Multiple sequence alignment - TraesCS5A01G417200

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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 TraesCS5A01G417200 chr5A 100.000 3388 0 0 1 3388 605247988 605251375 0.000000e+00 6257.0
1 TraesCS5A01G417200 chr5A 92.476 638 43 3 1474 2110 605350359 605350992 0.000000e+00 907.0
2 TraesCS5A01G417200 chr5A 91.745 533 43 1 1294 1825 605349827 605350359 0.000000e+00 739.0
3 TraesCS5A01G417200 chr5A 77.407 1288 236 34 1121 2376 656216542 656215278 0.000000e+00 715.0
4 TraesCS5A01G417200 chr5A 90.446 314 28 2 2105 2416 605352648 605352961 2.430000e-111 412.0
5 TraesCS5A01G417200 chr5A 86.250 160 21 1 514 672 453191677 453191518 4.490000e-39 172.0
6 TraesCS5A01G417200 chr5A 93.939 99 6 0 2409 2507 605362478 605362576 2.110000e-32 150.0
7 TraesCS5A01G417200 chr5D 92.639 1997 121 15 735 2714 483809737 483811724 0.000000e+00 2850.0
8 TraesCS5A01G417200 chr5D 77.820 1312 230 41 1097 2375 564759337 564758054 0.000000e+00 754.0
9 TraesCS5A01G417200 chr5D 90.811 555 39 5 112 665 483808888 483809431 0.000000e+00 732.0
10 TraesCS5A01G417200 chr5D 75.948 1318 236 48 1121 2374 564748973 564747673 1.340000e-168 603.0
11 TraesCS5A01G417200 chr5D 75.700 786 130 35 1099 1862 564788509 564789255 1.510000e-88 337.0
12 TraesCS5A01G417200 chr5D 73.795 996 168 51 1456 2374 557284067 557283088 1.180000e-79 307.0
13 TraesCS5A01G417200 chr5D 81.218 394 52 10 990 1373 483858399 483858018 7.110000e-77 298.0
14 TraesCS5A01G417200 chr5D 96.774 31 1 0 244 274 370108693 370108663 6.000000e-03 52.8
15 TraesCS5A01G417200 chr5B 89.471 1985 120 33 735 2657 595017979 595019936 0.000000e+00 2425.0
16 TraesCS5A01G417200 chr5B 90.855 678 48 8 3 672 595015028 595015699 0.000000e+00 896.0
17 TraesCS5A01G417200 chr5B 91.089 505 41 4 2723 3224 684450723 684451226 0.000000e+00 680.0
18 TraesCS5A01G417200 chr5B 77.232 896 177 17 1493 2376 665002960 665002080 1.820000e-137 499.0
19 TraesCS5A01G417200 chr5B 78.702 709 102 21 1281 1986 595132698 595133360 8.690000e-116 427.0
20 TraesCS5A01G417200 chr5B 81.295 139 26 0 1613 1751 693687781 693687919 2.760000e-21 113.0
21 TraesCS5A01G417200 chr5B 75.148 169 34 7 1376 1543 683655665 683655826 4.690000e-09 73.1
22 TraesCS5A01G417200 chr2B 94.222 675 26 6 2715 3388 138080417 138079755 0.000000e+00 1018.0
23 TraesCS5A01G417200 chr2B 90.419 167 10 2 3226 3388 796077919 796077755 7.360000e-52 215.0
24 TraesCS5A01G417200 chr1B 94.286 665 35 2 2724 3388 26835770 26836431 0.000000e+00 1014.0
25 TraesCS5A01G417200 chr1B 95.050 505 24 1 2723 3227 42302738 42303241 0.000000e+00 793.0
26 TraesCS5A01G417200 chr1B 94.444 504 28 0 2724 3227 514310574 514310071 0.000000e+00 776.0
27 TraesCS5A01G417200 chr3B 94.162 668 34 4 2724 3388 686122035 686122700 0.000000e+00 1013.0
28 TraesCS5A01G417200 chr3B 89.883 514 44 5 2715 3227 760452156 760451650 0.000000e+00 654.0
29 TraesCS5A01G417200 chr3B 80.612 98 16 3 243 337 650054926 650054829 4.690000e-09 73.1
30 TraesCS5A01G417200 chr3B 97.059 34 1 0 2723 2756 760216156 760216123 1.310000e-04 58.4
31 TraesCS5A01G417200 chr4B 94.023 619 34 2 2724 3342 124971553 124972168 0.000000e+00 935.0
32 TraesCS5A01G417200 chr4B 93.617 611 33 2 2724 3329 509007888 509007279 0.000000e+00 907.0
33 TraesCS5A01G417200 chr4B 95.238 63 3 0 3326 3388 509006894 509006832 2.150000e-17 100.0
34 TraesCS5A01G417200 chr4B 98.113 53 0 1 3337 3388 124999686 124999738 1.290000e-14 91.6
35 TraesCS5A01G417200 chr4B 78.295 129 18 8 244 367 427518859 427518736 1.300000e-09 75.0
36 TraesCS5A01G417200 chr3A 76.488 991 184 36 1407 2376 744098548 744097586 8.450000e-136 494.0
37 TraesCS5A01G417200 chr3A 76.567 670 113 35 1018 1662 742784776 742785426 9.060000e-86 327.0
38 TraesCS5A01G417200 chr7A 78.978 685 119 19 1774 2450 91497356 91498023 8.630000e-121 444.0
39 TraesCS5A01G417200 chr3D 76.672 673 113 35 1015 1662 609232265 609232918 1.950000e-87 333.0
40 TraesCS5A01G417200 chr3D 90.643 171 11 2 3222 3388 25377985 25377816 4.400000e-54 222.0
41 TraesCS5A01G417200 chr3D 87.097 62 8 0 1376 1437 604879439 604879500 1.690000e-08 71.3
42 TraesCS5A01G417200 chr3D 96.774 31 1 0 244 274 591660785 591660755 6.000000e-03 52.8
43 TraesCS5A01G417200 chr4A 76.708 644 118 23 1738 2370 606339725 606340347 2.520000e-86 329.0
44 TraesCS5A01G417200 chr7D 88.559 236 26 1 1090 1324 89896746 89896981 5.530000e-73 285.0
45 TraesCS5A01G417200 chr7D 91.018 167 10 2 3227 3388 37819165 37819331 1.580000e-53 220.0
46 TraesCS5A01G417200 chr7B 86.434 258 35 0 1099 1356 41039283 41039540 1.990000e-72 283.0
47 TraesCS5A01G417200 chr7B 78.830 359 62 8 1774 2119 41040037 41040394 2.630000e-56 230.0
48 TraesCS5A01G417200 chrUn 93.269 104 7 0 3229 3332 306050442 306050545 1.630000e-33 154.0
49 TraesCS5A01G417200 chr6B 78.125 96 17 3 244 337 143197306 143197399 1.310000e-04 58.4


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 TraesCS5A01G417200 chr5A 605247988 605251375 3387 False 6257.0 6257 100.000000 1 3388 1 chr5A.!!$F1 3387
1 TraesCS5A01G417200 chr5A 656215278 656216542 1264 True 715.0 715 77.407000 1121 2376 1 chr5A.!!$R2 1255
2 TraesCS5A01G417200 chr5A 605349827 605352961 3134 False 686.0 907 91.555667 1294 2416 3 chr5A.!!$F3 1122
3 TraesCS5A01G417200 chr5D 483808888 483811724 2836 False 1791.0 2850 91.725000 112 2714 2 chr5D.!!$F2 2602
4 TraesCS5A01G417200 chr5D 564758054 564759337 1283 True 754.0 754 77.820000 1097 2375 1 chr5D.!!$R5 1278
5 TraesCS5A01G417200 chr5D 564747673 564748973 1300 True 603.0 603 75.948000 1121 2374 1 chr5D.!!$R4 1253
6 TraesCS5A01G417200 chr5D 564788509 564789255 746 False 337.0 337 75.700000 1099 1862 1 chr5D.!!$F1 763
7 TraesCS5A01G417200 chr5D 557283088 557284067 979 True 307.0 307 73.795000 1456 2374 1 chr5D.!!$R3 918
8 TraesCS5A01G417200 chr5B 595015028 595019936 4908 False 1660.5 2425 90.163000 3 2657 2 chr5B.!!$F5 2654
9 TraesCS5A01G417200 chr5B 684450723 684451226 503 False 680.0 680 91.089000 2723 3224 1 chr5B.!!$F3 501
10 TraesCS5A01G417200 chr5B 665002080 665002960 880 True 499.0 499 77.232000 1493 2376 1 chr5B.!!$R1 883
11 TraesCS5A01G417200 chr5B 595132698 595133360 662 False 427.0 427 78.702000 1281 1986 1 chr5B.!!$F1 705
12 TraesCS5A01G417200 chr2B 138079755 138080417 662 True 1018.0 1018 94.222000 2715 3388 1 chr2B.!!$R1 673
13 TraesCS5A01G417200 chr1B 26835770 26836431 661 False 1014.0 1014 94.286000 2724 3388 1 chr1B.!!$F1 664
14 TraesCS5A01G417200 chr1B 42302738 42303241 503 False 793.0 793 95.050000 2723 3227 1 chr1B.!!$F2 504
15 TraesCS5A01G417200 chr1B 514310071 514310574 503 True 776.0 776 94.444000 2724 3227 1 chr1B.!!$R1 503
16 TraesCS5A01G417200 chr3B 686122035 686122700 665 False 1013.0 1013 94.162000 2724 3388 1 chr3B.!!$F1 664
17 TraesCS5A01G417200 chr3B 760451650 760452156 506 True 654.0 654 89.883000 2715 3227 1 chr3B.!!$R3 512
18 TraesCS5A01G417200 chr4B 124971553 124972168 615 False 935.0 935 94.023000 2724 3342 1 chr4B.!!$F1 618
19 TraesCS5A01G417200 chr4B 509006832 509007888 1056 True 503.5 907 94.427500 2724 3388 2 chr4B.!!$R2 664
20 TraesCS5A01G417200 chr3A 744097586 744098548 962 True 494.0 494 76.488000 1407 2376 1 chr3A.!!$R1 969
21 TraesCS5A01G417200 chr3A 742784776 742785426 650 False 327.0 327 76.567000 1018 1662 1 chr3A.!!$F1 644
22 TraesCS5A01G417200 chr7A 91497356 91498023 667 False 444.0 444 78.978000 1774 2450 1 chr7A.!!$F1 676
23 TraesCS5A01G417200 chr3D 609232265 609232918 653 False 333.0 333 76.672000 1015 1662 1 chr3D.!!$F2 647
24 TraesCS5A01G417200 chr4A 606339725 606340347 622 False 329.0 329 76.708000 1738 2370 1 chr4A.!!$F1 632
25 TraesCS5A01G417200 chr7B 41039283 41040394 1111 False 256.5 283 82.632000 1099 2119 2 chr7B.!!$F1 1020

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
769 2996 0.321034 ACGTAAAGAAAGGGCCCGTC 60.321 55.0 18.44 18.36 0.0 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2720 7259 0.387929 GCACGGGCATAGCTAGTACA 59.612 55.0 3.77 0.0 40.72 2.9 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
24 25 2.223340 GCGGAATAGCATCCAAACACAG 60.223 50.000 4.40 0.00 39.61 3.66
27 28 4.672542 CGGAATAGCATCCAAACACAGTTG 60.673 45.833 4.40 0.00 39.61 3.16
29 30 5.847514 GGAATAGCATCCAAACACAGTTGTG 60.848 44.000 10.56 10.56 43.99 3.33
87 88 7.603024 ACTTCAAAGTAGCTCTTAATGGTACAC 59.397 37.037 15.51 0.00 38.49 2.90
127 128 0.538584 TACTACGCCGAGACAGAGGA 59.461 55.000 0.00 0.00 0.00 3.71
142 143 4.844884 ACAGAGGAAGTGGTTAATTAGGC 58.155 43.478 0.00 0.00 0.00 3.93
174 175 6.385467 ACCTAATGATTTCTCTACTTCCTGCT 59.615 38.462 0.00 0.00 0.00 4.24
179 180 2.509166 TCTCTACTTCCTGCTTCGGA 57.491 50.000 0.00 0.00 0.00 4.55
187 188 1.909700 TCCTGCTTCGGATGCTTTTT 58.090 45.000 15.69 0.00 0.00 1.94
222 224 5.586155 TTACACATTTCTGGGGTTTAGGA 57.414 39.130 0.00 0.00 0.00 2.94
470 479 3.191162 TCCTCCGATTTGTTTGCTCATTG 59.809 43.478 0.00 0.00 0.00 2.82
473 482 2.609984 CCGATTTGTTTGCTCATTGGCA 60.610 45.455 0.00 0.00 40.74 4.92
491 500 1.807755 GCAATGATGAGCGGTAGAGCA 60.808 52.381 0.00 0.00 40.15 4.26
493 502 0.678395 ATGATGAGCGGTAGAGCAGG 59.322 55.000 0.00 0.00 40.15 4.85
508 517 2.203480 AGGAAAAGCGCCTTGGCA 60.203 55.556 2.29 0.00 34.64 4.92
561 570 5.921408 GGAACTAGGCATACATTAACTCTCG 59.079 44.000 0.00 0.00 0.00 4.04
562 571 6.238953 GGAACTAGGCATACATTAACTCTCGA 60.239 42.308 0.00 0.00 0.00 4.04
564 573 6.915349 ACTAGGCATACATTAACTCTCGATC 58.085 40.000 0.00 0.00 0.00 3.69
600 609 7.097192 AGACTTGCAACGATAACATCTCTAAA 58.903 34.615 0.00 0.00 0.00 1.85
676 2672 2.079158 CAATGTTGTCGGCATCTGACT 58.921 47.619 0.00 0.00 37.26 3.41
689 2685 4.050553 GCATCTGACTAGTGAGCAATCTC 58.949 47.826 4.21 0.00 39.78 2.75
704 2700 0.460284 ATCTCGCACCGAATGTGGAC 60.460 55.000 0.00 0.00 45.55 4.02
715 2718 3.753272 CCGAATGTGGACTGACAGATTTT 59.247 43.478 10.08 0.00 34.86 1.82
716 2719 4.935205 CCGAATGTGGACTGACAGATTTTA 59.065 41.667 10.08 0.00 34.86 1.52
769 2996 0.321034 ACGTAAAGAAAGGGCCCGTC 60.321 55.000 18.44 18.36 0.00 4.79
813 3050 2.556459 ATCCGCCTCGTCTCCATCG 61.556 63.158 0.00 0.00 0.00 3.84
832 3069 1.305046 TTCTCCCCTCACTCCCGAC 60.305 63.158 0.00 0.00 0.00 4.79
857 3094 0.675633 GATCCCCAATTTCGCCATGG 59.324 55.000 7.63 7.63 0.00 3.66
858 3095 1.402107 ATCCCCAATTTCGCCATGGC 61.402 55.000 27.67 27.67 32.71 4.40
891 3133 3.821033 GGACAGCCAGTAGACATTTTTGT 59.179 43.478 0.00 0.00 0.00 2.83
894 3137 3.254166 CAGCCAGTAGACATTTTTGTGCT 59.746 43.478 0.00 0.00 0.00 4.40
902 3145 1.613437 ACATTTTTGTGCTTCCTCCGG 59.387 47.619 0.00 0.00 0.00 5.14
922 3165 2.437651 GGATTAGCAGCCTTCTTCTCCT 59.562 50.000 0.00 0.00 0.00 3.69
995 3247 2.890945 ACTGCAGTAATCCCAAACCAAC 59.109 45.455 20.16 0.00 0.00 3.77
1083 3357 2.359230 GACGGAAGCAGCAGCCTT 60.359 61.111 0.00 0.00 43.56 4.35
1095 3369 1.968017 CAGCCTTGATGCGTGTGGT 60.968 57.895 0.00 0.00 36.02 4.16
1557 3906 2.686915 GCTCACCAGCAATGCTAAGATT 59.313 45.455 7.70 0.00 46.06 2.40
1692 4409 1.541588 GGGGAGCTTGAACACATTGTC 59.458 52.381 0.00 0.00 0.00 3.18
1803 4571 1.508632 TTCTTGGTGCGCTGTCTAAC 58.491 50.000 9.73 0.00 0.00 2.34
1846 4643 4.870363 GCATTTTGCGGTCATGGTATATT 58.130 39.130 0.00 0.00 31.71 1.28
1847 4644 4.917415 GCATTTTGCGGTCATGGTATATTC 59.083 41.667 0.00 0.00 31.71 1.75
1848 4645 5.278463 GCATTTTGCGGTCATGGTATATTCT 60.278 40.000 0.00 0.00 31.71 2.40
1849 4646 6.735694 GCATTTTGCGGTCATGGTATATTCTT 60.736 38.462 0.00 0.00 31.71 2.52
1850 4647 6.371809 TTTTGCGGTCATGGTATATTCTTC 57.628 37.500 0.00 0.00 0.00 2.87
1851 4648 4.955811 TGCGGTCATGGTATATTCTTCT 57.044 40.909 0.00 0.00 0.00 2.85
1852 4649 5.290493 TGCGGTCATGGTATATTCTTCTT 57.710 39.130 0.00 0.00 0.00 2.52
1853 4650 5.680619 TGCGGTCATGGTATATTCTTCTTT 58.319 37.500 0.00 0.00 0.00 2.52
1854 4651 6.119536 TGCGGTCATGGTATATTCTTCTTTT 58.880 36.000 0.00 0.00 0.00 2.27
1855 4652 6.601613 TGCGGTCATGGTATATTCTTCTTTTT 59.398 34.615 0.00 0.00 0.00 1.94
1882 4695 6.698380 TCTTGACATACCCTTTTAGTCAGTC 58.302 40.000 0.00 0.00 39.97 3.51
2239 6774 2.787994 CCTGCACAAATCTTCTGAGGT 58.212 47.619 0.00 0.00 0.00 3.85
2300 6835 8.147058 ACTGAAATCATATACAGAGATGGTGAC 58.853 37.037 0.00 0.00 34.88 3.67
2333 6868 4.036380 CACCTACTGGTCAAGTTTTTGGTC 59.964 45.833 0.00 0.00 46.60 4.02
2362 6897 4.261801 CGGAGGAATCTACCAAACAACAT 58.738 43.478 0.00 0.00 0.00 2.71
2450 6986 4.563374 GCTGATTTTTACCCAGGTTGCATT 60.563 41.667 0.00 0.00 0.00 3.56
2452 6988 5.303971 TGATTTTTACCCAGGTTGCATTTG 58.696 37.500 0.00 0.00 0.00 2.32
2574 7110 3.934457 TGAAGCGTGTCATCTCTGTTA 57.066 42.857 0.00 0.00 0.00 2.41
2582 7118 2.271800 GTCATCTCTGTTAGTTGGGCG 58.728 52.381 0.00 0.00 0.00 6.13
2620 7157 4.605640 AACTTGAACATGGGATTGGTTG 57.394 40.909 0.00 0.00 0.00 3.77
2689 7228 5.809001 TGGCTGAGATAGTTTGATTTCACT 58.191 37.500 0.00 0.00 0.00 3.41
2783 7322 7.351414 TCGATACTTTGTGTTGAGATTTCAG 57.649 36.000 0.00 0.00 34.15 3.02
2799 7338 6.784031 AGATTTCAGAAGTGGTAAAGTGGAT 58.216 36.000 0.00 0.00 0.00 3.41
2817 7361 7.615582 AGTGGATACTCATGTGTTGTTAATG 57.384 36.000 5.63 0.00 28.79 1.90
2849 7406 5.419788 TGTTTGATTGAATGCTAGATTGGCT 59.580 36.000 0.00 0.00 0.00 4.75
2903 7460 7.805163 TCATTGGTGTATAACTGGAATGATCT 58.195 34.615 0.00 0.00 30.57 2.75
2958 7516 5.232463 CCTTTAAGTCCGCTGTGTTAGTAA 58.768 41.667 0.00 0.00 0.00 2.24
3041 7599 8.742125 ACTTGGATGGATATCTTATAGTGGAA 57.258 34.615 2.05 0.00 33.68 3.53
3157 7715 3.006323 ACCAAGCGCCAAAATTGTTGATA 59.994 39.130 2.29 0.00 0.00 2.15
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 5.156355 CACAACTGTGTTTGGATGCTATTC 58.844 41.667 1.51 0.00 40.96 1.75
8 9 4.771590 CACAACTGTGTTTGGATGCTAT 57.228 40.909 1.51 0.00 40.96 2.97
50 51 7.017319 AGCTACTTTGAAGTACTTTATGGGT 57.983 36.000 10.02 8.18 40.37 4.51
110 111 0.378962 CTTCCTCTGTCTCGGCGTAG 59.621 60.000 6.85 3.20 0.00 3.51
127 128 2.640184 GCCTCGCCTAATTAACCACTT 58.360 47.619 0.00 0.00 0.00 3.16
142 143 3.134458 GAGAAATCATTAGGTGGCCTCG 58.866 50.000 3.32 0.00 34.61 4.63
151 152 7.168972 CGAAGCAGGAAGTAGAGAAATCATTAG 59.831 40.741 0.00 0.00 0.00 1.73
191 192 6.187682 CCCCAGAAATGTGTAAAAGGATAGT 58.812 40.000 0.00 0.00 0.00 2.12
192 193 6.187682 ACCCCAGAAATGTGTAAAAGGATAG 58.812 40.000 0.00 0.00 0.00 2.08
210 212 9.813826 ATCTAAATAATGAATCCTAAACCCCAG 57.186 33.333 0.00 0.00 0.00 4.45
314 322 8.106247 TCGGAGCACTTTATTTCAAATAGTTT 57.894 30.769 0.00 0.00 0.00 2.66
333 341 0.461961 AAGTACTGGAGCATCGGAGC 59.538 55.000 0.00 0.00 34.37 4.70
337 345 3.997021 ACTTTTGAAGTACTGGAGCATCG 59.003 43.478 0.00 0.00 40.69 3.84
440 449 6.152661 AGCAAACAAATCGGAGGATTAATTCA 59.847 34.615 0.00 0.00 41.99 2.57
453 462 2.674954 TGCCAATGAGCAAACAAATCG 58.325 42.857 0.00 0.00 40.56 3.34
470 479 1.506493 CTCTACCGCTCATCATTGCC 58.494 55.000 0.00 0.00 0.00 4.52
473 482 1.069823 CCTGCTCTACCGCTCATCATT 59.930 52.381 0.00 0.00 0.00 2.57
477 486 1.195115 TTTCCTGCTCTACCGCTCAT 58.805 50.000 0.00 0.00 0.00 2.90
491 500 0.323360 TATGCCAAGGCGCTTTTCCT 60.323 50.000 7.64 0.00 45.51 3.36
493 502 2.584492 AATATGCCAAGGCGCTTTTC 57.416 45.000 7.64 0.33 45.51 2.29
508 517 8.932610 AGACCATGAGAGTATTGAGTCAAATAT 58.067 33.333 10.14 0.00 0.00 1.28
561 570 9.084164 TCGTTGCAAGTCTAAAGTAATAAGATC 57.916 33.333 0.00 0.00 0.00 2.75
562 571 8.997621 TCGTTGCAAGTCTAAAGTAATAAGAT 57.002 30.769 0.00 0.00 0.00 2.40
613 622 5.593909 AGCGATCATATTGAATTGACCCAAA 59.406 36.000 0.00 0.00 0.00 3.28
652 661 2.094894 CAGATGCCGACAACATTGAGAC 59.905 50.000 0.00 0.00 0.00 3.36
676 2672 0.179137 CGGTGCGAGATTGCTCACTA 60.179 55.000 0.00 0.00 41.36 2.74
689 2685 1.374125 TCAGTCCACATTCGGTGCG 60.374 57.895 0.00 0.00 46.50 5.34
769 2996 0.601558 AGTGGGCTGTACTGTACACG 59.398 55.000 16.26 13.08 34.46 4.49
813 3050 1.305046 TCGGGAGTGAGGGGAGAAC 60.305 63.158 0.00 0.00 0.00 3.01
832 3069 1.678101 GCGAAATTGGGGATCTTGGAG 59.322 52.381 0.00 0.00 0.00 3.86
861 3098 4.514577 CTGGCTGTCCCTACGCCG 62.515 72.222 0.00 0.00 43.69 6.46
902 3145 3.836365 AGGAGAAGAAGGCTGCTAATC 57.164 47.619 0.00 0.00 31.92 1.75
922 3165 2.928801 ATATGCAGCGATGGTGGTAA 57.071 45.000 1.46 0.00 0.00 2.85
959 3204 0.656785 GCAGTACGAGTACGAGGGAG 59.343 60.000 7.64 0.00 42.66 4.30
962 3207 1.085091 ACTGCAGTACGAGTACGAGG 58.915 55.000 20.16 3.78 42.66 4.63
966 3211 3.379372 TGGGATTACTGCAGTACGAGTAC 59.621 47.826 26.02 12.69 36.35 2.73
967 3212 3.623703 TGGGATTACTGCAGTACGAGTA 58.376 45.455 26.02 11.78 0.00 2.59
968 3213 2.453521 TGGGATTACTGCAGTACGAGT 58.546 47.619 26.02 12.34 0.00 4.18
995 3247 1.506262 CGCCCTCCAACCATTTTCG 59.494 57.895 0.00 0.00 0.00 3.46
1358 3653 0.898320 CCATCGGTCAGAAGTCCTGT 59.102 55.000 0.00 0.00 43.38 4.00
1557 3906 2.980246 TCTTGAGTGAGGAGGAGACA 57.020 50.000 0.00 0.00 0.00 3.41
1692 4409 2.987149 GGTATGCGGTTCAGTCATATCG 59.013 50.000 0.00 0.00 0.00 2.92
1846 4643 7.518188 AGGGTATGTCAAGAAGAAAAAGAAGA 58.482 34.615 0.00 0.00 0.00 2.87
1847 4644 7.751768 AGGGTATGTCAAGAAGAAAAAGAAG 57.248 36.000 0.00 0.00 0.00 2.85
1848 4645 8.533569 AAAGGGTATGTCAAGAAGAAAAAGAA 57.466 30.769 0.00 0.00 0.00 2.52
1849 4646 8.533569 AAAAGGGTATGTCAAGAAGAAAAAGA 57.466 30.769 0.00 0.00 0.00 2.52
1850 4647 9.899226 CTAAAAGGGTATGTCAAGAAGAAAAAG 57.101 33.333 0.00 0.00 0.00 2.27
1851 4648 9.416284 ACTAAAAGGGTATGTCAAGAAGAAAAA 57.584 29.630 0.00 0.00 0.00 1.94
1852 4649 8.990163 ACTAAAAGGGTATGTCAAGAAGAAAA 57.010 30.769 0.00 0.00 0.00 2.29
1853 4650 8.215050 TGACTAAAAGGGTATGTCAAGAAGAAA 58.785 33.333 0.00 0.00 35.15 2.52
1854 4651 7.741785 TGACTAAAAGGGTATGTCAAGAAGAA 58.258 34.615 0.00 0.00 35.15 2.52
1855 4652 7.016268 ACTGACTAAAAGGGTATGTCAAGAAGA 59.984 37.037 0.00 0.00 37.24 2.87
1882 4695 4.891260 TGTTGCAGATATAGGAGATGCAG 58.109 43.478 0.00 0.00 46.51 4.41
2333 6868 0.946221 GTAGATTCCTCCGCATGCCG 60.946 60.000 13.15 5.80 0.00 5.69
2362 6897 8.604035 GCTAATCAACTTTAGTGAATTCGATCA 58.396 33.333 0.04 0.00 32.77 2.92
2421 6957 3.578282 CCTGGGTAAAAATCAGCAAACCT 59.422 43.478 0.00 0.00 0.00 3.50
2450 6986 7.230849 AGCTAATGATTCAAATTGGTCACAA 57.769 32.000 4.61 0.00 41.59 3.33
2452 6988 8.538409 AAAAGCTAATGATTCAAATTGGTCAC 57.462 30.769 4.61 0.00 0.00 3.67
2547 7083 2.096980 AGATGACACGCTTCAATGCATG 59.903 45.455 0.00 0.00 31.96 4.06
2574 7110 2.771943 TCTCTCCATAAATCGCCCAACT 59.228 45.455 0.00 0.00 0.00 3.16
2609 7146 5.779241 AATAAGAGAGTCAACCAATCCCA 57.221 39.130 0.00 0.00 0.00 4.37
2617 7154 5.389935 CCTTGCGTCAAATAAGAGAGTCAAC 60.390 44.000 0.00 0.00 0.00 3.18
2620 7157 4.495422 TCCTTGCGTCAAATAAGAGAGTC 58.505 43.478 0.00 0.00 0.00 3.36
2659 7198 8.985315 AATCAAACTATCTCAGCCATCAAATA 57.015 30.769 0.00 0.00 0.00 1.40
2669 7208 9.645059 TGAGTTAGTGAAATCAAACTATCTCAG 57.355 33.333 14.90 0.00 43.80 3.35
2709 7248 9.186837 GGGCATAGCTAGTACAGTTCTATATTA 57.813 37.037 0.00 0.00 0.00 0.98
2710 7249 7.148052 CGGGCATAGCTAGTACAGTTCTATATT 60.148 40.741 0.00 0.00 0.00 1.28
2711 7250 6.319152 CGGGCATAGCTAGTACAGTTCTATAT 59.681 42.308 0.00 0.00 0.00 0.86
2712 7251 5.646793 CGGGCATAGCTAGTACAGTTCTATA 59.353 44.000 0.00 0.00 0.00 1.31
2713 7252 4.459685 CGGGCATAGCTAGTACAGTTCTAT 59.540 45.833 0.00 0.00 0.00 1.98
2714 7253 3.819337 CGGGCATAGCTAGTACAGTTCTA 59.181 47.826 0.00 0.00 0.00 2.10
2715 7254 2.623889 CGGGCATAGCTAGTACAGTTCT 59.376 50.000 0.00 0.00 0.00 3.01
2716 7255 2.361438 ACGGGCATAGCTAGTACAGTTC 59.639 50.000 0.00 0.00 0.00 3.01
2717 7256 2.100916 CACGGGCATAGCTAGTACAGTT 59.899 50.000 0.00 0.00 0.00 3.16
2718 7257 1.681793 CACGGGCATAGCTAGTACAGT 59.318 52.381 0.00 0.00 0.00 3.55
2719 7258 1.603172 GCACGGGCATAGCTAGTACAG 60.603 57.143 3.77 0.00 40.72 2.74
2720 7259 0.387929 GCACGGGCATAGCTAGTACA 59.612 55.000 3.77 0.00 40.72 2.90
2783 7322 6.313905 CACATGAGTATCCACTTTACCACTTC 59.686 42.308 0.00 0.00 34.21 3.01
2817 7361 9.195411 TCTAGCATTCAATCAAACAATCAAAAC 57.805 29.630 0.00 0.00 0.00 2.43
2849 7406 1.939934 CGCCCGAGCAAAGAAATGATA 59.060 47.619 0.00 0.00 39.83 2.15
2979 7537 1.650363 GCAACCACCCGTGTGTAAC 59.350 57.895 0.00 0.00 41.09 2.50
2998 7556 9.520204 CATCCAAGTTTTCCATCATTTACATAC 57.480 33.333 0.00 0.00 0.00 2.39
3041 7599 8.123639 TGCCTTATCGTCTATTCTAGCTTAAT 57.876 34.615 0.00 0.00 0.00 1.40
3051 7609 5.808366 TTCAGGATGCCTTATCGTCTATT 57.192 39.130 0.00 0.00 36.62 1.73
3157 7715 3.005554 CTGAATCAGCAAAGATCACCGT 58.994 45.455 0.00 0.00 0.00 4.83


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

AutoCloner maintained by Alex Coulton.