Multiple sequence alignment - TraesCS4A01G088800

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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 TraesCS4A01G088800 chr4A 100.000 3398 0 0 1309 4706 94761884 94765281 0.000000e+00 6276.0
1 TraesCS4A01G088800 chr4A 100.000 1050 0 0 1 1050 94760576 94761625 0.000000e+00 1940.0
2 TraesCS4A01G088800 chr6A 96.766 3061 78 5 1663 4706 77889171 77892227 0.000000e+00 5084.0
3 TraesCS4A01G088800 chr6A 96.660 2665 68 5 1663 4309 78018689 78021350 0.000000e+00 4409.0
4 TraesCS4A01G088800 chr6A 95.238 1239 50 4 3472 4706 80491070 80492303 0.000000e+00 1953.0
5 TraesCS4A01G088800 chr6A 94.283 892 41 5 2591 3480 80477878 80478761 0.000000e+00 1356.0
6 TraesCS4A01G088800 chr6A 86.642 1093 97 16 3473 4556 5224065 5225117 0.000000e+00 1164.0
7 TraesCS4A01G088800 chr6A 97.059 408 11 1 4296 4703 78026224 78026630 0.000000e+00 686.0
8 TraesCS4A01G088800 chr6D 94.381 3061 131 19 1663 4706 161148020 161151056 0.000000e+00 4662.0
9 TraesCS4A01G088800 chr6D 87.832 1093 105 15 3473 4556 5854601 5855674 0.000000e+00 1256.0
10 TraesCS4A01G088800 chr5D 95.358 1508 60 5 2562 4067 435124743 435126242 0.000000e+00 2388.0
11 TraesCS4A01G088800 chr5D 87.736 848 60 25 1663 2497 435120707 435121523 0.000000e+00 950.0
12 TraesCS4A01G088800 chr5D 92.500 320 16 4 4393 4706 435151565 435151882 7.180000e-123 451.0
13 TraesCS4A01G088800 chr5D 97.949 195 4 0 4199 4393 435148640 435148834 5.830000e-89 339.0
14 TraesCS4A01G088800 chr5D 81.667 420 52 21 2640 3042 299402494 299402905 4.540000e-85 326.0
15 TraesCS4A01G088800 chr5D 95.000 140 7 0 4065 4204 435148454 435148593 2.200000e-53 220.0
16 TraesCS4A01G088800 chr5A 91.886 1479 98 10 2394 3863 154618525 154617060 0.000000e+00 2047.0
17 TraesCS4A01G088800 chr5A 93.765 850 48 2 3861 4706 154493316 154492468 0.000000e+00 1271.0
18 TraesCS4A01G088800 chr5A 81.579 418 56 18 2640 3042 396500585 396500996 4.540000e-85 326.0
19 TraesCS4A01G088800 chr4D 93.333 870 35 14 1 853 369895275 369894412 0.000000e+00 1264.0
20 TraesCS4A01G088800 chr4D 86.207 377 27 14 1309 1665 369894127 369893756 7.390000e-103 385.0
21 TraesCS4A01G088800 chr4D 83.245 376 37 12 1312 1665 136762186 136761815 5.870000e-84 322.0
22 TraesCS4A01G088800 chr4B 96.092 435 11 4 1 435 455020755 455020327 0.000000e+00 704.0
23 TraesCS4A01G088800 chr4B 86.604 321 37 4 648 966 455018008 455017692 2.690000e-92 350.0
24 TraesCS4A01G088800 chr4B 92.908 141 9 1 459 598 455020255 455020115 2.220000e-48 204.0
25 TraesCS4A01G088800 chr7A 82.510 749 94 14 3690 4414 342917133 342916398 1.440000e-174 623.0
26 TraesCS4A01G088800 chr7A 89.189 185 17 3 2163 2347 134549268 134549449 1.320000e-55 228.0
27 TraesCS4A01G088800 chr7A 90.580 138 9 1 4573 4706 8738799 8738936 3.740000e-41 180.0
28 TraesCS4A01G088800 chr7A 100.000 30 0 0 2362 2391 134549446 134549475 6.580000e-04 56.5
29 TraesCS4A01G088800 chr3A 82.744 707 53 25 1662 2325 712620342 712621022 2.460000e-157 566.0
30 TraesCS4A01G088800 chr2A 87.915 422 30 9 1732 2140 579837249 579836836 1.180000e-130 477.0
31 TraesCS4A01G088800 chr2A 78.846 208 24 7 1312 1519 277226785 277226598 6.400000e-24 122.0
32 TraesCS4A01G088800 chr1A 91.358 243 21 0 2149 2391 485565873 485565631 2.710000e-87 333.0
33 TraesCS4A01G088800 chr1A 94.643 56 3 0 1660 1715 585366068 585366123 2.330000e-13 87.9
34 TraesCS4A01G088800 chr2D 87.375 301 21 7 2884 3168 29648765 29649064 3.510000e-86 329.0
35 TraesCS4A01G088800 chr1B 90.947 243 22 0 2149 2391 518266326 518266084 1.260000e-85 327.0
36 TraesCS4A01G088800 chr5B 81.667 420 52 21 2640 3042 340620698 340621109 4.540000e-85 326.0
37 TraesCS4A01G088800 chr5B 85.455 275 30 8 1309 1580 271684735 271684468 1.290000e-70 278.0
38 TraesCS4A01G088800 chr1D 91.845 233 19 0 2159 2391 386127330 386127098 4.540000e-85 326.0
39 TraesCS4A01G088800 chr2B 87.097 279 30 6 1312 1589 158153690 158153417 1.270000e-80 311.0
40 TraesCS4A01G088800 chrUn 90.541 222 21 0 3473 3694 75991172 75990951 1.280000e-75 294.0
41 TraesCS4A01G088800 chrUn 90.541 222 21 0 3473 3694 231194857 231194636 1.280000e-75 294.0
42 TraesCS4A01G088800 chr7D 81.340 209 17 9 1310 1518 110118570 110118384 2.930000e-32 150.0


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 TraesCS4A01G088800 chr4A 94760576 94765281 4705 False 4108.000000 6276 100.000000 1 4706 2 chr4A.!!$F1 4705
1 TraesCS4A01G088800 chr6A 77889171 77892227 3056 False 5084.000000 5084 96.766000 1663 4706 1 chr6A.!!$F2 3043
2 TraesCS4A01G088800 chr6A 78018689 78021350 2661 False 4409.000000 4409 96.660000 1663 4309 1 chr6A.!!$F3 2646
3 TraesCS4A01G088800 chr6A 80491070 80492303 1233 False 1953.000000 1953 95.238000 3472 4706 1 chr6A.!!$F6 1234
4 TraesCS4A01G088800 chr6A 80477878 80478761 883 False 1356.000000 1356 94.283000 2591 3480 1 chr6A.!!$F5 889
5 TraesCS4A01G088800 chr6A 5224065 5225117 1052 False 1164.000000 1164 86.642000 3473 4556 1 chr6A.!!$F1 1083
6 TraesCS4A01G088800 chr6D 161148020 161151056 3036 False 4662.000000 4662 94.381000 1663 4706 1 chr6D.!!$F2 3043
7 TraesCS4A01G088800 chr6D 5854601 5855674 1073 False 1256.000000 1256 87.832000 3473 4556 1 chr6D.!!$F1 1083
8 TraesCS4A01G088800 chr5D 435120707 435126242 5535 False 1669.000000 2388 91.547000 1663 4067 2 chr5D.!!$F2 2404
9 TraesCS4A01G088800 chr5D 435148454 435151882 3428 False 336.666667 451 95.149667 4065 4706 3 chr5D.!!$F3 641
10 TraesCS4A01G088800 chr5A 154617060 154618525 1465 True 2047.000000 2047 91.886000 2394 3863 1 chr5A.!!$R2 1469
11 TraesCS4A01G088800 chr5A 154492468 154493316 848 True 1271.000000 1271 93.765000 3861 4706 1 chr5A.!!$R1 845
12 TraesCS4A01G088800 chr4D 369893756 369895275 1519 True 824.500000 1264 89.770000 1 1665 2 chr4D.!!$R2 1664
13 TraesCS4A01G088800 chr4B 455017692 455020755 3063 True 419.333333 704 91.868000 1 966 3 chr4B.!!$R1 965
14 TraesCS4A01G088800 chr7A 342916398 342917133 735 True 623.000000 623 82.510000 3690 4414 1 chr7A.!!$R1 724
15 TraesCS4A01G088800 chr3A 712620342 712621022 680 False 566.000000 566 82.744000 1662 2325 1 chr3A.!!$F1 663

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
247 248 0.690744 TCGATGGCCTCATTCTGGGA 60.691 55.000 3.32 0.0 32.98 4.37 F
1041 1149 0.040058 ATGAAGGCCAGGTGATGCAA 59.960 50.000 5.01 0.0 0.00 4.08 F
1042 1150 0.178967 TGAAGGCCAGGTGATGCAAA 60.179 50.000 5.01 0.0 0.00 3.68 F
1043 1151 0.968405 GAAGGCCAGGTGATGCAAAA 59.032 50.000 5.01 0.0 0.00 2.44 F
1044 1152 0.971386 AAGGCCAGGTGATGCAAAAG 59.029 50.000 5.01 0.0 0.00 2.27 F
1045 1153 1.079612 GGCCAGGTGATGCAAAAGC 60.080 57.895 0.00 0.0 0.00 3.51 F
1048 1156 1.593265 CAGGTGATGCAAAAGCCCC 59.407 57.895 0.00 0.0 0.00 5.80 F
1372 1480 2.158561 ATTTGCTTCTGGGTTGCGGC 62.159 55.000 0.00 0.0 0.00 6.53 F
3002 7715 2.606795 GCTCTATCGAGGACTGCATGAC 60.607 54.545 0.00 0.0 37.75 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1423 1531 0.696501 GCCCCCTTACAACTGAAGGA 59.303 55.000 2.94 0.00 45.52 3.36 R
2756 7468 2.476854 GCAGCAGCAGAATAAACGGAAG 60.477 50.000 0.00 0.00 41.58 3.46 R
2759 7471 3.611433 GCAGCAGCAGAATAAACGG 57.389 52.632 0.00 0.00 41.58 4.44 R
3002 7715 4.646040 TCCAAGAATGCATATTGACCAAGG 59.354 41.667 20.59 7.67 0.00 3.61 R
3059 7773 5.939764 AGAATGCCACAAGATACAGTAGA 57.060 39.130 0.00 0.00 0.00 2.59 R
3070 7784 3.788227 ACCTGACTAAGAATGCCACAA 57.212 42.857 0.00 0.00 0.00 3.33 R
3097 7811 9.143631 GAAACATAAAACAAAGGATGGAAGATG 57.856 33.333 0.00 0.00 0.00 2.90 R
3279 7996 4.152402 TCAGCTTAATCTTTGAACTCGTGC 59.848 41.667 0.00 0.00 0.00 5.34 R
4492 12037 1.345415 CCCAGATGTTTGCTTGGCTTT 59.655 47.619 0.00 0.00 0.00 3.51 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
105 106 2.583739 CAGAGCTATGCGAATCGAGAG 58.416 52.381 6.91 0.37 0.00 3.20
106 107 1.068610 AGAGCTATGCGAATCGAGAGC 60.069 52.381 6.91 11.12 0.00 4.09
130 131 2.420058 AGAATCTAGGGTTTTGCGGG 57.580 50.000 0.00 0.00 0.00 6.13
131 132 0.738975 GAATCTAGGGTTTTGCGGGC 59.261 55.000 0.00 0.00 0.00 6.13
132 133 1.029947 AATCTAGGGTTTTGCGGGCG 61.030 55.000 0.00 0.00 0.00 6.13
247 248 0.690744 TCGATGGCCTCATTCTGGGA 60.691 55.000 3.32 0.00 32.98 4.37
432 433 2.435410 CCCAACTTACCGACCCGC 60.435 66.667 0.00 0.00 0.00 6.13
439 440 0.736325 CTTACCGACCCGCACTCAAG 60.736 60.000 0.00 0.00 0.00 3.02
440 441 1.466025 TTACCGACCCGCACTCAAGT 61.466 55.000 0.00 0.00 0.00 3.16
532 580 2.640346 ACAAACCCAAACAACACGAC 57.360 45.000 0.00 0.00 0.00 4.34
564 634 6.724694 TTTTAAACGTATATTCGGTGCACT 57.275 33.333 17.98 0.00 34.94 4.40
599 669 2.250188 GACGCCCGATGTTCAAAATTG 58.750 47.619 0.00 0.00 0.00 2.32
608 678 7.439056 GCCCGATGTTCAAAATTGATGATAAAT 59.561 33.333 0.00 0.00 37.00 1.40
741 814 5.852282 ATAGCGGTTAATTTGAATTGGCT 57.148 34.783 0.00 5.64 0.00 4.75
810 883 4.033932 GCCACTGTTGAATTTGTTGTTTCC 59.966 41.667 0.00 0.00 0.00 3.13
813 886 5.004345 CACTGTTGAATTTGTTGTTTCCGTC 59.996 40.000 0.00 0.00 0.00 4.79
837 910 5.655488 TCTCAAGCTCTAAGTTGAGTATGC 58.345 41.667 9.96 0.00 46.57 3.14
841 914 6.536582 TCAAGCTCTAAGTTGAGTATGCAATC 59.463 38.462 0.00 0.00 36.51 2.67
894 1002 6.866770 GTGTGTGTGTGTGTTATACTGAGTAT 59.133 38.462 10.33 10.33 33.05 2.12
895 1003 7.384115 GTGTGTGTGTGTGTTATACTGAGTATT 59.616 37.037 10.78 0.00 30.79 1.89
899 1007 8.160342 GTGTGTGTGTTATACTGAGTATTTTCG 58.840 37.037 10.78 0.00 30.79 3.46
975 1083 6.147492 TGCACAAAAACTCCATGATAAAATGC 59.853 34.615 0.00 0.00 0.00 3.56
989 1097 9.669353 CATGATAAAATGCTCTACCAATGTAAC 57.331 33.333 0.00 0.00 0.00 2.50
991 1099 8.892723 TGATAAAATGCTCTACCAATGTAACTG 58.107 33.333 0.00 0.00 0.00 3.16
994 1102 4.882842 TGCTCTACCAATGTAACTGTGA 57.117 40.909 0.00 0.00 0.00 3.58
1010 1118 0.321919 GTGATCTCCACAGGCTGCAA 60.322 55.000 15.89 0.00 45.03 4.08
1034 1142 2.370445 CCCTCGATGAAGGCCAGGT 61.370 63.158 5.01 0.00 34.88 4.00
1037 1145 0.467384 CTCGATGAAGGCCAGGTGAT 59.533 55.000 5.01 0.00 0.00 3.06
1038 1146 0.178767 TCGATGAAGGCCAGGTGATG 59.821 55.000 5.01 0.00 0.00 3.07
1040 1148 0.394762 GATGAAGGCCAGGTGATGCA 60.395 55.000 5.01 0.00 0.00 3.96
1041 1149 0.040058 ATGAAGGCCAGGTGATGCAA 59.960 50.000 5.01 0.00 0.00 4.08
1042 1150 0.178967 TGAAGGCCAGGTGATGCAAA 60.179 50.000 5.01 0.00 0.00 3.68
1043 1151 0.968405 GAAGGCCAGGTGATGCAAAA 59.032 50.000 5.01 0.00 0.00 2.44
1044 1152 0.971386 AAGGCCAGGTGATGCAAAAG 59.029 50.000 5.01 0.00 0.00 2.27
1045 1153 1.079612 GGCCAGGTGATGCAAAAGC 60.080 57.895 0.00 0.00 0.00 3.51
1046 1154 1.079612 GCCAGGTGATGCAAAAGCC 60.080 57.895 0.00 0.00 0.00 4.35
1048 1156 1.593265 CAGGTGATGCAAAAGCCCC 59.407 57.895 0.00 0.00 0.00 5.80
1346 1454 8.950007 TGATGTAATAAGTTTTCCCTCCTTTT 57.050 30.769 0.00 0.00 0.00 2.27
1347 1455 9.374711 TGATGTAATAAGTTTTCCCTCCTTTTT 57.625 29.630 0.00 0.00 0.00 1.94
1372 1480 2.158561 ATTTGCTTCTGGGTTGCGGC 62.159 55.000 0.00 0.00 0.00 6.53
1433 1541 9.586435 AATTTTGTTTTTCTACTCCTTCAGTTG 57.414 29.630 0.00 0.00 36.43 3.16
1464 1572 6.972901 GGGCTTGTTTTGCTATTACTGAATAC 59.027 38.462 0.00 0.00 0.00 1.89
1467 1575 9.626045 GCTTGTTTTGCTATTACTGAATACTTT 57.374 29.630 0.00 0.00 0.00 2.66
1492 1600 7.592938 TGATTCATTGATATAAATGGAACCGC 58.407 34.615 12.16 0.00 37.98 5.68
1624 1752 4.436242 TCGGTCACTATCAGACTTTGTC 57.564 45.455 0.00 0.00 36.29 3.18
1773 1904 7.032580 CCCATCACATCGTTTGCTTTTTATTA 58.967 34.615 0.00 0.00 0.00 0.98
2756 7468 9.452065 GTCAAGATTCCTTCTTAAAGTGAAAAC 57.548 33.333 0.00 0.00 42.98 2.43
3002 7715 2.606795 GCTCTATCGAGGACTGCATGAC 60.607 54.545 0.00 0.00 37.75 3.06
3059 7773 4.356436 AGCCAGCCATAAAGAAGGAATTT 58.644 39.130 0.00 0.00 0.00 1.82
3097 7811 3.181464 GCATTCTTAGTCAGGTAGGTCCC 60.181 52.174 0.00 0.00 36.75 4.46
3279 7996 3.058983 TGCAAACGACTGAGTGCTAATTG 60.059 43.478 0.00 0.00 37.87 2.32
3610 8330 0.383590 TTTGTGTTGTGCCCATGTCG 59.616 50.000 0.00 0.00 0.00 4.35
3673 8394 7.323052 TGTATATACCACATCCATTTGGCTA 57.677 36.000 10.38 0.00 36.20 3.93
4529 12074 2.047560 GTAACTTCCTGGCGCGGT 60.048 61.111 8.83 0.00 0.00 5.68
4660 12211 8.870160 TTAGTTGGAAAGAATGACATTTTGTG 57.130 30.769 1.39 0.00 0.00 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
105 106 3.426292 GCAAAACCCTAGATTCTTCGTGC 60.426 47.826 0.00 0.00 0.00 5.34
106 107 3.181520 CGCAAAACCCTAGATTCTTCGTG 60.182 47.826 0.00 0.00 0.00 4.35
439 440 2.534019 CCACGCTCACCACACACAC 61.534 63.158 0.00 0.00 0.00 3.82
440 441 2.203001 CCACGCTCACCACACACA 60.203 61.111 0.00 0.00 0.00 3.72
441 442 3.649986 GCCACGCTCACCACACAC 61.650 66.667 0.00 0.00 0.00 3.82
555 625 2.288579 ACATAAACTTCGAGTGCACCGA 60.289 45.455 21.41 21.41 0.00 4.69
564 634 0.711670 GCGTCGCACATAAACTTCGA 59.288 50.000 13.44 0.00 0.00 3.71
741 814 5.067674 GGCAGTGTTAATGGCTCAATTCATA 59.932 40.000 0.00 0.00 39.94 2.15
775 848 0.188342 ACAGTGGCAATGTTCCCCTT 59.812 50.000 15.75 0.00 0.00 3.95
810 883 4.083003 ACTCAACTTAGAGCTTGAGAGACG 60.083 45.833 15.94 0.00 44.22 4.18
813 886 5.748152 GCATACTCAACTTAGAGCTTGAGAG 59.252 44.000 15.94 6.74 44.22 3.20
857 959 3.441222 CACACACACACCATGCATCTAAT 59.559 43.478 0.00 0.00 0.00 1.73
869 971 5.047847 ACTCAGTATAACACACACACACAC 58.952 41.667 0.00 0.00 0.00 3.82
921 1029 6.158598 GTGCATCCAACATAAAAACTCATGT 58.841 36.000 0.00 0.00 36.96 3.21
957 1065 7.118723 TGGTAGAGCATTTTATCATGGAGTTT 58.881 34.615 0.00 0.00 0.00 2.66
975 1083 6.127338 TGGAGATCACAGTTACATTGGTAGAG 60.127 42.308 0.00 0.00 0.00 2.43
991 1099 0.321919 TTGCAGCCTGTGGAGATCAC 60.322 55.000 0.00 0.00 46.23 3.06
994 1102 0.322277 CTGTTGCAGCCTGTGGAGAT 60.322 55.000 0.00 0.00 0.00 2.75
1010 1118 1.599047 CCTTCATCGAGGGTGCTGT 59.401 57.895 0.00 0.00 32.94 4.40
1017 1125 1.153289 CACCTGGCCTTCATCGAGG 60.153 63.158 3.32 2.27 39.93 4.63
1319 1427 9.547279 AAAGGAGGGAAAACTTATTACATCATT 57.453 29.630 0.00 0.00 30.13 2.57
1330 1438 9.656323 AAATAGTCTAAAAAGGAGGGAAAACTT 57.344 29.630 0.00 0.00 0.00 2.66
1337 1445 6.887002 AGAAGCAAATAGTCTAAAAAGGAGGG 59.113 38.462 0.00 0.00 0.00 4.30
1340 1448 6.659242 CCCAGAAGCAAATAGTCTAAAAAGGA 59.341 38.462 0.00 0.00 0.00 3.36
1346 1454 4.700213 GCAACCCAGAAGCAAATAGTCTAA 59.300 41.667 0.00 0.00 0.00 2.10
1347 1455 4.261801 GCAACCCAGAAGCAAATAGTCTA 58.738 43.478 0.00 0.00 0.00 2.59
1352 1460 1.173043 CCGCAACCCAGAAGCAAATA 58.827 50.000 0.00 0.00 0.00 1.40
1353 1461 1.966762 CCGCAACCCAGAAGCAAAT 59.033 52.632 0.00 0.00 0.00 2.32
1354 1462 2.855514 GCCGCAACCCAGAAGCAAA 61.856 57.895 0.00 0.00 0.00 3.68
1372 1480 1.064654 GAATGCCTAAAAGCGCTCTGG 59.935 52.381 12.06 11.92 34.65 3.86
1411 1519 8.795842 TTACAACTGAAGGAGTAGAAAAACAA 57.204 30.769 0.00 0.00 33.09 2.83
1421 1529 1.985895 CCCCCTTACAACTGAAGGAGT 59.014 52.381 2.94 0.00 45.52 3.85
1423 1531 0.696501 GCCCCCTTACAACTGAAGGA 59.303 55.000 2.94 0.00 45.52 3.36
1431 1539 1.414550 GCAAAACAAGCCCCCTTACAA 59.585 47.619 0.00 0.00 0.00 2.41
1433 1541 1.338107 AGCAAAACAAGCCCCCTTAC 58.662 50.000 0.00 0.00 0.00 2.34
1440 1548 7.762382 AGTATTCAGTAATAGCAAAACAAGCC 58.238 34.615 0.00 0.00 0.00 4.35
1467 1575 7.572910 CGCGGTTCCATTTATATCAATGAATCA 60.573 37.037 10.59 0.00 36.39 2.57
1469 1577 6.349280 CCGCGGTTCCATTTATATCAATGAAT 60.349 38.462 19.50 0.00 36.39 2.57
1476 1584 3.395639 TGTCCGCGGTTCCATTTATATC 58.604 45.455 27.15 0.00 0.00 1.63
1534 1642 9.673454 GTCAAACTACCGACAAAATTAGAAAAT 57.327 29.630 0.00 0.00 32.24 1.82
1581 1689 8.146412 ACCGAAGTATTTATCCATTAGTGGTAC 58.854 37.037 3.93 0.00 46.16 3.34
1601 1729 4.810790 ACAAAGTCTGATAGTGACCGAAG 58.189 43.478 0.00 0.00 35.21 3.79
1604 1732 3.172050 CGACAAAGTCTGATAGTGACCG 58.828 50.000 0.00 0.00 35.21 4.79
1606 1734 3.192844 TCCCGACAAAGTCTGATAGTGAC 59.807 47.826 0.00 0.00 34.88 3.67
1657 1785 5.334802 CGTAGCTGAATGGTTTCAATTGTGA 60.335 40.000 5.13 0.00 41.22 3.58
1773 1904 9.237187 GATTTTCTCCTCCTGTCTTTTTCTTAT 57.763 33.333 0.00 0.00 0.00 1.73
2756 7468 2.476854 GCAGCAGCAGAATAAACGGAAG 60.477 50.000 0.00 0.00 41.58 3.46
2759 7471 3.611433 GCAGCAGCAGAATAAACGG 57.389 52.632 0.00 0.00 41.58 4.44
3002 7715 4.646040 TCCAAGAATGCATATTGACCAAGG 59.354 41.667 20.59 7.67 0.00 3.61
3059 7773 5.939764 AGAATGCCACAAGATACAGTAGA 57.060 39.130 0.00 0.00 0.00 2.59
3070 7784 3.788227 ACCTGACTAAGAATGCCACAA 57.212 42.857 0.00 0.00 0.00 3.33
3097 7811 9.143631 GAAACATAAAACAAAGGATGGAAGATG 57.856 33.333 0.00 0.00 0.00 2.90
3279 7996 4.152402 TCAGCTTAATCTTTGAACTCGTGC 59.848 41.667 0.00 0.00 0.00 5.34
3610 8330 6.872020 AGCAAAAGGAAATCATATATGCATGC 59.128 34.615 11.82 11.82 33.89 4.06
3673 8394 2.310538 AGTAAGCAAGGCAAGCAACTT 58.689 42.857 4.05 0.00 29.65 2.66
3813 8540 7.771183 TGGCAATAACAAATTCTGGATAAGAC 58.229 34.615 0.00 0.00 33.46 3.01
4492 12037 1.345415 CCCAGATGTTTGCTTGGCTTT 59.655 47.619 0.00 0.00 0.00 3.51
4535 12080 1.966845 ATGTACTAGTGGGCAAGGGT 58.033 50.000 5.39 0.00 0.00 4.34
4597 12142 7.894753 TGAAGAAAATGCACCATATATCCAA 57.105 32.000 0.00 0.00 0.00 3.53
4660 12211 5.105716 GGGATTTAAGGCAGTTTCTTCCTTC 60.106 44.000 4.19 0.00 40.42 3.46


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

AutoCloner maintained by Alex Coulton.