8.641541 AGTTCAACATCAAAGTCCATTATTTGT 58.358 29.630 0.00 0.00 37.60 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 6.011122 AGAAGAAAATGGAGTCCTATGCAT 57.989 37.500 11.33 3.79 31.89 3.96
197 213 5.400485 CCTTTTCTTTCAATGCAGTTTCTCG 59.600 40.000 0.00 0.00 0.00 4.04
277 304 5.061179 AGTTGTTGCAACGGTATTAAGAGT 58.939 37.500 23.79 2.52 0.00 3.24
378 407 7.172703 ACGACTTACTTCGGATCAAGAATTTTT 59.827 33.333 0.00 0.00 43.58 1.94
402 431 0.602905 AACTCTTTGGGAAGGCGACG 60.603 55.000 0.00 0.00 33.56 5.12
403 432 2.467566 TAACTCTTTGGGAAGGCGAC 57.532 50.000 0.00 0.00 33.56 5.19
420 449 5.649395 CCTTTGTGCAGGAAATCAGAGATAA 59.351 40.000 0.00 0.00 35.71 1.75
491 520 8.677300 GCTAATCTTGAAGATACCATTTGTTGA 58.323 33.333 8.30 0.00 32.89 3.18
569 599 8.792633 ACTTTCGGATAAAGACAAAATGATTGA 58.207 29.630 4.59 0.00 0.00 2.57
606 637 5.367945 GGTACCCTAACATCCATCTTTCA 57.632 43.478 0.00 0.00 0.00 2.69
648 1103 5.297547 TGTTTCTCTACGGCCATATCAATC 58.702 41.667 2.24 0.00 0.00 2.67
691 1146 8.695456 GGTCACCAATTTCCATATGTTTCTATT 58.305 33.333 1.24 0.00 0.00 1.73
692 1147 7.287696 GGGTCACCAATTTCCATATGTTTCTAT 59.712 37.037 0.00 0.00 36.50 1.98
693 1148 6.605594 GGGTCACCAATTTCCATATGTTTCTA 59.394 38.462 0.00 0.00 36.50 2.10
767 1223 0.531974 TGGTGGAAACGTGCAGAGAC 60.532 55.000 0.00 0.00 0.00 3.36
772 1228 2.115911 GGTGTGGTGGAAACGTGCA 61.116 57.895 0.00 0.00 0.00 4.57
773 1229 2.719354 GGTGTGGTGGAAACGTGC 59.281 61.111 0.00 0.00 0.00 5.34
806 1285 1.068333 CGGTGGATTGAAAAGCACAGG 60.068 52.381 0.00 0.00 30.69 4.00
879 1367 5.114780 GGTGCACTGCAGATATATATGGAG 58.885 45.833 22.72 22.72 42.19 3.86
880 1368 4.381932 CGGTGCACTGCAGATATATATGGA 60.382 45.833 23.35 4.31 40.08 3.41
881 1369 3.867493 CGGTGCACTGCAGATATATATGG 59.133 47.826 23.35 0.00 40.08 2.74
908 1399 1.734388 AAGAAAGGGTTGGTGCACGC 61.734 55.000 11.45 4.50 0.00 5.34
932 1423 0.973632 TGGGAGAAAGCGAACTAGCA 59.026 50.000 0.00 0.00 40.15 3.49
997 1503 1.901591 CACCACACCAGCTTCATCTT 58.098 50.000 0.00 0.00 0.00 2.40
1128 1634 3.899981 AAGCTGCGCGTTCCATCCA 62.900 57.895 8.43 0.00 0.00 3.41
1186 1692 4.500116 GAGGGCGAGGCTCGTGAC 62.500 72.222 34.41 24.55 42.81 3.67
1271 1783 0.911769 GTCCACACCATCCATCTCCA 59.088 55.000 0.00 0.00 0.00 3.86
1276 1788 2.291153 CCAAGAAGTCCACACCATCCAT 60.291 50.000 0.00 0.00 0.00 3.41
1284 1796 0.105964 CGACCACCAAGAAGTCCACA 59.894 55.000 0.00 0.00 0.00 4.17
1541 2053 1.808390 CGGATCCAACGGTTCGACC 60.808 63.158 13.41 0.00 34.05 4.79
1599 2111 3.896122 TGAAACTTTGAATTACTGCCGC 58.104 40.909 0.00 0.00 0.00 6.53
1612 2124 4.499188 GGAAAGCTAGCGGTTTGAAACTTT 60.499 41.667 9.55 0.00 40.64 2.66
1613 2125 3.004419 GGAAAGCTAGCGGTTTGAAACTT 59.996 43.478 9.55 0.00 40.64 2.66
1614 2126 2.552743 GGAAAGCTAGCGGTTTGAAACT 59.447 45.455 9.55 0.00 40.64 2.66
1615 2127 2.552743 AGGAAAGCTAGCGGTTTGAAAC 59.447 45.455 9.55 0.00 40.64 2.78
1616 2128 2.552315 CAGGAAAGCTAGCGGTTTGAAA 59.448 45.455 9.55 0.00 40.64 2.69
1617 2129 2.151202 CAGGAAAGCTAGCGGTTTGAA 58.849 47.619 9.55 0.00 40.64 2.69
1618 2130 1.071699 ACAGGAAAGCTAGCGGTTTGA 59.928 47.619 9.55 0.00 40.64 2.69
1619 2131 1.523758 ACAGGAAAGCTAGCGGTTTG 58.476 50.000 9.55 8.24 40.64 2.93
1696 2233 2.352960 CTCTTAAGCATGCGGGAAGAAC 59.647 50.000 23.34 0.00 0.00 3.01
1704 2249 2.141517 CCTCCATCTCTTAAGCATGCG 58.858 52.381 13.01 0.00 0.00 4.73
1900 2462 8.814235 GGAGATGATTTTGCTAATTTCAACATG 58.186 33.333 0.00 0.00 0.00 3.21
1901 2463 8.533657 TGGAGATGATTTTGCTAATTTCAACAT 58.466 29.630 0.00 0.00 0.00 2.71
2006 2589 4.631813 AGCGTGACACCTTCTATTCAAATC 59.368 41.667 0.00 0.00 0.00 2.17
2019 2602 0.944311 ATGTCAACGAGCGTGACACC 60.944 55.000 21.29 0.00 44.01 4.16
2022 2605 1.130613 GCATGTCAACGAGCGTGAC 59.869 57.895 14.29 14.29 0.00 3.67
2035 2618 0.391661 ATGAACGAAGAGCGGCATGT 60.392 50.000 1.45 0.00 46.49 3.21
2062 2645 2.892784 GGAAGAGGTCCCTTATGTCG 57.107 55.000 0.00 0.00 41.10 4.35
2073 2656 2.593956 GGTCGCCCAAGGAAGAGGT 61.594 63.158 0.00 0.00 0.00 3.85
2099 2682 1.898902 CCGTTGTTTGTGGGTGGATA 58.101 50.000 0.00 0.00 0.00 2.59
2110 2693 5.809719 ATCAATTTTTGTTGCCGTTGTTT 57.190 30.435 0.00 0.00 0.00 2.83
2115 2698 5.694458 GGTTTCTATCAATTTTTGTTGCCGT 59.306 36.000 0.00 0.00 0.00 5.68
2122 2705 6.398517 GCGACGTTGGTTTCTATCAATTTTTG 60.399 38.462 4.64 0.00 0.00 2.44
2136 2719 1.895231 GAAAGGGGCGACGTTGGTT 60.895 57.895 4.64 0.00 0.00 3.67
2198 2781 1.239296 TACTGGTACGAGTGCGCTGT 61.239 55.000 19.61 6.04 42.48 4.40
2221 2804 0.242017 GCCCTTTGTGTCTCATGTGC 59.758 55.000 0.00 0.00 0.00 4.57
2254 2837 1.154197 CATGTGTCAGTGCTCACAGG 58.846 55.000 19.74 17.24 45.56 4.00
2255 2838 2.067013 CTCATGTGTCAGTGCTCACAG 58.933 52.381 19.74 14.07 45.56 3.66
2256 2839 1.688197 TCTCATGTGTCAGTGCTCACA 59.312 47.619 18.20 18.20 46.23 3.58
2257 2840 2.064762 GTCTCATGTGTCAGTGCTCAC 58.935 52.381 10.07 10.07 35.43 3.51
2271 2887 3.081061 TGTATGGCTTTTTGCGTCTCAT 58.919 40.909 0.00 0.00 44.05 2.90
2298 2914 5.121221 GCTTTTGTGCCTACTTATGTGTT 57.879 39.130 0.00 0.00 0.00 3.32
2320 2936 3.492102 AATGGATCCGATTGTGTAGGG 57.508 47.619 7.39 0.00 0.00 3.53
2329 2945 2.269940 CCCCCTAGAAATGGATCCGAT 58.730 52.381 7.39 0.00 0.00 4.18
2330 2946 1.729586 CCCCCTAGAAATGGATCCGA 58.270 55.000 7.39 0.00 0.00 4.55
2362 2978 5.575606 GCCAGTCAATTCTCAAATGTTGATG 59.424 40.000 0.00 0.00 39.30 3.07
2406 3331 4.056092 AGCTAGCTGGTTACGGAAATAC 57.944 45.455 18.57 0.00 0.00 1.89
2410 3336 1.206371 GGAAGCTAGCTGGTTACGGAA 59.794 52.381 20.16 0.00 36.40 4.30
2411 3337 0.822164 GGAAGCTAGCTGGTTACGGA 59.178 55.000 20.16 0.00 36.40 4.69
2450 3376 9.439537 CTAACTTTTTAGAGCAACAAAGAGAAC 57.560 33.333 0.00 0.00 37.49 3.01
2555 3581 9.767684 CACTAATTTAAACATGAAGAATACGCA 57.232 29.630 0.00 0.00 0.00 5.24
2556 3582 9.982291 TCACTAATTTAAACATGAAGAATACGC 57.018 29.630 0.00 0.00 0.00 4.42
2561 3587 9.393249 CGCTTTCACTAATTTAAACATGAAGAA 57.607 29.630 0.00 0.00 0.00 2.52
2562 3588 8.564574 ACGCTTTCACTAATTTAAACATGAAGA 58.435 29.630 0.00 0.00 0.00 2.87
2563 3589 8.728088 ACGCTTTCACTAATTTAAACATGAAG 57.272 30.769 0.00 0.00 0.00 3.02
2564 3590 8.564574 AGACGCTTTCACTAATTTAAACATGAA 58.435 29.630 0.00 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.