Multiple sequence alignment - TraesCS3D01G006800

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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 TraesCS3D01G006800 chr3D 100.000 3051 0 0 1 3051 2412804 2415854 0.000000e+00 5635
1 TraesCS3D01G006800 chr3A 95.751 1883 38 10 9 1879 1701909 1700057 0.000000e+00 2996
2 TraesCS3D01G006800 chr3A 94.723 1175 32 10 1879 3051 1700018 1698872 0.000000e+00 1799
3 TraesCS3D01G006800 chr7A 79.426 209 28 9 2400 2594 32030379 32030586 1.910000e-27 134
4 TraesCS3D01G006800 chr3B 87.500 64 8 0 335 398 733568794 733568857 1.170000e-09 75


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 TraesCS3D01G006800 chr3D 2412804 2415854 3050 False 5635.0 5635 100.000 1 3051 1 chr3D.!!$F1 3050
1 TraesCS3D01G006800 chr3A 1698872 1701909 3037 True 2397.5 2996 95.237 9 3051 2 chr3A.!!$R1 3042

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
547 549 0.179936 AGCCATTCTAGCTCACTGCC 59.82 55.0 0.0 0.0 44.23 4.85 F
1487 1497 1.219522 CTCGACACACCGTTCCAACC 61.22 60.0 0.0 0.0 0.00 3.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1572 1582 0.037590 TCCCAAATTCAGACCCGTGG 59.962 55.0 0.0 0.0 0.0 4.94 R
2897 2951 0.178891 AGTGCCTTCTTCTGGGAGGA 60.179 55.0 0.0 0.0 0.0 3.71 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
67 68 2.388735 TGCTGCTGCTAGTGTACCTAT 58.611 47.619 17.00 0.00 40.48 2.57
100 101 2.251818 TCTGGATGGCTGCTACTATCC 58.748 52.381 12.85 12.85 39.59 2.59
114 115 6.338146 TGCTACTATCCAGTGTAATGTTGAC 58.662 40.000 0.00 0.00 36.14 3.18
247 248 3.194005 TGGCGGTCTTGATTAAGGATC 57.806 47.619 0.00 0.00 34.59 3.36
257 258 3.657634 TGATTAAGGATCTGAGCATCGC 58.342 45.455 0.00 0.00 35.69 4.58
261 262 2.515071 GGATCTGAGCATCGCCCCT 61.515 63.158 0.00 0.00 38.61 4.79
262 263 1.005156 GATCTGAGCATCGCCCCTC 60.005 63.158 0.00 0.00 38.61 4.30
263 264 1.752358 GATCTGAGCATCGCCCCTCA 61.752 60.000 0.00 0.00 38.61 3.86
264 265 2.108566 CTGAGCATCGCCCCTCAG 59.891 66.667 10.25 10.25 46.20 3.35
265 266 2.685017 TGAGCATCGCCCCTCAGT 60.685 61.111 0.00 0.00 38.61 3.41
266 267 2.249413 CTGAGCATCGCCCCTCAGTT 62.249 60.000 14.15 0.00 46.23 3.16
267 268 1.522580 GAGCATCGCCCCTCAGTTC 60.523 63.158 0.00 0.00 0.00 3.01
268 269 2.244117 GAGCATCGCCCCTCAGTTCA 62.244 60.000 0.00 0.00 0.00 3.18
269 270 1.153086 GCATCGCCCCTCAGTTCAT 60.153 57.895 0.00 0.00 0.00 2.57
299 300 1.732259 CTGGAATGGCGTAACACTGAC 59.268 52.381 0.00 0.00 0.00 3.51
312 313 1.612463 ACACTGACCCTCGTCTGTTAC 59.388 52.381 0.64 0.00 45.76 2.50
360 362 6.715347 TCTTCCGAATAGATGAACTGATGA 57.285 37.500 0.00 0.00 0.00 2.92
375 377 6.820152 TGAACTGATGATTGATAGTCACCAAG 59.180 38.462 0.00 0.00 0.00 3.61
412 414 5.237127 TGCATTCTACATGCTAGTGTAATGC 59.763 40.000 18.33 18.33 43.60 3.56
470 472 2.176546 CAGCGCATGTCAAACGGG 59.823 61.111 11.47 0.00 0.00 5.28
547 549 0.179936 AGCCATTCTAGCTCACTGCC 59.820 55.000 0.00 0.00 44.23 4.85
666 668 4.944619 TTCACTGCTGCTATGCTACTAT 57.055 40.909 0.00 0.00 0.00 2.12
718 720 6.294065 CGATTAGGGGAATCAGTGTAGTAGTC 60.294 46.154 0.00 0.00 43.76 2.59
854 856 9.162793 GATATCATTTGTTCGATTGATGTCAAC 57.837 33.333 0.00 0.00 38.86 3.18
855 857 5.698832 TCATTTGTTCGATTGATGTCAACC 58.301 37.500 0.00 0.00 38.86 3.77
856 858 3.804518 TTGTTCGATTGATGTCAACCG 57.195 42.857 3.12 3.12 43.92 4.44
926 936 3.872511 TCCCATGCATTGTTGATTGTC 57.127 42.857 0.00 0.00 0.00 3.18
1024 1034 6.160576 TGTGCTCTATGTTATGTATGCAGA 57.839 37.500 0.00 0.00 0.00 4.26
1038 1048 6.712179 TGTATGCAGATCATTGGCATTTTA 57.288 33.333 15.92 4.71 45.34 1.52
1096 1106 8.896658 ACTATGAGTATATTAGACCTGGACTCT 58.103 37.037 0.00 0.00 34.33 3.24
1100 1110 9.118367 TGAGTATATTAGACCTGGACTCTCTAT 57.882 37.037 0.00 1.10 34.33 1.98
1125 1135 1.745489 GACGCAAGATGGACCCACC 60.745 63.158 0.00 0.00 43.62 4.61
1164 1174 1.283736 GGTACACCACGGATTTAGCG 58.716 55.000 0.00 0.00 35.64 4.26
1247 1257 1.605058 CCTGTGGGGTACGACTGGAG 61.605 65.000 7.91 0.00 43.81 3.86
1258 1268 4.954118 ACTGGAGTCCCCGTGCCA 62.954 66.667 6.74 0.00 37.93 4.92
1382 1392 5.418524 CCATGATACATGAAAGGGTGTTTCA 59.581 40.000 12.46 2.83 41.91 2.69
1487 1497 1.219522 CTCGACACACCGTTCCAACC 61.220 60.000 0.00 0.00 0.00 3.77
1568 1578 5.127491 ACGTCCATACTTGGTTTTCTTGAA 58.873 37.500 0.00 0.00 44.06 2.69
1569 1579 5.008316 ACGTCCATACTTGGTTTTCTTGAAC 59.992 40.000 0.00 0.00 44.06 3.18
1570 1580 5.008217 CGTCCATACTTGGTTTTCTTGAACA 59.992 40.000 0.00 0.00 44.06 3.18
1571 1581 6.206498 GTCCATACTTGGTTTTCTTGAACAC 58.794 40.000 0.00 0.00 44.06 3.32
1572 1582 5.300792 TCCATACTTGGTTTTCTTGAACACC 59.699 40.000 10.73 10.73 44.06 4.16
1573 1583 5.508994 CCATACTTGGTTTTCTTGAACACCC 60.509 44.000 13.97 2.00 38.30 4.61
1574 1584 3.436243 ACTTGGTTTTCTTGAACACCCA 58.564 40.909 13.97 4.75 0.00 4.51
1575 1585 3.194755 ACTTGGTTTTCTTGAACACCCAC 59.805 43.478 13.97 0.00 0.00 4.61
1576 1586 1.746220 TGGTTTTCTTGAACACCCACG 59.254 47.619 13.97 0.00 0.00 4.94
1577 1587 1.066454 GGTTTTCTTGAACACCCACGG 59.934 52.381 7.29 0.00 0.00 4.94
1578 1588 1.066454 GTTTTCTTGAACACCCACGGG 59.934 52.381 0.00 0.00 42.03 5.28
1596 1606 2.814097 CGGGTCTGAATTTGGGACACTT 60.814 50.000 6.93 0.00 39.29 3.16
1675 1685 4.905456 AGGGATTTAGGTTCATATCCGTGA 59.095 41.667 0.00 0.00 37.92 4.35
1711 1721 3.741476 CCCAGGCAGCAAAGCGTC 61.741 66.667 0.00 0.00 34.64 5.19
1784 1797 5.688621 TCGTATAAGGTTAATAGCTGTTGCG 59.311 40.000 5.89 0.00 45.42 4.85
2126 2180 2.240493 ACACTTGTTCGTGGAAGAGG 57.760 50.000 0.00 0.00 39.19 3.69
2150 2204 3.360249 CCAAAGTTCTTTGGCTGACAG 57.640 47.619 24.92 0.00 44.15 3.51
2199 2253 5.818336 TGGTCTTGTTGAGAATTCGTTTACA 59.182 36.000 0.00 1.16 35.79 2.41
2224 2278 9.649167 CAATATGCATCTTGTATCTGTGATCTA 57.351 33.333 14.87 0.00 0.00 1.98
2225 2279 9.650539 AATATGCATCTTGTATCTGTGATCTAC 57.349 33.333 0.19 0.00 0.00 2.59
2243 2297 1.339097 ACGTAGTCTTCCAGCCACTT 58.661 50.000 0.00 0.00 29.74 3.16
2379 2433 6.721318 AGTCAAACTATCCAAATGGCTAAGA 58.279 36.000 0.00 0.00 34.44 2.10
2515 2569 5.694910 ACTTATACCATACGCTTCAAATCGG 59.305 40.000 0.00 0.00 0.00 4.18
2554 2608 4.160642 CCAAGATGGTGGAGATGAATCA 57.839 45.455 0.00 0.00 41.65 2.57
2556 2610 4.519350 CCAAGATGGTGGAGATGAATCATG 59.481 45.833 0.00 0.00 41.65 3.07
2557 2611 5.131067 CAAGATGGTGGAGATGAATCATGT 58.869 41.667 0.00 0.00 0.00 3.21
2568 2622 7.192148 GAGATGAATCATGTCCATTCTTGAG 57.808 40.000 9.00 0.00 32.32 3.02
2569 2623 6.896883 AGATGAATCATGTCCATTCTTGAGA 58.103 36.000 0.00 0.00 32.32 3.27
2570 2624 7.344134 AGATGAATCATGTCCATTCTTGAGAA 58.656 34.615 0.00 0.00 38.56 2.87
2571 2625 6.748333 TGAATCATGTCCATTCTTGAGAAC 57.252 37.500 7.04 0.00 36.80 3.01
2572 2626 6.240145 TGAATCATGTCCATTCTTGAGAACA 58.760 36.000 7.04 0.00 36.80 3.18
2573 2627 6.716173 TGAATCATGTCCATTCTTGAGAACAA 59.284 34.615 7.04 0.00 36.80 2.83
2574 2628 7.395206 TGAATCATGTCCATTCTTGAGAACAAT 59.605 33.333 7.04 0.00 36.80 2.71
2575 2629 6.748333 TCATGTCCATTCTTGAGAACAATC 57.252 37.500 0.00 0.00 36.80 2.67
2576 2630 5.649395 TCATGTCCATTCTTGAGAACAATCC 59.351 40.000 0.00 0.00 36.80 3.01
2577 2631 5.246981 TGTCCATTCTTGAGAACAATCCT 57.753 39.130 0.00 0.00 36.80 3.24
2578 2632 6.373005 TGTCCATTCTTGAGAACAATCCTA 57.627 37.500 0.00 0.00 36.80 2.94
2579 2633 6.409704 TGTCCATTCTTGAGAACAATCCTAG 58.590 40.000 0.00 0.00 36.80 3.02
2580 2634 6.013379 TGTCCATTCTTGAGAACAATCCTAGT 60.013 38.462 0.00 0.00 36.80 2.57
2588 2642 4.202461 TGAGAACAATCCTAGTTGGCAACT 60.202 41.667 32.96 32.96 45.40 3.16
2589 2643 5.012664 TGAGAACAATCCTAGTTGGCAACTA 59.987 40.000 31.80 31.80 42.81 2.24
2604 2658 8.200792 AGTTGGCAACTATGTTTTAATTCAACA 58.799 29.630 30.31 5.77 40.69 3.33
2617 2671 9.959749 GTTTTAATTCAACAGAATGAAGTACCA 57.040 29.630 0.00 0.00 42.21 3.25
2672 2726 1.630369 CCCTGGGATGTTTCTGAGTCA 59.370 52.381 7.01 0.00 0.00 3.41
2678 2732 6.039047 CCTGGGATGTTTCTGAGTCAATATTG 59.961 42.308 9.29 9.29 0.00 1.90
2686 2740 4.763073 TCTGAGTCAATATTGTGCTCCAG 58.237 43.478 25.19 22.23 33.68 3.86
2693 2747 5.574443 GTCAATATTGTGCTCCAGCTTTTTC 59.426 40.000 14.97 0.00 42.66 2.29
2694 2748 5.477984 TCAATATTGTGCTCCAGCTTTTTCT 59.522 36.000 14.97 0.00 42.66 2.52
2695 2749 5.990120 ATATTGTGCTCCAGCTTTTTCTT 57.010 34.783 0.00 0.00 42.66 2.52
2702 2756 4.053983 GCTCCAGCTTTTTCTTTTGAAGG 58.946 43.478 0.00 0.00 37.65 3.46
2712 2766 7.475137 TTTTTCTTTTGAAGGAACCTCTCAA 57.525 32.000 11.44 11.44 39.88 3.02
2715 2769 6.639632 TCTTTTGAAGGAACCTCTCAATTG 57.360 37.500 0.00 0.00 0.00 2.32
2723 2777 5.208121 AGGAACCTCTCAATTGGTTTTCAA 58.792 37.500 5.42 0.00 45.48 2.69
2727 2781 8.966868 GGAACCTCTCAATTGGTTTTCAATATA 58.033 33.333 5.42 0.00 45.48 0.86
2897 2951 0.599991 TCTCGCGCACAATGTTGAGT 60.600 50.000 8.75 0.00 0.00 3.41
2898 2952 0.179240 CTCGCGCACAATGTTGAGTC 60.179 55.000 8.75 0.00 0.00 3.36
2899 2953 1.154413 CGCGCACAATGTTGAGTCC 60.154 57.895 8.75 0.00 0.00 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 9.878599 AATTAAATCATAATTAAGTCGGCTTCG 57.121 29.630 5.04 0.00 36.22 3.79
33 34 3.360533 CAGCAGCAAATTAATCTGAGCG 58.639 45.455 6.79 0.00 0.00 5.03
67 68 7.041107 GCAGCCATCCAGAAATTTATTAAACA 58.959 34.615 0.00 0.00 0.00 2.83
91 92 5.753921 GGTCAACATTACACTGGATAGTAGC 59.246 44.000 0.00 0.00 34.74 3.58
100 101 4.005650 AGATGCAGGTCAACATTACACTG 58.994 43.478 0.00 0.00 0.00 3.66
114 115 2.158623 TGCCCCACTAATAAGATGCAGG 60.159 50.000 0.00 0.00 0.00 4.85
247 248 2.108566 CTGAGGGGCGATGCTCAG 59.891 66.667 0.00 0.00 37.56 3.35
257 258 4.163078 AGACACTATTCATGAACTGAGGGG 59.837 45.833 11.07 7.94 34.68 4.79
261 262 6.358974 TTCCAGACACTATTCATGAACTGA 57.641 37.500 18.23 5.10 31.80 3.41
262 263 6.037940 CCATTCCAGACACTATTCATGAACTG 59.962 42.308 11.07 11.85 0.00 3.16
263 264 6.118170 CCATTCCAGACACTATTCATGAACT 58.882 40.000 11.07 0.00 0.00 3.01
264 265 5.220931 GCCATTCCAGACACTATTCATGAAC 60.221 44.000 11.07 0.00 0.00 3.18
265 266 4.883585 GCCATTCCAGACACTATTCATGAA 59.116 41.667 11.26 11.26 0.00 2.57
266 267 4.454678 GCCATTCCAGACACTATTCATGA 58.545 43.478 0.00 0.00 0.00 3.07
267 268 3.249320 CGCCATTCCAGACACTATTCATG 59.751 47.826 0.00 0.00 0.00 3.07
268 269 3.118261 ACGCCATTCCAGACACTATTCAT 60.118 43.478 0.00 0.00 0.00 2.57
269 270 2.236146 ACGCCATTCCAGACACTATTCA 59.764 45.455 0.00 0.00 0.00 2.57
299 300 3.193691 AGTTCATCTGTAACAGACGAGGG 59.806 47.826 0.00 0.00 43.63 4.30
346 348 8.363390 GGTGACTATCAATCATCAGTTCATCTA 58.637 37.037 0.00 0.00 0.00 1.98
360 362 9.739276 TTTATGAGTTTCTTGGTGACTATCAAT 57.261 29.630 0.00 0.00 0.00 2.57
375 377 7.430502 GCATGTAGAATGCAGTTTATGAGTTTC 59.569 37.037 5.46 0.00 44.00 2.78
412 414 4.443725 GTCACACAGATAAGATGCAGATCG 59.556 45.833 0.00 0.00 33.34 3.69
470 472 7.158021 CAGAGATAGTAGGATGTCCAAAATCC 58.842 42.308 1.30 0.00 43.47 3.01
543 545 2.166459 TCACTTCGATTAGGTGAGGCAG 59.834 50.000 6.85 0.00 35.44 4.85
666 668 8.185506 TGACACTAAGGTAGATTAAACACAGA 57.814 34.615 0.00 0.00 0.00 3.41
718 720 6.482641 ACAGCTAAGATGCAGATCAACATTAG 59.517 38.462 0.00 0.50 34.99 1.73
773 775 3.328505 CAATCCCAATTTGGACAAGTGC 58.671 45.455 17.24 0.00 40.96 4.40
854 856 5.718649 ATAGAACAAATCGATCAACACGG 57.281 39.130 0.00 0.00 0.00 4.94
855 857 9.702726 AATTAATAGAACAAATCGATCAACACG 57.297 29.630 0.00 0.00 0.00 4.49
926 936 3.525537 TGATAAGAAGAGCTTGGCTTCG 58.474 45.455 7.73 0.00 44.88 3.79
977 987 9.515226 ACATATTAATTAACCGGCATACAGAAT 57.485 29.630 0.00 0.00 0.00 2.40
978 988 8.779303 CACATATTAATTAACCGGCATACAGAA 58.221 33.333 0.00 0.00 0.00 3.02
979 989 7.094975 GCACATATTAATTAACCGGCATACAGA 60.095 37.037 0.00 0.00 0.00 3.41
1024 1034 7.613585 TCTGTGAACAATAAAATGCCAATGAT 58.386 30.769 0.00 0.00 0.00 2.45
1038 1048 3.502211 GGTCGACCATTTCTGTGAACAAT 59.498 43.478 29.75 0.00 35.64 2.71
1164 1174 0.890683 CAATCCAAACTCCTGGCCAC 59.109 55.000 0.00 0.00 36.32 5.01
1242 1252 1.622607 TAATGGCACGGGGACTCCAG 61.623 60.000 0.00 0.00 34.36 3.86
1247 1257 2.112815 GCAGTAATGGCACGGGGAC 61.113 63.158 0.00 0.00 0.00 4.46
1382 1392 3.567375 TGGCCCCAGACTCTATCATAT 57.433 47.619 0.00 0.00 0.00 1.78
1431 1441 3.055891 CCCCCAAGTTAGCAAATTCCTTG 60.056 47.826 0.00 0.00 38.15 3.61
1571 1581 0.965363 CCCAAATTCAGACCCGTGGG 60.965 60.000 2.58 2.58 39.83 4.61
1572 1582 0.037590 TCCCAAATTCAGACCCGTGG 59.962 55.000 0.00 0.00 0.00 4.94
1573 1583 1.165270 GTCCCAAATTCAGACCCGTG 58.835 55.000 0.00 0.00 0.00 4.94
1574 1584 0.768622 TGTCCCAAATTCAGACCCGT 59.231 50.000 0.00 0.00 0.00 5.28
1575 1585 1.165270 GTGTCCCAAATTCAGACCCG 58.835 55.000 0.00 0.00 0.00 5.28
1576 1586 2.558359 CAAGTGTCCCAAATTCAGACCC 59.442 50.000 0.00 0.00 0.00 4.46
1577 1587 2.558359 CCAAGTGTCCCAAATTCAGACC 59.442 50.000 0.00 0.00 0.00 3.85
1578 1588 3.486383 TCCAAGTGTCCCAAATTCAGAC 58.514 45.455 0.00 0.00 0.00 3.51
1579 1589 3.874383 TCCAAGTGTCCCAAATTCAGA 57.126 42.857 0.00 0.00 0.00 3.27
1580 1590 5.126061 CCTAATCCAAGTGTCCCAAATTCAG 59.874 44.000 0.00 0.00 0.00 3.02
1581 1591 5.016173 CCTAATCCAAGTGTCCCAAATTCA 58.984 41.667 0.00 0.00 0.00 2.57
1582 1592 5.125578 GTCCTAATCCAAGTGTCCCAAATTC 59.874 44.000 0.00 0.00 0.00 2.17
1583 1593 5.016831 GTCCTAATCCAAGTGTCCCAAATT 58.983 41.667 0.00 0.00 0.00 1.82
1596 1606 3.294214 GAAGTAGACCCGTCCTAATCCA 58.706 50.000 0.00 0.00 0.00 3.41
1675 1685 1.133976 GGTAGGATGAGCACCAGCAAT 60.134 52.381 0.00 0.00 45.49 3.56
1784 1797 8.366671 ACAGAAATAGACCTAATAATCGCAAC 57.633 34.615 0.00 0.00 0.00 4.17
1914 1966 5.185056 TCTTCAGTGCTAACTATGTGCTACA 59.815 40.000 0.00 0.00 33.79 2.74
1929 1981 5.993106 AACTTGACTAGTTTCTTCAGTGC 57.007 39.130 0.00 0.00 44.73 4.40
2002 2054 9.154632 TGCTCTTCCTACAGGATTAATATGTAA 57.845 33.333 11.93 2.51 44.98 2.41
2003 2055 8.721133 TGCTCTTCCTACAGGATTAATATGTA 57.279 34.615 0.00 10.85 44.98 2.29
2143 2197 3.127721 GGGACTATGCTTTTTCTGTCAGC 59.872 47.826 0.00 0.00 0.00 4.26
2150 2204 5.254339 CCTCATTGGGACTATGCTTTTTC 57.746 43.478 0.00 0.00 0.00 2.29
2199 2253 9.650539 GTAGATCACAGATACAAGATGCATATT 57.349 33.333 0.00 0.00 0.00 1.28
2243 2297 6.023603 AGAGTTACCAAACCCAGAGAGATAA 58.976 40.000 0.00 0.00 36.15 1.75
2515 2569 1.829222 TGGTCTTCCCGATCAGGTTAC 59.171 52.381 0.00 0.00 38.74 2.50
2548 2602 6.240145 TGTTCTCAAGAATGGACATGATTCA 58.760 36.000 0.00 0.00 36.33 2.57
2550 2604 7.147949 GGATTGTTCTCAAGAATGGACATGATT 60.148 37.037 0.00 0.00 36.97 2.57
2553 2607 5.651139 AGGATTGTTCTCAAGAATGGACATG 59.349 40.000 0.00 0.00 36.97 3.21
2554 2608 5.824421 AGGATTGTTCTCAAGAATGGACAT 58.176 37.500 0.00 0.00 36.97 3.06
2556 2610 6.410540 ACTAGGATTGTTCTCAAGAATGGAC 58.589 40.000 0.00 0.00 36.97 4.02
2557 2611 6.627087 ACTAGGATTGTTCTCAAGAATGGA 57.373 37.500 0.00 0.00 36.97 3.41
2559 2613 6.404074 GCCAACTAGGATTGTTCTCAAGAATG 60.404 42.308 0.00 0.00 41.22 2.67
2560 2614 5.649831 GCCAACTAGGATTGTTCTCAAGAAT 59.350 40.000 0.00 0.00 41.22 2.40
2561 2615 5.003804 GCCAACTAGGATTGTTCTCAAGAA 58.996 41.667 0.00 0.00 41.22 2.52
2562 2616 4.041567 TGCCAACTAGGATTGTTCTCAAGA 59.958 41.667 0.00 0.00 41.22 3.02
2563 2617 4.326826 TGCCAACTAGGATTGTTCTCAAG 58.673 43.478 0.00 0.00 41.22 3.02
2564 2618 4.365514 TGCCAACTAGGATTGTTCTCAA 57.634 40.909 0.00 0.00 41.22 3.02
2565 2619 4.072131 GTTGCCAACTAGGATTGTTCTCA 58.928 43.478 0.00 0.00 41.22 3.27
2566 2620 4.327680 AGTTGCCAACTAGGATTGTTCTC 58.672 43.478 8.67 0.00 40.69 2.87
2567 2621 4.373156 AGTTGCCAACTAGGATTGTTCT 57.627 40.909 8.67 0.00 40.69 3.01
2568 2622 5.648092 ACATAGTTGCCAACTAGGATTGTTC 59.352 40.000 29.70 0.00 45.84 3.18
2569 2623 5.570320 ACATAGTTGCCAACTAGGATTGTT 58.430 37.500 29.70 9.37 45.84 2.83
2570 2624 5.179452 ACATAGTTGCCAACTAGGATTGT 57.821 39.130 29.70 21.21 45.84 2.71
2571 2625 6.515272 AAACATAGTTGCCAACTAGGATTG 57.485 37.500 29.70 20.66 45.84 2.67
2572 2626 8.644374 TTAAAACATAGTTGCCAACTAGGATT 57.356 30.769 29.70 22.76 45.84 3.01
2573 2627 8.823220 ATTAAAACATAGTTGCCAACTAGGAT 57.177 30.769 29.70 18.77 45.84 3.24
2574 2628 8.644374 AATTAAAACATAGTTGCCAACTAGGA 57.356 30.769 29.70 12.00 45.84 2.94
2575 2629 8.519526 TGAATTAAAACATAGTTGCCAACTAGG 58.480 33.333 23.48 23.48 46.32 3.02
2576 2630 9.906660 TTGAATTAAAACATAGTTGCCAACTAG 57.093 29.630 20.90 15.10 46.32 2.57
2578 2632 8.200792 TGTTGAATTAAAACATAGTTGCCAACT 58.799 29.630 15.44 15.44 37.77 3.16
2579 2633 8.359060 TGTTGAATTAAAACATAGTTGCCAAC 57.641 30.769 0.00 0.00 32.71 3.77
2580 2634 8.417106 TCTGTTGAATTAAAACATAGTTGCCAA 58.583 29.630 6.63 0.00 36.95 4.52
2654 2708 6.600822 ACAATATTGACTCAGAAACATCCCAG 59.399 38.462 22.16 0.00 0.00 4.45
2672 2726 5.990120 AGAAAAAGCTGGAGCACAATATT 57.010 34.783 0.65 0.00 45.16 1.28
2678 2732 4.045636 TCAAAAGAAAAAGCTGGAGCAC 57.954 40.909 0.65 0.00 45.16 4.40
2686 2740 5.907207 AGAGGTTCCTTCAAAAGAAAAAGC 58.093 37.500 0.00 0.00 0.00 3.51
2693 2747 5.302823 ACCAATTGAGAGGTTCCTTCAAAAG 59.697 40.000 7.12 11.80 33.39 2.27
2694 2748 5.208121 ACCAATTGAGAGGTTCCTTCAAAA 58.792 37.500 7.12 2.14 33.39 2.44
2695 2749 4.803452 ACCAATTGAGAGGTTCCTTCAAA 58.197 39.130 7.12 3.45 33.39 2.69
2806 2860 6.832520 ACACAGGTGCAATCATTTGTATAA 57.167 33.333 0.00 0.00 35.17 0.98
2810 2864 4.405116 AAACACAGGTGCAATCATTTGT 57.595 36.364 0.00 0.00 35.17 2.83
2897 2951 0.178891 AGTGCCTTCTTCTGGGAGGA 60.179 55.000 0.00 0.00 0.00 3.71
2898 2952 0.695347 AAGTGCCTTCTTCTGGGAGG 59.305 55.000 0.00 0.00 0.00 4.30
2899 2953 2.106477 GAAGTGCCTTCTTCTGGGAG 57.894 55.000 7.46 0.00 40.19 4.30


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

AutoCloner maintained by Alex Coulton.