Multiple sequence alignment - TraesCS6A01G373600

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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 TraesCS6A01G373600 chr6A 100.000 2697 0 0 1 2697 596778610 596775914 0.000000e+00 4981.0
1 TraesCS6A01G373600 chr6A 100.000 409 0 0 2997 3405 596775614 596775206 0.000000e+00 756.0
2 TraesCS6A01G373600 chr6B 95.735 1266 43 4 1255 2518 685208559 685207303 0.000000e+00 2028.0
3 TraesCS6A01G373600 chr6B 98.744 398 5 0 3008 3405 685206636 685206239 0.000000e+00 708.0
4 TraesCS6A01G373600 chr6B 99.448 181 1 0 2515 2695 685206832 685206652 2.530000e-86 329.0
5 TraesCS6A01G373600 chr6B 97.391 115 2 1 1242 1355 550049618 550049732 9.640000e-46 195.0
6 TraesCS6A01G373600 chr7B 90.023 1323 76 17 1231 2518 747614215 747615516 0.000000e+00 1661.0
7 TraesCS6A01G373600 chr7B 94.987 399 18 1 3007 3405 747615878 747616274 2.880000e-175 625.0
8 TraesCS6A01G373600 chr7B 85.930 398 52 3 3008 3405 645908874 645909267 4.060000e-114 422.0
9 TraesCS6A01G373600 chr7B 81.667 180 21 8 2516 2688 747616584 747616758 4.580000e-29 139.0
10 TraesCS6A01G373600 chr3B 96.614 827 24 1 1 827 728284000 728283178 0.000000e+00 1369.0
11 TraesCS6A01G373600 chr3B 97.992 249 5 0 942 1190 172177742 172177494 1.880000e-117 433.0
12 TraesCS6A01G373600 chr3B 98.137 161 3 0 1030 1190 728283177 728283017 7.190000e-72 281.0
13 TraesCS6A01G373600 chr3B 96.694 121 4 0 824 944 172177979 172177859 5.760000e-48 202.0
14 TraesCS6A01G373600 chr3B 73.602 447 94 14 1428 1868 752137305 752136877 2.120000e-32 150.0
15 TraesCS6A01G373600 chr3B 80.606 165 28 4 1424 1585 752072866 752072703 1.280000e-24 124.0
16 TraesCS6A01G373600 chr6D 95.899 829 28 2 1 827 119199117 119199941 0.000000e+00 1338.0
17 TraesCS6A01G373600 chr6D 92.866 827 25 15 1 827 386197221 386198013 0.000000e+00 1170.0
18 TraesCS6A01G373600 chr6D 98.795 249 2 1 942 1190 386200245 386200492 3.120000e-120 442.0
19 TraesCS6A01G373600 chr6D 97.101 138 4 0 942 1079 119202172 119202309 2.040000e-57 233.0
20 TraesCS6A01G373600 chr6D 98.347 121 2 0 824 944 119201935 119202055 2.660000e-51 213.0
21 TraesCS6A01G373600 chr6D 97.521 121 3 0 824 944 386200008 386200128 1.240000e-49 207.0
22 TraesCS6A01G373600 chr6D 99.115 113 1 0 1078 1190 119202275 119202387 1.600000e-48 204.0
23 TraesCS6A01G373600 chr6D 94.737 114 6 0 1242 1355 365011260 365011373 9.710000e-41 178.0
24 TraesCS6A01G373600 chr4B 95.416 829 32 2 1 827 497377647 497376823 0.000000e+00 1315.0
25 TraesCS6A01G373600 chr4B 98.394 249 4 0 942 1190 497374592 497374344 4.030000e-119 438.0
26 TraesCS6A01G373600 chr4B 99.174 121 1 0 824 944 497374829 497374709 5.720000e-53 219.0
27 TraesCS6A01G373600 chr4D 95.054 829 32 5 1 827 481022531 481023352 0.000000e+00 1295.0
28 TraesCS6A01G373600 chr4D 94.451 829 38 4 1 827 476027456 476026634 0.000000e+00 1269.0
29 TraesCS6A01G373600 chr4D 96.774 217 4 1 942 1158 476024400 476024187 3.230000e-95 359.0
30 TraesCS6A01G373600 chr4D 97.101 138 4 0 942 1079 481025583 481025720 2.040000e-57 233.0
31 TraesCS6A01G373600 chr4D 99.174 121 1 0 824 944 481025346 481025466 5.720000e-53 219.0
32 TraesCS6A01G373600 chr4D 99.115 113 1 0 1078 1190 481025686 481025798 1.600000e-48 204.0
33 TraesCS6A01G373600 chr4D 96.694 121 4 0 824 944 476024637 476024517 5.760000e-48 202.0
34 TraesCS6A01G373600 chr2B 92.995 828 49 4 1 825 288127653 288126832 0.000000e+00 1199.0
35 TraesCS6A01G373600 chr2B 95.703 256 10 1 935 1190 288124604 288124350 8.790000e-111 411.0
36 TraesCS6A01G373600 chr2B 95.833 120 5 0 824 943 288124835 288124716 9.640000e-46 195.0
37 TraesCS6A01G373600 chr3A 95.677 694 23 3 136 827 748212869 748212181 0.000000e+00 1109.0
38 TraesCS6A01G373600 chr3A 94.957 694 28 3 136 827 748463358 748462670 0.000000e+00 1081.0
39 TraesCS6A01G373600 chr3A 79.220 1102 174 31 1399 2469 701643441 701644518 0.000000e+00 715.0
40 TraesCS6A01G373600 chr3A 77.983 1081 188 28 1418 2469 66914189 66913130 1.720000e-177 632.0
41 TraesCS6A01G373600 chr3A 75.928 1159 203 48 1418 2518 701351732 701352872 3.010000e-145 525.0
42 TraesCS6A01G373600 chr3A 85.258 407 56 2 2999 3405 701644947 701645349 1.890000e-112 416.0
43 TraesCS6A01G373600 chr3A 94.779 249 13 0 942 1190 434820381 434820629 4.120000e-104 388.0
44 TraesCS6A01G373600 chr3A 97.521 121 3 0 824 944 434820144 434820264 1.240000e-49 207.0
45 TraesCS6A01G373600 chr3A 94.505 91 5 0 1 91 748161563 748161473 1.270000e-29 141.0
46 TraesCS6A01G373600 chr3A 92.308 91 7 0 1 91 748593169 748593079 2.760000e-26 130.0
47 TraesCS6A01G373600 chr3A 78.035 173 36 2 1697 1868 698930296 698930125 1.290000e-19 108.0
48 TraesCS6A01G373600 chr3D 80.336 1073 174 24 1418 2469 569119514 569118458 0.000000e+00 778.0
49 TraesCS6A01G373600 chr3D 79.217 1073 162 36 1418 2448 566954637 566955690 0.000000e+00 689.0
50 TraesCS6A01G373600 chr3D 78.538 1081 182 28 1418 2469 58089764 58088705 0.000000e+00 665.0
51 TraesCS6A01G373600 chr3D 78.109 1142 177 39 1419 2507 568234958 568236079 0.000000e+00 656.0
52 TraesCS6A01G373600 chr3D 78.366 1077 185 27 1419 2470 567517017 567518070 0.000000e+00 654.0
53 TraesCS6A01G373600 chr3D 77.384 1101 179 41 1418 2469 567664758 567663679 1.050000e-164 590.0
54 TraesCS6A01G373600 chr3D 84.886 483 56 7 2049 2518 567486231 567486709 3.980000e-129 472.0
55 TraesCS6A01G373600 chr3D 84.069 408 57 5 2999 3405 569118030 569117630 1.480000e-103 387.0
56 TraesCS6A01G373600 chr3D 73.449 1096 223 39 1418 2469 567902756 567903827 1.940000e-92 350.0
57 TraesCS6A01G373600 chr3D 75.783 479 84 22 1418 1870 568100631 568101103 2.660000e-51 213.0
58 TraesCS6A01G373600 chr3D 95.000 120 6 0 826 945 611010000 611009881 4.490000e-44 189.0
59 TraesCS6A01G373600 chr3D 89.130 138 13 1 3252 3389 568020288 568020423 1.620000e-38 171.0
60 TraesCS6A01G373600 chr3D 79.474 190 23 11 2515 2690 568021160 568021347 1.660000e-23 121.0
61 TraesCS6A01G373600 chr3D 85.088 114 17 0 1755 1868 564341221 564341108 2.150000e-22 117.0
62 TraesCS6A01G373600 chr3D 82.353 136 18 5 1430 1562 569400495 569400363 2.780000e-21 113.0
63 TraesCS6A01G373600 chrUn 79.590 1073 176 26 1418 2469 287633337 287634387 0.000000e+00 728.0
64 TraesCS6A01G373600 chrUn 79.590 1073 176 26 1418 2469 292972677 292971627 0.000000e+00 728.0
65 TraesCS6A01G373600 chrUn 79.185 932 151 26 1559 2469 338767959 338767050 1.040000e-169 606.0
66 TraesCS6A01G373600 chr7D 86.631 187 23 1 3219 3405 64241315 64241499 4.450000e-49 206.0
67 TraesCS6A01G373600 chr7D 95.000 40 2 0 1316 1355 220961441 220961480 2.840000e-06 63.9
68 TraesCS6A01G373600 chr1A 89.437 142 10 5 944 1082 59215421 59215282 1.260000e-39 174.0
69 TraesCS6A01G373600 chr7A 90.698 43 4 0 1313 1355 235451632 235451674 1.320000e-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 TraesCS6A01G373600 chr6A 596775206 596778610 3404 True 2868.500000 4981 100.000000 1 3405 2 chr6A.!!$R1 3404
1 TraesCS6A01G373600 chr6B 685206239 685208559 2320 True 1021.666667 2028 97.975667 1255 3405 3 chr6B.!!$R1 2150
2 TraesCS6A01G373600 chr7B 747614215 747616758 2543 False 808.333333 1661 88.892333 1231 3405 3 chr7B.!!$F2 2174
3 TraesCS6A01G373600 chr3B 728283017 728284000 983 True 825.000000 1369 97.375500 1 1190 2 chr3B.!!$R4 1189
4 TraesCS6A01G373600 chr6D 386197221 386200492 3271 False 606.333333 1170 96.394000 1 1190 3 chr6D.!!$F3 1189
5 TraesCS6A01G373600 chr6D 119199117 119202387 3270 False 497.000000 1338 97.615500 1 1190 4 chr6D.!!$F2 1189
6 TraesCS6A01G373600 chr4B 497374344 497377647 3303 True 657.333333 1315 97.661333 1 1190 3 chr4B.!!$R1 1189
7 TraesCS6A01G373600 chr4D 476024187 476027456 3269 True 610.000000 1269 95.973000 1 1158 3 chr4D.!!$R1 1157
8 TraesCS6A01G373600 chr4D 481022531 481025798 3267 False 487.750000 1295 97.611000 1 1190 4 chr4D.!!$F1 1189
9 TraesCS6A01G373600 chr2B 288124350 288127653 3303 True 601.666667 1199 94.843667 1 1190 3 chr2B.!!$R1 1189
10 TraesCS6A01G373600 chr3A 748212181 748212869 688 True 1109.000000 1109 95.677000 136 827 1 chr3A.!!$R4 691
11 TraesCS6A01G373600 chr3A 748462670 748463358 688 True 1081.000000 1081 94.957000 136 827 1 chr3A.!!$R5 691
12 TraesCS6A01G373600 chr3A 66913130 66914189 1059 True 632.000000 632 77.983000 1418 2469 1 chr3A.!!$R1 1051
13 TraesCS6A01G373600 chr3A 701643441 701645349 1908 False 565.500000 715 82.239000 1399 3405 2 chr3A.!!$F3 2006
14 TraesCS6A01G373600 chr3A 701351732 701352872 1140 False 525.000000 525 75.928000 1418 2518 1 chr3A.!!$F1 1100
15 TraesCS6A01G373600 chr3D 566954637 566955690 1053 False 689.000000 689 79.217000 1418 2448 1 chr3D.!!$F1 1030
16 TraesCS6A01G373600 chr3D 58088705 58089764 1059 True 665.000000 665 78.538000 1418 2469 1 chr3D.!!$R1 1051
17 TraesCS6A01G373600 chr3D 568234958 568236079 1121 False 656.000000 656 78.109000 1419 2507 1 chr3D.!!$F6 1088
18 TraesCS6A01G373600 chr3D 567517017 567518070 1053 False 654.000000 654 78.366000 1419 2470 1 chr3D.!!$F3 1051
19 TraesCS6A01G373600 chr3D 567663679 567664758 1079 True 590.000000 590 77.384000 1418 2469 1 chr3D.!!$R3 1051
20 TraesCS6A01G373600 chr3D 569117630 569119514 1884 True 582.500000 778 82.202500 1418 3405 2 chr3D.!!$R6 1987
21 TraesCS6A01G373600 chr3D 567902756 567903827 1071 False 350.000000 350 73.449000 1418 2469 1 chr3D.!!$F4 1051
22 TraesCS6A01G373600 chrUn 287633337 287634387 1050 False 728.000000 728 79.590000 1418 2469 1 chrUn.!!$F1 1051
23 TraesCS6A01G373600 chrUn 292971627 292972677 1050 True 728.000000 728 79.590000 1418 2469 1 chrUn.!!$R1 1051
24 TraesCS6A01G373600 chrUn 338767050 338767959 909 True 606.000000 606 79.185000 1559 2469 1 chrUn.!!$R2 910

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
880 2881 0.560688 AGGGCCTTTGGAGTTTGGAA 59.439 50.000 0.0 0.0 0.00 3.53 F
1496 5969 1.005215 CCAAATCCCTCCTTCACTGCT 59.995 52.381 0.0 0.0 0.00 4.24 F
2253 6857 0.622665 ATTGCAGAGCTAAGGGTGCT 59.377 50.000 0.0 0.0 44.24 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2219 6823 0.801836 GCAATCGGCAATTGAACCCG 60.802 55.000 10.34 12.94 46.54 5.28 R
2311 6918 1.067060 TCAATATCGACCAGCACGAGG 59.933 52.381 0.00 0.00 42.81 4.63 R
3184 8287 7.069986 AGCTAGTCAACAAGGAGGATAATCTA 58.930 38.462 0.00 0.00 0.00 1.98 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
66 67 4.351938 CCAACTCGTCCGGCGACA 62.352 66.667 9.30 0.00 45.68 4.35
278 279 1.858739 TATGCACAACCCCTCCCCAC 61.859 60.000 0.00 0.00 0.00 4.61
281 282 2.037677 ACAACCCCTCCCCACCTT 60.038 61.111 0.00 0.00 0.00 3.50
411 412 3.960102 TCATATTTTTGGATGTCCCCTGC 59.040 43.478 0.00 0.00 34.29 4.85
445 446 8.445588 TCTATATGACATAGTTGAGGTAGTCCA 58.554 37.037 0.98 0.00 35.89 4.02
710 713 9.911788 AACATTGAGAATACAAGGATTATCACT 57.088 29.630 1.99 0.00 36.91 3.41
760 763 5.192927 TGGAAATAGGCCAAATACTCACTG 58.807 41.667 5.01 0.00 31.13 3.66
806 809 4.402474 GTGGGGAGGGAATTCAAACTAATG 59.598 45.833 7.93 0.00 0.00 1.90
836 2837 4.040047 TGGAGTACATCAACAGGATCCAT 58.960 43.478 15.82 0.00 32.57 3.41
880 2881 0.560688 AGGGCCTTTGGAGTTTGGAA 59.439 50.000 0.00 0.00 0.00 3.53
924 2925 4.397103 TGAAGATGCCAAGCTACTCAATTG 59.603 41.667 0.00 0.00 0.00 2.32
986 3106 1.747355 GGATACGTCAACTTCGGAGGA 59.253 52.381 0.00 0.00 0.00 3.71
1190 5634 8.243426 GCACTGTGTTGATCCTTAAAATATGAA 58.757 33.333 9.86 0.00 0.00 2.57
1200 5644 8.970691 ATCCTTAAAATATGAAATATGCGTGC 57.029 30.769 0.00 0.00 38.94 5.34
1201 5645 7.935520 TCCTTAAAATATGAAATATGCGTGCA 58.064 30.769 0.00 0.00 38.94 4.57
1202 5646 7.860373 TCCTTAAAATATGAAATATGCGTGCAC 59.140 33.333 6.82 6.82 38.94 4.57
1203 5647 7.862372 CCTTAAAATATGAAATATGCGTGCACT 59.138 33.333 16.19 0.00 38.94 4.40
1204 5648 8.559222 TTAAAATATGAAATATGCGTGCACTG 57.441 30.769 16.19 9.73 38.94 3.66
1205 5649 5.756195 AATATGAAATATGCGTGCACTGT 57.244 34.783 16.19 2.98 38.94 3.55
1206 5650 2.898181 TGAAATATGCGTGCACTGTG 57.102 45.000 16.19 2.76 0.00 3.66
1207 5651 2.421619 TGAAATATGCGTGCACTGTGA 58.578 42.857 16.19 0.00 0.00 3.58
1208 5652 2.810852 TGAAATATGCGTGCACTGTGAA 59.189 40.909 16.19 0.00 0.00 3.18
1209 5653 3.439825 TGAAATATGCGTGCACTGTGAAT 59.560 39.130 16.19 1.90 0.00 2.57
1210 5654 3.409851 AATATGCGTGCACTGTGAATG 57.590 42.857 16.19 7.93 0.00 2.67
1211 5655 2.091852 TATGCGTGCACTGTGAATGA 57.908 45.000 16.19 0.00 0.00 2.57
1212 5656 1.237533 ATGCGTGCACTGTGAATGAA 58.762 45.000 16.19 0.48 0.00 2.57
1213 5657 1.020437 TGCGTGCACTGTGAATGAAA 58.980 45.000 16.19 0.00 0.00 2.69
1214 5658 1.608109 TGCGTGCACTGTGAATGAAAT 59.392 42.857 16.19 0.00 0.00 2.17
1215 5659 2.810852 TGCGTGCACTGTGAATGAAATA 59.189 40.909 16.19 0.00 0.00 1.40
1216 5660 3.439825 TGCGTGCACTGTGAATGAAATAT 59.560 39.130 16.19 0.00 0.00 1.28
1217 5661 4.082841 TGCGTGCACTGTGAATGAAATATT 60.083 37.500 16.19 0.00 0.00 1.28
1218 5662 5.123027 TGCGTGCACTGTGAATGAAATATTA 59.877 36.000 16.19 0.00 0.00 0.98
1219 5663 6.183360 TGCGTGCACTGTGAATGAAATATTAT 60.183 34.615 16.19 0.00 0.00 1.28
1220 5664 6.141211 GCGTGCACTGTGAATGAAATATTATG 59.859 38.462 16.19 0.00 0.00 1.90
1221 5665 6.141211 CGTGCACTGTGAATGAAATATTATGC 59.859 38.462 16.19 0.00 0.00 3.14
1222 5666 7.198390 GTGCACTGTGAATGAAATATTATGCT 58.802 34.615 12.86 0.00 0.00 3.79
1223 5667 7.703621 GTGCACTGTGAATGAAATATTATGCTT 59.296 33.333 12.86 0.00 0.00 3.91
1224 5668 8.252417 TGCACTGTGAATGAAATATTATGCTTT 58.748 29.630 12.86 0.00 0.00 3.51
1225 5669 9.090692 GCACTGTGAATGAAATATTATGCTTTT 57.909 29.630 12.86 0.00 0.00 2.27
1491 5964 2.408920 CCCCCAAATCCCTCCTTCA 58.591 57.895 0.00 0.00 0.00 3.02
1496 5969 1.005215 CCAAATCCCTCCTTCACTGCT 59.995 52.381 0.00 0.00 0.00 4.24
1667 6170 2.386660 GCAGACGACAAGCTCCAGC 61.387 63.158 0.00 0.00 42.49 4.85
2153 6756 6.939730 TGGCATGTACAGTCTTAATGAAGAAA 59.060 34.615 0.33 0.00 43.38 2.52
2253 6857 0.622665 ATTGCAGAGCTAAGGGTGCT 59.377 50.000 0.00 0.00 44.24 4.40
2258 6862 3.454447 TGCAGAGCTAAGGGTGCTATTAA 59.546 43.478 0.00 0.00 41.30 1.40
2280 6884 1.915952 AACTTTCGCGGTTTTTGGTG 58.084 45.000 6.13 0.00 0.00 4.17
2311 6918 3.489355 TGCATATTGGGATGGTGATGTC 58.511 45.455 0.00 0.00 0.00 3.06
2412 7023 4.869297 CAGATTTCTCTGCTAGTGGACTTG 59.131 45.833 0.00 0.00 42.36 3.16
2695 7798 5.186996 TCCTCTCAATTTGTTCACTTTGC 57.813 39.130 0.00 0.00 0.00 3.68
3062 8165 6.176896 TCATTGAACCGAATAATTGACCTGA 58.823 36.000 0.00 0.00 0.00 3.86
3092 8195 7.510549 TTGTTGAGGTCTTCATTTTTAGAGG 57.489 36.000 0.00 0.00 35.27 3.69
3184 8287 7.731054 TGTTTTAGCAAATGGTGAAATAAGGT 58.269 30.769 5.95 0.00 34.42 3.50
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
102 103 0.393808 GCTCGAGGAGGAGACTGTCT 60.394 60.000 15.58 10.66 44.43 3.41
278 279 6.032094 GCATGTAACATGAACTGAATGAAGG 58.968 40.000 0.00 0.00 0.00 3.46
281 282 5.706833 ACTGCATGTAACATGAACTGAATGA 59.293 36.000 0.00 0.00 0.00 2.57
411 412 9.133627 CTCAACTATGTCATATAGAAATCGGTG 57.866 37.037 0.00 0.00 28.04 4.94
710 713 2.477694 CGCTTGCTTGACAAACAACTCA 60.478 45.455 0.00 0.00 37.96 3.41
760 763 4.008330 CTCATCATATGCATTGGAGGTCC 58.992 47.826 3.54 0.00 0.00 4.46
806 809 1.195115 TGATGTACTCCAGCCCTGTC 58.805 55.000 0.00 0.00 0.00 3.51
880 2881 8.152246 TCTTCAAAAGAATTTGCCATTTCATCT 58.848 29.630 0.00 0.00 44.52 2.90
924 2925 7.040409 ACAACAAACTATCATCTTCTGGGTTTC 60.040 37.037 0.00 0.00 0.00 2.78
986 3106 4.221262 CCAGATCCATGTCAACACCATTTT 59.779 41.667 0.00 0.00 0.00 1.82
1026 3146 3.005554 CCAACCTAGAGCAATGTCAGTG 58.994 50.000 0.00 0.00 0.00 3.66
1073 5517 8.990163 TTCCTAAAGTAATCTTCACCAAAGTT 57.010 30.769 0.00 0.00 36.31 2.66
1190 5634 3.009026 TCATTCACAGTGCACGCATATT 58.991 40.909 12.01 0.00 0.00 1.28
1191 5635 2.631267 TCATTCACAGTGCACGCATAT 58.369 42.857 12.01 0.00 0.00 1.78
1192 5636 2.091852 TCATTCACAGTGCACGCATA 57.908 45.000 12.01 0.00 0.00 3.14
1193 5637 1.237533 TTCATTCACAGTGCACGCAT 58.762 45.000 12.01 0.00 0.00 4.73
1194 5638 1.020437 TTTCATTCACAGTGCACGCA 58.980 45.000 12.01 0.00 0.00 5.24
1195 5639 2.336554 ATTTCATTCACAGTGCACGC 57.663 45.000 12.01 0.00 0.00 5.34
1196 5640 6.141211 GCATAATATTTCATTCACAGTGCACG 59.859 38.462 12.01 9.15 0.00 5.34
1197 5641 7.198390 AGCATAATATTTCATTCACAGTGCAC 58.802 34.615 9.40 9.40 0.00 4.57
1198 5642 7.337480 AGCATAATATTTCATTCACAGTGCA 57.663 32.000 0.00 0.00 0.00 4.57
1199 5643 8.638685 AAAGCATAATATTTCATTCACAGTGC 57.361 30.769 0.00 0.00 0.00 4.40
1225 5669 8.352201 GCATCATACAATACAAGAGGCATTAAA 58.648 33.333 0.00 0.00 36.19 1.52
1226 5670 7.720957 AGCATCATACAATACAAGAGGCATTAA 59.279 33.333 0.00 0.00 38.35 1.40
1227 5671 7.226441 AGCATCATACAATACAAGAGGCATTA 58.774 34.615 0.00 0.00 38.35 1.90
1228 5672 6.066690 AGCATCATACAATACAAGAGGCATT 58.933 36.000 0.00 0.00 38.35 3.56
1229 5673 5.628130 AGCATCATACAATACAAGAGGCAT 58.372 37.500 0.00 0.00 38.35 4.40
1230 5674 5.039920 AGCATCATACAATACAAGAGGCA 57.960 39.130 0.00 0.00 38.35 4.75
1231 5675 6.146837 CAGTAGCATCATACAATACAAGAGGC 59.853 42.308 0.00 0.00 36.38 4.70
1232 5676 7.436933 TCAGTAGCATCATACAATACAAGAGG 58.563 38.462 0.00 0.00 0.00 3.69
1233 5677 9.486497 AATCAGTAGCATCATACAATACAAGAG 57.514 33.333 0.00 0.00 0.00 2.85
1234 5678 9.264719 CAATCAGTAGCATCATACAATACAAGA 57.735 33.333 0.00 0.00 0.00 3.02
1235 5679 8.013947 GCAATCAGTAGCATCATACAATACAAG 58.986 37.037 0.00 0.00 0.00 3.16
1236 5680 7.716560 AGCAATCAGTAGCATCATACAATACAA 59.283 33.333 0.00 0.00 0.00 2.41
1237 5681 7.172019 CAGCAATCAGTAGCATCATACAATACA 59.828 37.037 0.00 0.00 0.00 2.29
1238 5682 7.516481 CAGCAATCAGTAGCATCATACAATAC 58.484 38.462 0.00 0.00 0.00 1.89
1239 5683 6.148315 GCAGCAATCAGTAGCATCATACAATA 59.852 38.462 0.00 0.00 0.00 1.90
1240 5684 5.048921 GCAGCAATCAGTAGCATCATACAAT 60.049 40.000 0.00 0.00 0.00 2.71
1411 5884 1.817099 GCCATGGAGGAGACTTGCG 60.817 63.158 18.40 0.00 44.43 4.85
1667 6170 2.113139 ACTGAGTTGGGCAACGGG 59.887 61.111 0.00 0.00 45.50 5.28
2096 6695 2.354259 CATCTCAAACAGGTCAGCCTC 58.646 52.381 0.00 0.00 44.97 4.70
2153 6756 4.706476 CACCCAGACATGAACAATGGTATT 59.294 41.667 0.00 0.00 40.94 1.89
2219 6823 0.801836 GCAATCGGCAATTGAACCCG 60.802 55.000 10.34 12.94 46.54 5.28
2220 6824 3.049227 GCAATCGGCAATTGAACCC 57.951 52.632 10.34 0.00 46.54 4.11
2280 6884 3.023119 TCCCAATATGCAACATCCACAC 58.977 45.455 0.00 0.00 0.00 3.82
2311 6918 1.067060 TCAATATCGACCAGCACGAGG 59.933 52.381 0.00 0.00 42.81 4.63
2412 7023 5.003804 TGAAACTAGAGATTGTTTGAGCCC 58.996 41.667 0.00 0.00 36.64 5.19
2996 8099 9.477484 CATCTAGATTGCTAACGGTTAAGTATT 57.523 33.333 1.33 0.00 0.00 1.89
2997 8100 7.599245 GCATCTAGATTGCTAACGGTTAAGTAT 59.401 37.037 1.33 0.00 0.00 2.12
3005 8108 3.006323 AGAGGCATCTAGATTGCTAACGG 59.994 47.826 19.71 3.47 32.54 4.44
3141 8244 9.261318 GCTAAAACAAAACAAAGAAACATGAAC 57.739 29.630 0.00 0.00 0.00 3.18
3184 8287 7.069986 AGCTAGTCAACAAGGAGGATAATCTA 58.930 38.462 0.00 0.00 0.00 1.98


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

AutoCloner maintained by Alex Coulton.