Multiple sequence alignment - TraesCS2B01G181800

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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 TraesCS2B01G181800 chr2B 100.000 2618 0 0 1 2618 156607913 156605296 0.000000e+00 4835.0
1 TraesCS2B01G181800 chr2B 86.040 1096 80 41 804 1861 157041849 157040789 0.000000e+00 1109.0
2 TraesCS2B01G181800 chr2B 84.091 220 22 8 2006 2213 157040604 157040386 1.590000e-47 200.0
3 TraesCS2B01G181800 chr2A 89.914 1279 81 25 713 1969 103113294 103112042 0.000000e+00 1604.0
4 TraesCS2B01G181800 chr2A 86.150 1083 73 29 804 1847 103140853 103139809 0.000000e+00 1098.0
5 TraesCS2B01G181800 chr2A 93.939 165 7 3 2072 2236 103111935 103111774 2.010000e-61 246.0
6 TraesCS2B01G181800 chr2A 80.442 317 46 12 2314 2618 103111727 103111415 7.290000e-56 228.0
7 TraesCS2B01G181800 chr2A 95.238 42 1 1 1983 2024 103111980 103111940 6.050000e-07 65.8
8 TraesCS2B01G181800 chr2D 92.323 990 46 11 660 1628 106650754 106649774 0.000000e+00 1380.0
9 TraesCS2B01G181800 chr2D 86.201 1087 74 44 804 1847 106870894 106869841 0.000000e+00 1107.0
10 TraesCS2B01G181800 chr2D 90.038 261 12 7 1973 2232 106649435 106649188 2.510000e-85 326.0
11 TraesCS2B01G181800 chr2D 87.324 284 28 6 2337 2618 106649130 106648853 4.200000e-83 318.0
12 TraesCS2B01G181800 chr2D 85.978 271 25 9 1705 1969 106649746 106649483 7.140000e-71 278.0
13 TraesCS2B01G181800 chr1B 94.784 671 28 2 1 664 411423587 411424257 0.000000e+00 1038.0
14 TraesCS2B01G181800 chr1B 94.662 637 28 2 1 632 172415016 172415651 0.000000e+00 983.0
15 TraesCS2B01G181800 chr5B 94.453 667 31 2 1 662 265527433 265528098 0.000000e+00 1022.0
16 TraesCS2B01G181800 chr3A 92.537 670 43 2 1 665 687986362 687987029 0.000000e+00 953.0
17 TraesCS2B01G181800 chr3A 91.085 673 53 3 1 668 382258713 382258043 0.000000e+00 904.0
18 TraesCS2B01G181800 chr3A 87.387 666 75 7 1 659 509532054 509532717 0.000000e+00 756.0
19 TraesCS2B01G181800 chr4D 91.505 671 51 2 1 666 85728957 85729626 0.000000e+00 918.0
20 TraesCS2B01G181800 chr3D 91.505 671 50 2 1 666 55151930 55152598 0.000000e+00 917.0
21 TraesCS2B01G181800 chr3B 92.449 490 31 2 184 667 80091421 80091910 0.000000e+00 695.0


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 TraesCS2B01G181800 chr2B 156605296 156607913 2617 True 4835.00 4835 100.00000 1 2618 1 chr2B.!!$R1 2617
1 TraesCS2B01G181800 chr2B 157040386 157041849 1463 True 654.50 1109 85.06550 804 2213 2 chr2B.!!$R2 1409
2 TraesCS2B01G181800 chr2A 103139809 103140853 1044 True 1098.00 1098 86.15000 804 1847 1 chr2A.!!$R1 1043
3 TraesCS2B01G181800 chr2A 103111415 103113294 1879 True 535.95 1604 89.88325 713 2618 4 chr2A.!!$R2 1905
4 TraesCS2B01G181800 chr2D 106869841 106870894 1053 True 1107.00 1107 86.20100 804 1847 1 chr2D.!!$R1 1043
5 TraesCS2B01G181800 chr2D 106648853 106650754 1901 True 575.50 1380 88.91575 660 2618 4 chr2D.!!$R2 1958
6 TraesCS2B01G181800 chr1B 411423587 411424257 670 False 1038.00 1038 94.78400 1 664 1 chr1B.!!$F2 663
7 TraesCS2B01G181800 chr1B 172415016 172415651 635 False 983.00 983 94.66200 1 632 1 chr1B.!!$F1 631
8 TraesCS2B01G181800 chr5B 265527433 265528098 665 False 1022.00 1022 94.45300 1 662 1 chr5B.!!$F1 661
9 TraesCS2B01G181800 chr3A 687986362 687987029 667 False 953.00 953 92.53700 1 665 1 chr3A.!!$F2 664
10 TraesCS2B01G181800 chr3A 382258043 382258713 670 True 904.00 904 91.08500 1 668 1 chr3A.!!$R1 667
11 TraesCS2B01G181800 chr3A 509532054 509532717 663 False 756.00 756 87.38700 1 659 1 chr3A.!!$F1 658
12 TraesCS2B01G181800 chr4D 85728957 85729626 669 False 918.00 918 91.50500 1 666 1 chr4D.!!$F1 665
13 TraesCS2B01G181800 chr3D 55151930 55152598 668 False 917.00 917 91.50500 1 666 1 chr3D.!!$F1 665

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
920 957 0.979665 ACACACCATCCTCACCTCAG 59.02 55.0 0.0 0.0 0.0 3.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2504 2764 0.178903 TGGTAGTGGGGAAGCACTCT 60.179 55.0 0.0 0.0 33.26 3.24 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
194 195 1.873591 GCTTTCTTTGTTCGCAGGAGA 59.126 47.619 0.00 0.00 0.00 3.71
354 355 2.092914 CAGATTACCAGGGGAAGGACAC 60.093 54.545 0.00 0.00 0.00 3.67
433 435 1.966451 CAGAGTGTTCAACCGGCCC 60.966 63.158 0.00 0.00 0.00 5.80
541 543 7.068839 GGAGGACTAGATAGATTTGTGAGACAA 59.931 40.741 0.00 0.00 36.11 3.18
557 559 8.877808 TGTGAGACAATGATCTATGTGTAATC 57.122 34.615 8.41 3.73 0.00 1.75
697 709 9.507329 ACACCCATTGATAATTATTAGTGCTAG 57.493 33.333 7.09 0.00 0.00 3.42
715 727 1.308877 AGTGCATTCCCAACCCCTAT 58.691 50.000 0.00 0.00 0.00 2.57
860 874 3.701542 TGTTTACTCCATGATCGAGCTCT 59.298 43.478 12.85 0.00 0.00 4.09
920 957 0.979665 ACACACCATCCTCACCTCAG 59.020 55.000 0.00 0.00 0.00 3.35
1094 1150 4.856607 CCTCGTCGGCTTCCTCGC 62.857 72.222 0.00 0.00 0.00 5.03
1268 1339 0.996762 GAGGAGGAGGAGGAGGAGGA 60.997 65.000 0.00 0.00 0.00 3.71
1269 1340 0.998945 AGGAGGAGGAGGAGGAGGAG 60.999 65.000 0.00 0.00 0.00 3.69
1270 1341 1.541672 GAGGAGGAGGAGGAGGAGG 59.458 68.421 0.00 0.00 0.00 4.30
1273 1344 1.585651 GGAGGAGGAGGAGGAGGACA 61.586 65.000 0.00 0.00 0.00 4.02
1293 1364 1.011595 AGCTGAGGAAGGAGGAGGTA 58.988 55.000 0.00 0.00 0.00 3.08
1410 1481 3.972227 GAAGAGCCAAGCTTCGCA 58.028 55.556 18.52 0.00 39.88 5.10
1591 1662 1.137513 GAACCTGTTCCAGTTCGTCG 58.862 55.000 0.00 0.00 33.64 5.12
1633 1749 3.838271 GACAGATCGGCCGAGGCA 61.838 66.667 33.87 10.92 44.11 4.75
1750 1900 2.646175 CGAGCGAAGAGTTGGGGGA 61.646 63.158 0.00 0.00 0.00 4.81
1791 1941 6.367969 ACAAATTAACGCACTAATTCTCGAGT 59.632 34.615 13.13 0.00 31.66 4.18
1793 1943 6.570690 ATTAACGCACTAATTCTCGAGTTC 57.429 37.500 13.13 0.00 0.00 3.01
1843 1994 9.381033 CCAAATGATCATAAATAAACTTTGGCA 57.619 29.630 9.04 0.00 35.27 4.92
1861 2012 5.381174 TGGCAATCAAAGTCTTCTTGATG 57.619 39.130 1.36 0.00 33.79 3.07
1862 2013 4.171754 GGCAATCAAAGTCTTCTTGATGC 58.828 43.478 1.36 6.76 33.79 3.91
1863 2014 3.850273 GCAATCAAAGTCTTCTTGATGCG 59.150 43.478 1.36 0.00 33.79 4.73
1869 2025 2.498167 AGTCTTCTTGATGCGTTGCTT 58.502 42.857 0.00 0.00 0.00 3.91
1877 2033 3.383620 TGATGCGTTGCTTCCAAAATT 57.616 38.095 2.74 0.00 32.74 1.82
1880 2036 3.383620 TGCGTTGCTTCCAAAATTGAT 57.616 38.095 0.00 0.00 31.68 2.57
1883 2039 3.564511 CGTTGCTTCCAAAATTGATCGT 58.435 40.909 0.00 0.00 31.68 3.73
1884 2040 4.717991 CGTTGCTTCCAAAATTGATCGTA 58.282 39.130 0.00 0.00 31.68 3.43
1898 2055 5.917541 TTGATCGTAGGTTTGTTCACTTC 57.082 39.130 0.00 0.00 0.00 3.01
1914 2071 4.693283 TCACTTCCACGTATCAATGATCC 58.307 43.478 0.00 0.00 0.00 3.36
1971 2197 6.092748 GCCAAATCGTGTCAATAAATCAGTT 58.907 36.000 0.00 0.00 0.00 3.16
1984 2210 2.936919 ATCAGTTCCTGTGCAAGACA 57.063 45.000 0.00 0.00 32.61 3.41
2017 2259 2.494918 CGACTCCCGGCGAATCTT 59.505 61.111 9.30 0.00 33.91 2.40
2034 2281 2.821437 TCTTTTCCTCCTGACCGATCT 58.179 47.619 0.00 0.00 0.00 2.75
2149 2401 2.812358 ACGAACTGGGAAAATTTGGC 57.188 45.000 0.00 0.00 0.00 4.52
2250 2505 3.782889 AAAGAACAAGTGTGTGGAAGC 57.217 42.857 0.00 0.00 38.27 3.86
2251 2506 1.299541 AGAACAAGTGTGTGGAAGCG 58.700 50.000 0.00 0.00 38.27 4.68
2252 2507 0.307760 GAACAAGTGTGTGGAAGCGG 59.692 55.000 0.00 0.00 38.27 5.52
2253 2508 0.107410 AACAAGTGTGTGGAAGCGGA 60.107 50.000 0.00 0.00 38.27 5.54
2254 2509 0.532862 ACAAGTGTGTGGAAGCGGAG 60.533 55.000 0.00 0.00 36.31 4.63
2256 2511 0.468226 AAGTGTGTGGAAGCGGAGAA 59.532 50.000 0.00 0.00 0.00 2.87
2257 2512 0.468226 AGTGTGTGGAAGCGGAGAAA 59.532 50.000 0.00 0.00 0.00 2.52
2293 2548 6.658188 TGGAAAGGGGTATTACAAAAACAG 57.342 37.500 0.00 0.00 0.00 3.16
2297 2552 2.498481 GGGGTATTACAAAAACAGCCCC 59.502 50.000 0.00 0.00 46.39 5.80
2298 2553 3.166679 GGGTATTACAAAAACAGCCCCA 58.833 45.455 0.00 0.00 0.00 4.96
2300 2555 4.040584 GGGTATTACAAAAACAGCCCCAAA 59.959 41.667 0.00 0.00 0.00 3.28
2301 2556 5.234752 GGTATTACAAAAACAGCCCCAAAG 58.765 41.667 0.00 0.00 0.00 2.77
2302 2557 5.221561 GGTATTACAAAAACAGCCCCAAAGT 60.222 40.000 0.00 0.00 0.00 2.66
2303 2558 2.979814 ACAAAAACAGCCCCAAAGTC 57.020 45.000 0.00 0.00 0.00 3.01
2304 2559 2.466846 ACAAAAACAGCCCCAAAGTCT 58.533 42.857 0.00 0.00 0.00 3.24
2305 2560 2.430694 ACAAAAACAGCCCCAAAGTCTC 59.569 45.455 0.00 0.00 0.00 3.36
2306 2561 2.695147 CAAAAACAGCCCCAAAGTCTCT 59.305 45.455 0.00 0.00 0.00 3.10
2307 2562 3.876309 AAAACAGCCCCAAAGTCTCTA 57.124 42.857 0.00 0.00 0.00 2.43
2308 2563 3.876309 AAACAGCCCCAAAGTCTCTAA 57.124 42.857 0.00 0.00 0.00 2.10
2309 2564 3.876309 AACAGCCCCAAAGTCTCTAAA 57.124 42.857 0.00 0.00 0.00 1.85
2310 2565 3.876309 ACAGCCCCAAAGTCTCTAAAA 57.124 42.857 0.00 0.00 0.00 1.52
2311 2566 3.756117 ACAGCCCCAAAGTCTCTAAAAG 58.244 45.455 0.00 0.00 0.00 2.27
2312 2567 3.394606 ACAGCCCCAAAGTCTCTAAAAGA 59.605 43.478 0.00 0.00 0.00 2.52
2313 2568 4.141251 ACAGCCCCAAAGTCTCTAAAAGAA 60.141 41.667 0.00 0.00 35.21 2.52
2314 2569 4.827284 CAGCCCCAAAGTCTCTAAAAGAAA 59.173 41.667 0.00 0.00 35.21 2.52
2315 2570 5.048434 CAGCCCCAAAGTCTCTAAAAGAAAG 60.048 44.000 0.00 0.00 35.21 2.62
2316 2571 5.070685 GCCCCAAAGTCTCTAAAAGAAAGA 58.929 41.667 0.00 0.00 35.21 2.52
2317 2572 5.535030 GCCCCAAAGTCTCTAAAAGAAAGAA 59.465 40.000 0.00 0.00 35.21 2.52
2318 2573 6.515200 GCCCCAAAGTCTCTAAAAGAAAGAAC 60.515 42.308 0.00 0.00 35.21 3.01
2319 2574 6.546034 CCCCAAAGTCTCTAAAAGAAAGAACA 59.454 38.462 0.00 0.00 35.21 3.18
2320 2575 7.418408 CCCAAAGTCTCTAAAAGAAAGAACAC 58.582 38.462 0.00 0.00 35.21 3.32
2329 2584 2.381752 AGAAAGAACACCCCCAAAGG 57.618 50.000 0.00 0.00 0.00 3.11
2331 2586 2.158460 AGAAAGAACACCCCCAAAGGAG 60.158 50.000 0.00 0.00 38.24 3.69
2356 2611 1.468520 GCACGGCATAAATGTGAGTGT 59.531 47.619 12.49 0.00 35.66 3.55
2395 2655 5.869888 AGACTTGCTCGGTTATTGAGTAAAG 59.130 40.000 0.00 0.00 37.56 1.85
2409 2669 9.706691 TTATTGAGTAAAGATCAGACGAAAAGT 57.293 29.630 0.00 0.00 0.00 2.66
2419 2679 5.783100 TCAGACGAAAAGTTAAACAACGT 57.217 34.783 0.00 0.00 35.31 3.99
2499 2759 3.083349 CATCACTCCCGGCCAGGA 61.083 66.667 7.69 7.69 45.00 3.86
2504 2764 3.003173 CTCCCGGCCAGGAACTCA 61.003 66.667 9.56 0.00 45.00 3.41
2505 2765 3.003173 TCCCGGCCAGGAACTCAG 61.003 66.667 4.79 0.00 45.00 3.35
2506 2766 3.003173 CCCGGCCAGGAACTCAGA 61.003 66.667 14.30 0.00 45.00 3.27
2507 2767 2.581354 CCGGCCAGGAACTCAGAG 59.419 66.667 2.24 0.00 45.00 3.35
2508 2768 2.286523 CCGGCCAGGAACTCAGAGT 61.287 63.158 2.24 0.00 45.00 3.24
2509 2769 1.079543 CGGCCAGGAACTCAGAGTG 60.080 63.158 3.05 0.00 34.60 3.51
2514 2774 1.338579 CCAGGAACTCAGAGTGCTTCC 60.339 57.143 8.59 9.81 34.60 3.46
2517 2777 0.687354 GAACTCAGAGTGCTTCCCCA 59.313 55.000 3.05 0.00 0.00 4.96
2561 2822 9.477484 AAAAGTAGTCGTATTATATCAAGCTGG 57.523 33.333 0.00 0.00 0.00 4.85
2586 2847 2.247311 GCATGTTTGCGAAACTCGAT 57.753 45.000 0.00 0.00 43.74 3.59
2588 2849 2.508867 CATGTTTGCGAAACTCGATGG 58.491 47.619 0.00 0.00 43.74 3.51
2593 2854 0.245266 TGCGAAACTCGATGGCACTA 59.755 50.000 0.00 0.00 43.74 2.74
2596 2857 2.876091 CGAAACTCGATGGCACTAGAA 58.124 47.619 0.00 0.00 43.74 2.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 0.182537 CGGATCCCACCTTGGCATAA 59.817 55.000 6.06 0.00 35.79 1.90
77 78 7.472334 ACCAAGCAAAGATCTTACATTTCAT 57.528 32.000 8.75 0.00 0.00 2.57
194 195 4.207891 AGATGTGCTCAACGTTATCCTT 57.792 40.909 0.00 0.00 0.00 3.36
354 355 2.164624 ACAAGAGAATCGAACCCTCTCG 59.835 50.000 12.83 6.73 42.67 4.04
433 435 1.002468 CTTGGTCCTTTGTGTTGCTCG 60.002 52.381 0.00 0.00 0.00 5.03
441 443 3.053826 ACTAGTTCCCTTGGTCCTTTGT 58.946 45.455 0.00 0.00 0.00 2.83
541 543 6.582636 ACACCAACGATTACACATAGATCAT 58.417 36.000 0.00 0.00 0.00 2.45
557 559 1.153823 CGGAGCTCCTACACCAACG 60.154 63.158 29.73 9.89 0.00 4.10
697 709 1.692411 GATAGGGGTTGGGAATGCAC 58.308 55.000 0.00 0.00 0.00 4.57
715 727 1.607801 CCCAGCGTGAGAGTGATGGA 61.608 60.000 0.00 0.00 0.00 3.41
860 874 2.062636 GGGGGTTTATATGAGAGGCCA 58.937 52.381 5.01 0.00 0.00 5.36
889 906 3.557898 GGATGGTGTGTGTGAAGACTGAT 60.558 47.826 0.00 0.00 0.00 2.90
892 912 2.037772 GAGGATGGTGTGTGTGAAGACT 59.962 50.000 0.00 0.00 0.00 3.24
920 957 4.776953 CTGCGCGCGTGTACAAGC 62.777 66.667 32.35 21.96 0.00 4.01
1268 1339 1.274712 CTCCTTCCTCAGCTTGTCCT 58.725 55.000 0.00 0.00 0.00 3.85
1269 1340 0.251634 CCTCCTTCCTCAGCTTGTCC 59.748 60.000 0.00 0.00 0.00 4.02
1270 1341 1.206849 CTCCTCCTTCCTCAGCTTGTC 59.793 57.143 0.00 0.00 0.00 3.18
1273 1344 0.118144 ACCTCCTCCTTCCTCAGCTT 59.882 55.000 0.00 0.00 0.00 3.74
1750 1900 4.829872 ATTTGTTGCACAATCCATCCAT 57.170 36.364 0.00 0.00 38.00 3.41
1791 1941 7.019774 GAAATCAGTTCGATCCATCAATGAA 57.980 36.000 0.00 0.00 31.11 2.57
1843 1994 5.455392 CAACGCATCAAGAAGACTTTGATT 58.545 37.500 0.45 0.00 33.70 2.57
1847 1998 2.880890 AGCAACGCATCAAGAAGACTTT 59.119 40.909 0.00 0.00 33.70 2.66
1848 1999 2.498167 AGCAACGCATCAAGAAGACTT 58.502 42.857 0.00 0.00 36.73 3.01
1852 2003 1.536766 TGGAAGCAACGCATCAAGAAG 59.463 47.619 0.00 0.00 0.00 2.85
1861 2012 2.342354 CGATCAATTTTGGAAGCAACGC 59.658 45.455 0.00 0.00 0.00 4.84
1862 2013 3.564511 ACGATCAATTTTGGAAGCAACG 58.435 40.909 0.00 0.00 0.00 4.10
1863 2014 5.095490 CCTACGATCAATTTTGGAAGCAAC 58.905 41.667 0.00 0.00 0.00 4.17
1869 2025 6.263392 TGAACAAACCTACGATCAATTTTGGA 59.737 34.615 0.00 0.00 0.00 3.53
1877 2033 4.202274 TGGAAGTGAACAAACCTACGATCA 60.202 41.667 0.00 0.00 0.00 2.92
1880 2036 3.460103 GTGGAAGTGAACAAACCTACGA 58.540 45.455 0.00 0.00 0.00 3.43
1883 2039 3.547054 ACGTGGAAGTGAACAAACCTA 57.453 42.857 0.00 0.00 0.00 3.08
1884 2040 2.413310 ACGTGGAAGTGAACAAACCT 57.587 45.000 0.00 0.00 0.00 3.50
1898 2055 2.146342 GGCAGGATCATTGATACGTGG 58.854 52.381 0.00 0.00 0.00 4.94
1930 2087 3.555527 TGGCAGAGAGAGATTTGATGG 57.444 47.619 0.00 0.00 0.00 3.51
1935 2092 3.937706 CACGATTTGGCAGAGAGAGATTT 59.062 43.478 0.00 0.00 0.00 2.17
1941 2098 2.084610 TGACACGATTTGGCAGAGAG 57.915 50.000 0.00 0.00 38.87 3.20
1971 2197 4.713553 TCTTTGTATTGTCTTGCACAGGA 58.286 39.130 0.00 0.00 35.97 3.86
1984 2210 1.628846 AGTCGGTGGCCTCTTTGTATT 59.371 47.619 3.32 0.00 0.00 1.89
2017 2259 1.103803 CGAGATCGGTCAGGAGGAAA 58.896 55.000 0.00 0.00 35.37 3.13
2053 2300 2.804931 TGATGTCGACGCACGCAG 60.805 61.111 11.62 0.00 42.26 5.18
2126 2373 4.542735 CCAAATTTTCCCAGTTCGTACAC 58.457 43.478 0.00 0.00 0.00 2.90
2166 2418 2.668632 CGCAGCCTTGGACCCTTA 59.331 61.111 0.00 0.00 0.00 2.69
2193 2445 1.014352 GCTTCCACACACTTGAACGT 58.986 50.000 0.00 0.00 0.00 3.99
2232 2487 1.299541 CGCTTCCACACACTTGTTCT 58.700 50.000 0.00 0.00 31.66 3.01
2233 2488 0.307760 CCGCTTCCACACACTTGTTC 59.692 55.000 0.00 0.00 31.66 3.18
2235 2490 0.532862 CTCCGCTTCCACACACTTGT 60.533 55.000 0.00 0.00 35.84 3.16
2237 2492 0.468226 TTCTCCGCTTCCACACACTT 59.532 50.000 0.00 0.00 0.00 3.16
2260 2515 7.511028 TGTAATACCCCTTTCCAATCAAGTTTT 59.489 33.333 0.00 0.00 0.00 2.43
2264 2519 7.475137 TTTGTAATACCCCTTTCCAATCAAG 57.525 36.000 0.00 0.00 0.00 3.02
2269 2524 6.463190 GCTGTTTTTGTAATACCCCTTTCCAA 60.463 38.462 0.00 0.00 0.00 3.53
2270 2525 5.011227 GCTGTTTTTGTAATACCCCTTTCCA 59.989 40.000 0.00 0.00 0.00 3.53
2271 2526 5.475719 GCTGTTTTTGTAATACCCCTTTCC 58.524 41.667 0.00 0.00 0.00 3.13
2274 2529 3.835978 GGGCTGTTTTTGTAATACCCCTT 59.164 43.478 0.00 0.00 0.00 3.95
2293 2548 5.070685 TCTTTCTTTTAGAGACTTTGGGGC 58.929 41.667 0.00 0.00 33.02 5.80
2297 2552 7.418408 GGGTGTTCTTTCTTTTAGAGACTTTG 58.582 38.462 0.00 0.00 33.02 2.77
2298 2553 6.546403 GGGGTGTTCTTTCTTTTAGAGACTTT 59.454 38.462 0.00 0.00 33.02 2.66
2300 2555 5.456330 GGGGGTGTTCTTTCTTTTAGAGACT 60.456 44.000 0.00 0.00 33.02 3.24
2301 2556 4.760715 GGGGGTGTTCTTTCTTTTAGAGAC 59.239 45.833 0.00 0.00 33.02 3.36
2302 2557 4.414182 TGGGGGTGTTCTTTCTTTTAGAGA 59.586 41.667 0.00 0.00 0.00 3.10
2303 2558 4.725490 TGGGGGTGTTCTTTCTTTTAGAG 58.275 43.478 0.00 0.00 0.00 2.43
2304 2559 4.799715 TGGGGGTGTTCTTTCTTTTAGA 57.200 40.909 0.00 0.00 0.00 2.10
2305 2560 5.221441 CCTTTGGGGGTGTTCTTTCTTTTAG 60.221 44.000 0.00 0.00 0.00 1.85
2306 2561 4.651962 CCTTTGGGGGTGTTCTTTCTTTTA 59.348 41.667 0.00 0.00 0.00 1.52
2307 2562 3.454447 CCTTTGGGGGTGTTCTTTCTTTT 59.546 43.478 0.00 0.00 0.00 2.27
2308 2563 3.038280 CCTTTGGGGGTGTTCTTTCTTT 58.962 45.455 0.00 0.00 0.00 2.52
2309 2564 2.246327 TCCTTTGGGGGTGTTCTTTCTT 59.754 45.455 0.00 0.00 35.33 2.52
2310 2565 1.856920 TCCTTTGGGGGTGTTCTTTCT 59.143 47.619 0.00 0.00 35.33 2.52
2311 2566 2.239400 CTCCTTTGGGGGTGTTCTTTC 58.761 52.381 0.00 0.00 35.33 2.62
2312 2567 1.133167 CCTCCTTTGGGGGTGTTCTTT 60.133 52.381 0.00 0.00 35.33 2.52
2313 2568 0.482887 CCTCCTTTGGGGGTGTTCTT 59.517 55.000 0.00 0.00 35.33 2.52
2314 2569 0.402861 TCCTCCTTTGGGGGTGTTCT 60.403 55.000 2.04 0.00 35.33 3.01
2315 2570 0.481128 TTCCTCCTTTGGGGGTGTTC 59.519 55.000 2.04 0.00 35.33 3.18
2316 2571 1.167033 ATTCCTCCTTTGGGGGTGTT 58.833 50.000 2.04 0.00 35.33 3.32
2317 2572 0.409484 CATTCCTCCTTTGGGGGTGT 59.591 55.000 2.04 0.00 35.33 4.16
2318 2573 0.972471 GCATTCCTCCTTTGGGGGTG 60.972 60.000 2.04 0.00 35.33 4.61
2319 2574 1.388133 GCATTCCTCCTTTGGGGGT 59.612 57.895 2.04 0.00 35.33 4.95
2320 2575 0.972471 GTGCATTCCTCCTTTGGGGG 60.972 60.000 0.00 0.00 35.33 5.40
2377 2636 6.199342 GTCTGATCTTTACTCAATAACCGAGC 59.801 42.308 0.00 0.00 33.58 5.03
2395 2655 6.416514 ACGTTGTTTAACTTTTCGTCTGATC 58.583 36.000 0.00 0.00 34.60 2.92
2460 2720 1.903404 GGGTGTTGGCCTTCTGGTG 60.903 63.158 3.32 0.00 35.27 4.17
2461 2721 2.520968 GGGTGTTGGCCTTCTGGT 59.479 61.111 3.32 0.00 35.27 4.00
2462 2722 2.283173 GGGGTGTTGGCCTTCTGG 60.283 66.667 3.32 0.00 0.00 3.86
2499 2759 0.398318 GTGGGGAAGCACTCTGAGTT 59.602 55.000 7.77 0.00 0.00 3.01
2504 2764 0.178903 TGGTAGTGGGGAAGCACTCT 60.179 55.000 0.00 0.00 33.26 3.24
2505 2765 0.250513 CTGGTAGTGGGGAAGCACTC 59.749 60.000 0.00 0.00 33.26 3.51
2506 2766 0.178903 TCTGGTAGTGGGGAAGCACT 60.179 55.000 0.00 0.00 35.60 4.40
2507 2767 0.250513 CTCTGGTAGTGGGGAAGCAC 59.749 60.000 0.00 0.00 0.00 4.40
2508 2768 0.178903 ACTCTGGTAGTGGGGAAGCA 60.179 55.000 0.00 0.00 36.93 3.91
2509 2769 2.685202 ACTCTGGTAGTGGGGAAGC 58.315 57.895 0.00 0.00 36.93 3.86
2539 2799 6.308282 GTGCCAGCTTGATATAATACGACTAC 59.692 42.308 0.00 0.00 0.00 2.73
2553 2814 0.824595 ACATGCTTGTGCCAGCTTGA 60.825 50.000 17.33 0.00 44.14 3.02
2561 2822 1.071305 GTTTCGCAAACATGCTTGTGC 60.071 47.619 15.87 8.59 41.04 4.57
2586 2847 4.716784 ACATATCAGTCCTTTCTAGTGCCA 59.283 41.667 0.00 0.00 0.00 4.92


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

AutoCloner maintained by Alex Coulton.