Multiple sequence alignment - TraesCS7A01G295600

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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 TraesCS7A01G295600 chr7A 100.000 2713 0 0 1 2713 387169333 387172045 0.000000e+00 5011.0
1 TraesCS7A01G295600 chrUn 94.410 1145 42 7 1572 2713 94079322 94080447 0.000000e+00 1740.0
2 TraesCS7A01G295600 chrUn 86.214 1516 106 32 83 1575 94077860 94079295 0.000000e+00 1546.0
3 TraesCS7A01G295600 chrUn 89.394 132 8 4 62 191 259651639 259651512 7.770000e-36 161.0
4 TraesCS7A01G295600 chr2D 90.815 871 70 7 1575 2443 330452481 330453343 0.000000e+00 1157.0
5 TraesCS7A01G295600 chr2D 82.079 731 86 23 492 1187 642333233 642332513 1.400000e-162 582.0
6 TraesCS7A01G295600 chr2D 88.235 408 37 7 1168 1575 330452055 330452451 6.800000e-131 477.0
7 TraesCS7A01G295600 chr2D 92.857 182 13 0 2497 2678 131383918 131383737 5.760000e-67 265.0
8 TraesCS7A01G295600 chr2D 88.462 52 5 1 403 453 627185133 627185184 8.110000e-06 62.1
9 TraesCS7A01G295600 chr2A 89.703 874 73 11 1572 2443 437402874 437403732 0.000000e+00 1099.0
10 TraesCS7A01G295600 chr2A 83.694 693 78 13 492 1157 767328113 767327429 2.970000e-174 621.0
11 TraesCS7A01G295600 chr2A 91.667 180 15 0 2497 2676 138151513 138151334 1.610000e-62 250.0
12 TraesCS7A01G295600 chr2A 79.787 282 26 20 71 344 722429716 722429458 2.780000e-40 176.0
13 TraesCS7A01G295600 chr2A 93.220 118 5 3 73 189 177991119 177991234 1.290000e-38 171.0
14 TraesCS7A01G295600 chr7B 87.169 982 92 17 382 1333 166057868 166056891 0.000000e+00 1085.0
15 TraesCS7A01G295600 chr7B 92.939 694 45 3 2023 2713 166056150 166055458 0.000000e+00 1007.0
16 TraesCS7A01G295600 chr7B 89.747 751 48 14 1272 1993 166056900 166056150 0.000000e+00 933.0
17 TraesCS7A01G295600 chr7B 91.146 192 16 1 2487 2678 85331906 85331716 2.680000e-65 259.0
18 TraesCS7A01G295600 chr2B 88.723 869 87 7 1572 2438 398573185 398574044 0.000000e+00 1051.0
19 TraesCS7A01G295600 chr2B 88.725 408 36 6 1168 1575 398572761 398573158 8.730000e-135 490.0
20 TraesCS7A01G295600 chr2B 92.265 181 14 0 2497 2677 185792094 185791914 9.640000e-65 257.0
21 TraesCS7A01G295600 chr6A 91.803 183 14 1 2497 2678 611074483 611074665 1.250000e-63 254.0
22 TraesCS7A01G295600 chr6B 89.617 183 19 0 2497 2679 647831561 647831743 1.620000e-57 233.0
23 TraesCS7A01G295600 chr4A 89.560 182 19 0 2497 2678 618681144 618681325 5.840000e-57 231.0
24 TraesCS7A01G295600 chr4A 86.093 151 15 5 79 227 391391806 391391952 1.010000e-34 158.0
25 TraesCS7A01G295600 chr3B 84.314 204 29 2 619 822 254462146 254462346 2.130000e-46 196.0
26 TraesCS7A01G295600 chr4B 79.725 291 19 19 59 346 582765262 582765009 9.990000e-40 174.0
27 TraesCS7A01G295600 chr1A 91.339 127 7 4 67 190 400815690 400815815 1.290000e-38 171.0
28 TraesCS7A01G295600 chr1B 90.698 129 9 3 63 189 633779685 633779558 4.650000e-38 169.0
29 TraesCS7A01G295600 chr4D 89.130 138 9 6 60 192 29433548 29433412 1.670000e-37 167.0


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 TraesCS7A01G295600 chr7A 387169333 387172045 2712 False 5011.000000 5011 100.000000 1 2713 1 chr7A.!!$F1 2712
1 TraesCS7A01G295600 chrUn 94077860 94080447 2587 False 1643.000000 1740 90.312000 83 2713 2 chrUn.!!$F1 2630
2 TraesCS7A01G295600 chr2D 330452055 330453343 1288 False 817.000000 1157 89.525000 1168 2443 2 chr2D.!!$F2 1275
3 TraesCS7A01G295600 chr2D 642332513 642333233 720 True 582.000000 582 82.079000 492 1187 1 chr2D.!!$R2 695
4 TraesCS7A01G295600 chr2A 437402874 437403732 858 False 1099.000000 1099 89.703000 1572 2443 1 chr2A.!!$F2 871
5 TraesCS7A01G295600 chr2A 767327429 767328113 684 True 621.000000 621 83.694000 492 1157 1 chr2A.!!$R3 665
6 TraesCS7A01G295600 chr7B 166055458 166057868 2410 True 1008.333333 1085 89.951667 382 2713 3 chr7B.!!$R2 2331
7 TraesCS7A01G295600 chr2B 398572761 398574044 1283 False 770.500000 1051 88.724000 1168 2438 2 chr2B.!!$F1 1270

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
362 364 0.098728 CGGTTCGCCAGGCAATAAAG 59.901 55.0 13.3 0.00 37.00 1.85 F
363 365 0.179137 GGTTCGCCAGGCAATAAAGC 60.179 55.0 13.3 5.81 37.19 3.51 F
1275 1334 0.408309 ATGGGATGGATGATGGCTGG 59.592 55.0 0.0 0.00 0.00 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1201 1260 0.610232 GCAGCCCTCACACCTGAATT 60.610 55.000 0.0 0.0 0.00 2.17 R
1329 1441 1.211212 AGCTTGCCATGTCTATGAGCA 59.789 47.619 0.0 0.0 38.13 4.26 R
2495 2639 2.044758 ACGTAGTCCACAAACCTCCTT 58.955 47.619 0.0 0.0 29.74 3.36 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
23 24 5.925509 AGGTGTTAGCTAACTTTTCTGTGA 58.074 37.500 31.14 10.20 37.12 3.58
24 25 5.758784 AGGTGTTAGCTAACTTTTCTGTGAC 59.241 40.000 31.14 19.45 37.12 3.67
25 26 5.526111 GGTGTTAGCTAACTTTTCTGTGACA 59.474 40.000 31.14 9.82 37.12 3.58
26 27 6.037830 GGTGTTAGCTAACTTTTCTGTGACAA 59.962 38.462 31.14 8.87 37.12 3.18
27 28 7.126398 GTGTTAGCTAACTTTTCTGTGACAAG 58.874 38.462 31.14 0.00 37.12 3.16
28 29 6.260050 TGTTAGCTAACTTTTCTGTGACAAGG 59.740 38.462 31.14 0.00 37.12 3.61
29 30 4.137543 AGCTAACTTTTCTGTGACAAGGG 58.862 43.478 0.00 0.00 0.00 3.95
30 31 4.134563 GCTAACTTTTCTGTGACAAGGGA 58.865 43.478 0.00 0.00 0.00 4.20
31 32 4.762251 GCTAACTTTTCTGTGACAAGGGAT 59.238 41.667 0.00 0.00 0.00 3.85
32 33 5.241728 GCTAACTTTTCTGTGACAAGGGATT 59.758 40.000 0.00 0.00 0.00 3.01
33 34 5.520376 AACTTTTCTGTGACAAGGGATTG 57.480 39.130 0.00 0.00 0.00 2.67
34 35 3.891366 ACTTTTCTGTGACAAGGGATTGG 59.109 43.478 0.00 0.00 0.00 3.16
35 36 3.593442 TTTCTGTGACAAGGGATTGGT 57.407 42.857 0.00 0.00 0.00 3.67
36 37 3.593442 TTCTGTGACAAGGGATTGGTT 57.407 42.857 0.00 0.00 0.00 3.67
37 38 3.593442 TCTGTGACAAGGGATTGGTTT 57.407 42.857 0.00 0.00 0.00 3.27
38 39 3.221771 TCTGTGACAAGGGATTGGTTTG 58.778 45.455 0.00 0.00 0.00 2.93
39 40 3.117701 TCTGTGACAAGGGATTGGTTTGA 60.118 43.478 0.00 0.00 0.00 2.69
40 41 3.221771 TGTGACAAGGGATTGGTTTGAG 58.778 45.455 0.00 0.00 0.00 3.02
41 42 3.117701 TGTGACAAGGGATTGGTTTGAGA 60.118 43.478 0.00 0.00 0.00 3.27
42 43 3.888930 GTGACAAGGGATTGGTTTGAGAA 59.111 43.478 0.00 0.00 0.00 2.87
43 44 4.340950 GTGACAAGGGATTGGTTTGAGAAA 59.659 41.667 0.00 0.00 0.00 2.52
44 45 4.340950 TGACAAGGGATTGGTTTGAGAAAC 59.659 41.667 0.00 0.00 40.65 2.78
106 107 6.619801 AATAATAAAGCACGGATTGACTCC 57.380 37.500 0.00 0.00 41.07 3.85
114 115 3.927555 GGATTGACTCCGTGGTTCA 57.072 52.632 0.00 0.00 33.29 3.18
115 116 1.439679 GGATTGACTCCGTGGTTCAC 58.560 55.000 0.00 0.00 33.29 3.18
117 118 0.320421 ATTGACTCCGTGGTTCACCG 60.320 55.000 0.00 0.00 39.43 4.94
118 119 1.678598 TTGACTCCGTGGTTCACCGT 61.679 55.000 0.00 0.00 39.43 4.83
135 137 4.150980 TCACCGTTACAATACGCTTCTTTG 59.849 41.667 0.00 0.00 40.10 2.77
158 160 5.465857 CGTGATTTTACGCTTTCAGTTTG 57.534 39.130 0.00 0.00 37.24 2.93
169 171 6.039616 ACGCTTTCAGTTTGAATTTAAAGCA 58.960 32.000 15.40 0.00 45.60 3.91
182 184 8.275015 TGAATTTAAAGCAATATTCGAGGTGA 57.725 30.769 0.00 0.00 31.29 4.02
243 245 2.923605 ACAAAAACGTTCGGCTGAAA 57.076 40.000 10.18 0.00 35.46 2.69
244 246 3.430333 ACAAAAACGTTCGGCTGAAAT 57.570 38.095 10.18 0.00 35.46 2.17
253 255 2.380084 TCGGCTGAAATAACGCTTCT 57.620 45.000 0.00 0.00 0.00 2.85
283 285 2.359850 GGGCCACATTCACAGCGA 60.360 61.111 4.39 0.00 0.00 4.93
351 353 1.784525 CCTGATCTATTCGGTTCGCC 58.215 55.000 0.00 0.00 0.00 5.54
362 364 0.098728 CGGTTCGCCAGGCAATAAAG 59.901 55.000 13.30 0.00 37.00 1.85
363 365 0.179137 GGTTCGCCAGGCAATAAAGC 60.179 55.000 13.30 5.81 37.19 3.51
365 367 0.525761 TTCGCCAGGCAATAAAGCAC 59.474 50.000 13.30 0.00 35.83 4.40
366 368 1.139520 CGCCAGGCAATAAAGCACC 59.860 57.895 13.30 0.00 35.83 5.01
367 369 1.315257 CGCCAGGCAATAAAGCACCT 61.315 55.000 13.30 0.00 35.83 4.00
368 370 0.897621 GCCAGGCAATAAAGCACCTT 59.102 50.000 6.55 0.00 35.83 3.50
369 371 2.099405 GCCAGGCAATAAAGCACCTTA 58.901 47.619 6.55 0.00 35.83 2.69
370 372 2.695147 GCCAGGCAATAAAGCACCTTAT 59.305 45.455 6.55 0.00 35.83 1.73
371 373 3.243535 GCCAGGCAATAAAGCACCTTATC 60.244 47.826 6.55 0.00 35.83 1.75
372 374 3.319122 CCAGGCAATAAAGCACCTTATCC 59.681 47.826 0.00 0.00 35.83 2.59
373 375 3.319122 CAGGCAATAAAGCACCTTATCCC 59.681 47.826 0.00 0.00 35.83 3.85
374 376 3.205282 AGGCAATAAAGCACCTTATCCCT 59.795 43.478 0.00 0.00 35.83 4.20
375 377 3.960755 GGCAATAAAGCACCTTATCCCTT 59.039 43.478 0.00 0.00 35.83 3.95
376 378 4.038042 GGCAATAAAGCACCTTATCCCTTC 59.962 45.833 0.00 0.00 35.83 3.46
377 379 4.038042 GCAATAAAGCACCTTATCCCTTCC 59.962 45.833 0.00 0.00 0.00 3.46
378 380 5.449553 CAATAAAGCACCTTATCCCTTCCT 58.550 41.667 0.00 0.00 0.00 3.36
379 381 3.653835 AAAGCACCTTATCCCTTCCTC 57.346 47.619 0.00 0.00 0.00 3.71
380 382 1.512735 AGCACCTTATCCCTTCCTCC 58.487 55.000 0.00 0.00 0.00 4.30
388 390 4.471548 CTTATCCCTTCCTCCGAGTTCTA 58.528 47.826 0.00 0.00 0.00 2.10
411 417 2.692273 AAAAACCTTCCTCCGCGGCT 62.692 55.000 23.51 0.00 0.00 5.52
455 461 4.209866 GCGCCCCCATCCCTCAAT 62.210 66.667 0.00 0.00 0.00 2.57
482 493 1.464722 CCCCATCCCTTTGTGGTGT 59.535 57.895 0.00 0.00 33.55 4.16
575 586 2.463589 GATGCAGTGGACGACCCCAA 62.464 60.000 0.34 0.00 38.06 4.12
633 653 4.154347 CGCCTCACTCTGCCCCTC 62.154 72.222 0.00 0.00 0.00 4.30
836 865 2.383527 CCGACTTGCGTCTGCTTCC 61.384 63.158 0.00 0.00 43.34 3.46
863 892 2.416107 CTTCTTGCACCTCCTGGCCA 62.416 60.000 4.71 4.71 36.63 5.36
958 1011 2.875296 CTCCTGAGAGCTAGCCTGTAT 58.125 52.381 12.13 0.00 32.13 2.29
972 1025 2.053244 CCTGTATGAAGGGCTCTCCAT 58.947 52.381 0.00 0.00 38.24 3.41
1081 1137 2.268076 GGCTGGTGATGTTGCCGTT 61.268 57.895 0.00 0.00 35.79 4.44
1103 1159 1.878102 GCTTCTTCTTCCTCACGGCAA 60.878 52.381 0.00 0.00 0.00 4.52
1201 1260 4.458989 GGATTTGTTGTGTAGGCAGATCAA 59.541 41.667 0.00 0.00 0.00 2.57
1218 1277 1.425066 TCAAATTCAGGTGTGAGGGCT 59.575 47.619 0.00 0.00 32.98 5.19
1219 1278 1.542915 CAAATTCAGGTGTGAGGGCTG 59.457 52.381 0.00 0.00 32.98 4.85
1220 1279 0.610232 AATTCAGGTGTGAGGGCTGC 60.610 55.000 0.00 0.00 32.98 5.25
1221 1280 1.782201 ATTCAGGTGTGAGGGCTGCA 61.782 55.000 0.50 0.00 32.98 4.41
1275 1334 0.408309 ATGGGATGGATGATGGCTGG 59.592 55.000 0.00 0.00 0.00 4.85
1286 1371 2.923121 TGATGGCTGGTAGCTGAATTC 58.077 47.619 0.00 0.00 41.99 2.17
1307 1392 3.132824 TCTGTTATTGCTGCTGCTAGCTA 59.867 43.478 17.23 14.68 42.97 3.32
1329 1441 6.128472 GCTAAATTTTGCTATTGTTGCTGCTT 60.128 34.615 15.99 0.00 0.00 3.91
1366 1478 4.740268 CAAGCTGTTTGATACATGCACAT 58.260 39.130 0.00 0.00 39.21 3.21
1404 1516 3.125316 TGTTGTTGCTACCGTAACTCAC 58.875 45.455 0.00 0.00 36.78 3.51
1446 1558 7.255660 GCTTCGATTTTATAGAGAGGGAGAGAA 60.256 40.741 0.00 0.00 0.00 2.87
1567 1679 2.739913 GTTGTACCGCTGTTGATTGCTA 59.260 45.455 0.00 0.00 0.00 3.49
1731 1873 9.145865 GGAAGTAGAAGAGAAGAAATTGTACAG 57.854 37.037 0.00 0.00 0.00 2.74
1762 1904 3.466395 AGAAGCAGTAGAAGGAGGACT 57.534 47.619 0.00 0.00 0.00 3.85
1823 1965 0.249489 GGCCTACACGTAGCCATGAG 60.249 60.000 11.86 0.00 32.95 2.90
1857 1999 6.203723 GCGATGTATTTTAGAGCTGAGGATTT 59.796 38.462 0.00 0.00 0.00 2.17
2145 2288 8.844244 GGAGTCAAGTTGCTAATCATAATTCAT 58.156 33.333 0.00 0.00 0.00 2.57
2272 2415 3.039252 TGGTTCCCACTGTGGATTTTT 57.961 42.857 27.94 0.00 40.96 1.94
2400 2544 5.968528 TGACAACTAGAGAAGGAGAAGAC 57.031 43.478 0.00 0.00 0.00 3.01
2439 2583 1.222115 AACGACAAACAGGAGAGCGC 61.222 55.000 0.00 0.00 0.00 5.92
2454 2598 2.918712 AGCGCTGGTATTGCTCTTAT 57.081 45.000 10.39 0.00 32.44 1.73
2495 2639 6.816140 TGATATTGCTCTTAATGTGACGACAA 59.184 34.615 0.00 0.00 35.11 3.18
2615 2760 3.436704 ACAAGCATGTTTGTCTCGTATGG 59.563 43.478 20.76 0.00 36.60 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 6.598753 TGTCACAGAAAAGTTAGCTAACAC 57.401 37.500 32.48 20.47 38.62 3.32
3 4 6.260050 CCTTGTCACAGAAAAGTTAGCTAACA 59.740 38.462 32.48 10.39 38.62 2.41
5 6 5.763204 CCCTTGTCACAGAAAAGTTAGCTAA 59.237 40.000 0.86 0.86 0.00 3.09
6 7 5.071250 TCCCTTGTCACAGAAAAGTTAGCTA 59.929 40.000 0.00 0.00 0.00 3.32
7 8 4.137543 CCCTTGTCACAGAAAAGTTAGCT 58.862 43.478 0.00 0.00 0.00 3.32
8 9 4.134563 TCCCTTGTCACAGAAAAGTTAGC 58.865 43.478 0.00 0.00 0.00 3.09
9 10 6.294176 CCAATCCCTTGTCACAGAAAAGTTAG 60.294 42.308 0.00 0.00 0.00 2.34
10 11 5.534654 CCAATCCCTTGTCACAGAAAAGTTA 59.465 40.000 0.00 0.00 0.00 2.24
11 12 4.342092 CCAATCCCTTGTCACAGAAAAGTT 59.658 41.667 0.00 0.00 0.00 2.66
12 13 3.891366 CCAATCCCTTGTCACAGAAAAGT 59.109 43.478 0.00 0.00 0.00 2.66
13 14 3.891366 ACCAATCCCTTGTCACAGAAAAG 59.109 43.478 0.00 0.00 0.00 2.27
14 15 3.909732 ACCAATCCCTTGTCACAGAAAA 58.090 40.909 0.00 0.00 0.00 2.29
15 16 3.593442 ACCAATCCCTTGTCACAGAAA 57.407 42.857 0.00 0.00 0.00 2.52
16 17 3.593442 AACCAATCCCTTGTCACAGAA 57.407 42.857 0.00 0.00 0.00 3.02
17 18 3.117701 TCAAACCAATCCCTTGTCACAGA 60.118 43.478 0.00 0.00 0.00 3.41
18 19 3.221771 TCAAACCAATCCCTTGTCACAG 58.778 45.455 0.00 0.00 0.00 3.66
19 20 3.117701 TCTCAAACCAATCCCTTGTCACA 60.118 43.478 0.00 0.00 0.00 3.58
20 21 3.486383 TCTCAAACCAATCCCTTGTCAC 58.514 45.455 0.00 0.00 0.00 3.67
21 22 3.874383 TCTCAAACCAATCCCTTGTCA 57.126 42.857 0.00 0.00 0.00 3.58
22 23 4.871513 GTTTCTCAAACCAATCCCTTGTC 58.128 43.478 0.00 0.00 35.35 3.18
23 24 4.937201 GTTTCTCAAACCAATCCCTTGT 57.063 40.909 0.00 0.00 35.35 3.16
71 72 9.280174 CCGTGCTTTATTATTATTAGGGAAAGA 57.720 33.333 0.00 0.00 0.00 2.52
72 73 9.280174 TCCGTGCTTTATTATTATTAGGGAAAG 57.720 33.333 0.00 0.00 0.00 2.62
73 74 9.802039 ATCCGTGCTTTATTATTATTAGGGAAA 57.198 29.630 0.00 0.00 0.00 3.13
74 75 9.802039 AATCCGTGCTTTATTATTATTAGGGAA 57.198 29.630 0.00 0.00 0.00 3.97
75 76 9.226606 CAATCCGTGCTTTATTATTATTAGGGA 57.773 33.333 0.00 0.00 0.00 4.20
76 77 9.226606 TCAATCCGTGCTTTATTATTATTAGGG 57.773 33.333 0.00 0.00 0.00 3.53
80 81 8.784043 GGAGTCAATCCGTGCTTTATTATTATT 58.216 33.333 0.00 0.00 38.67 1.40
81 82 8.324163 GGAGTCAATCCGTGCTTTATTATTAT 57.676 34.615 0.00 0.00 38.67 1.28
106 107 2.090967 CGTATTGTAACGGTGAACCACG 59.909 50.000 0.00 0.00 39.19 4.94
115 116 3.413558 GCAAAGAAGCGTATTGTAACGG 58.586 45.455 0.00 0.00 43.06 4.44
194 196 9.772973 TTCAGCTGAAAGTTTTCTACTGTATAA 57.227 29.630 26.61 0.00 39.55 0.98
195 197 9.424319 CTTCAGCTGAAAGTTTTCTACTGTATA 57.576 33.333 28.16 1.37 39.55 1.47
196 198 8.150945 TCTTCAGCTGAAAGTTTTCTACTGTAT 58.849 33.333 28.16 0.00 39.55 2.29
197 199 7.497595 TCTTCAGCTGAAAGTTTTCTACTGTA 58.502 34.615 28.16 2.11 39.55 2.74
198 200 6.349300 TCTTCAGCTGAAAGTTTTCTACTGT 58.651 36.000 28.16 0.00 39.55 3.55
199 201 6.851222 TCTTCAGCTGAAAGTTTTCTACTG 57.149 37.500 28.16 13.04 39.73 2.74
200 202 7.336931 TGTTTCTTCAGCTGAAAGTTTTCTACT 59.663 33.333 28.16 1.32 39.32 2.57
201 203 7.472543 TGTTTCTTCAGCTGAAAGTTTTCTAC 58.527 34.615 28.16 16.90 38.02 2.59
210 212 5.465935 ACGTTTTTGTTTCTTCAGCTGAAA 58.534 33.333 28.16 16.82 33.07 2.69
214 216 4.095610 CGAACGTTTTTGTTTCTTCAGCT 58.904 39.130 0.46 0.00 30.75 4.24
243 245 1.337387 GCGGGAGTCTAGAAGCGTTAT 59.663 52.381 0.00 0.00 0.00 1.89
244 246 0.737219 GCGGGAGTCTAGAAGCGTTA 59.263 55.000 0.00 0.00 0.00 3.18
273 275 0.108138 GCTAGGTGGTCGCTGTGAAT 60.108 55.000 0.00 0.00 0.00 2.57
283 285 2.689034 GGGAGCAGGCTAGGTGGT 60.689 66.667 0.00 0.00 0.00 4.16
330 332 1.269831 GCGAACCGAATAGATCAGGCT 60.270 52.381 0.00 0.00 0.00 4.58
340 342 0.107410 TATTGCCTGGCGAACCGAAT 60.107 50.000 13.65 8.71 39.70 3.34
343 345 0.098728 CTTTATTGCCTGGCGAACCG 59.901 55.000 13.65 0.00 39.70 4.44
351 353 3.319122 GGGATAAGGTGCTTTATTGCCTG 59.681 47.826 0.00 0.00 0.00 4.85
362 364 0.106894 CGGAGGAAGGGATAAGGTGC 59.893 60.000 0.00 0.00 0.00 5.01
363 365 1.689273 CTCGGAGGAAGGGATAAGGTG 59.311 57.143 0.00 0.00 0.00 4.00
365 367 2.089600 ACTCGGAGGAAGGGATAAGG 57.910 55.000 10.23 0.00 0.00 2.69
366 368 3.301274 AGAACTCGGAGGAAGGGATAAG 58.699 50.000 10.23 0.00 0.00 1.73
367 369 3.399952 AGAACTCGGAGGAAGGGATAA 57.600 47.619 10.23 0.00 0.00 1.75
368 370 4.531357 TTAGAACTCGGAGGAAGGGATA 57.469 45.455 10.23 0.00 0.00 2.59
369 371 3.399952 TTAGAACTCGGAGGAAGGGAT 57.600 47.619 10.23 0.00 0.00 3.85
370 372 2.913603 TTAGAACTCGGAGGAAGGGA 57.086 50.000 10.23 0.00 0.00 4.20
371 373 3.975168 TTTTAGAACTCGGAGGAAGGG 57.025 47.619 10.23 0.00 0.00 3.95
394 396 3.637273 AGCCGCGGAGGAAGGTTT 61.637 61.111 33.48 0.00 45.00 3.27
468 474 1.005924 GGATGGACACCACAAAGGGAT 59.994 52.381 0.00 0.00 43.89 3.85
482 493 4.770362 TCGGGGTGCGAGGATGGA 62.770 66.667 0.00 0.00 0.00 3.41
540 551 1.025041 CATCCTCGTCCTCATCGACA 58.975 55.000 0.00 0.00 33.71 4.35
575 586 2.125912 GTCGTCGAGGCACTGCAT 60.126 61.111 2.82 0.00 41.55 3.96
792 821 0.749649 CGCCTCCATCTACAAGCTCT 59.250 55.000 0.00 0.00 0.00 4.09
836 865 2.421619 GAGGTGCAAGAAGAAGTCCAG 58.578 52.381 0.00 0.00 0.00 3.86
863 892 2.515523 GGCGCTGGCAGATGACAT 60.516 61.111 20.86 0.00 42.47 3.06
918 971 1.208293 GCCTCTTCTCCTGTCGGAATT 59.792 52.381 0.00 0.00 39.29 2.17
919 972 0.827368 GCCTCTTCTCCTGTCGGAAT 59.173 55.000 0.00 0.00 39.29 3.01
958 1011 1.126488 CAGCTATGGAGAGCCCTTCA 58.874 55.000 0.00 0.00 43.97 3.02
1103 1159 1.719063 AACAGCTCCACCACCACCAT 61.719 55.000 0.00 0.00 0.00 3.55
1201 1260 0.610232 GCAGCCCTCACACCTGAATT 60.610 55.000 0.00 0.00 0.00 2.17
1218 1277 3.055602 ACACTCATCTCACTATGCTTGCA 60.056 43.478 0.00 0.00 0.00 4.08
1219 1278 3.529533 ACACTCATCTCACTATGCTTGC 58.470 45.455 0.00 0.00 0.00 4.01
1220 1279 6.982724 TCATAACACTCATCTCACTATGCTTG 59.017 38.462 0.00 0.00 0.00 4.01
1221 1280 7.117285 TCATAACACTCATCTCACTATGCTT 57.883 36.000 0.00 0.00 0.00 3.91
1275 1334 5.065731 AGCAGCAATAACAGAATTCAGCTAC 59.934 40.000 8.44 0.80 0.00 3.58
1286 1371 2.286872 AGCTAGCAGCAGCAATAACAG 58.713 47.619 18.83 0.00 45.56 3.16
1307 1392 5.561339 GCAAGCAGCAACAATAGCAAAATTT 60.561 36.000 0.00 0.00 44.79 1.82
1329 1441 1.211212 AGCTTGCCATGTCTATGAGCA 59.789 47.619 0.00 0.00 38.13 4.26
1366 1478 6.073873 GCAACAACAAAAATAGCAGCAACATA 60.074 34.615 0.00 0.00 0.00 2.29
1404 1516 5.784750 TCGAAGCATCATTTGAGTACTTG 57.215 39.130 0.00 0.00 0.00 3.16
1484 1596 8.789767 TCTCTCTCAGTATAAAATGGAAGGAT 57.210 34.615 0.00 0.00 0.00 3.24
1567 1679 8.671921 GTTGACTGAGAAAATATGACATCACAT 58.328 33.333 0.00 0.00 0.00 3.21
1731 1873 2.849294 ACTGCTTCTTCTCTTGTCCC 57.151 50.000 0.00 0.00 0.00 4.46
1823 1965 6.525121 TCTAAAATACATCGCACTGCATAC 57.475 37.500 1.11 0.00 0.00 2.39
2070 2212 6.554334 TTCTTTCCGACCATTAAAACTGAG 57.446 37.500 0.00 0.00 0.00 3.35
2152 2295 7.404671 AACACACAAAAGAACACTTCCTTAT 57.595 32.000 0.00 0.00 0.00 1.73
2400 2544 2.125552 TGCCATTCGTCTGCCTCG 60.126 61.111 0.00 0.00 0.00 4.63
2495 2639 2.044758 ACGTAGTCCACAAACCTCCTT 58.955 47.619 0.00 0.00 29.74 3.36
2615 2760 9.708222 GTTCACAAAGATTACACATATGATCAC 57.292 33.333 10.38 0.00 0.00 3.06


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

AutoCloner maintained by Alex Coulton.