Multiple sequence alignment - TraesCS6D01G054900

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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 TraesCS6D01G054900 chr6D 100.000 3240 0 0 1 3240 25913972 25917211 0.000000e+00 5984.0
1 TraesCS6D01G054900 chr6D 80.693 1155 147 54 455 1567 25805641 25804521 0.000000e+00 828.0
2 TraesCS6D01G054900 chr6D 89.279 569 61 0 1675 2243 25879510 25878942 0.000000e+00 713.0
3 TraesCS6D01G054900 chr6D 84.078 716 86 19 1677 2380 25804450 25803751 0.000000e+00 665.0
4 TraesCS6D01G054900 chr6D 82.546 699 86 22 873 1567 25852766 25852100 1.680000e-162 582.0
5 TraesCS6D01G054900 chr6D 83.721 559 69 14 732 1276 25827882 25827332 2.880000e-140 508.0
6 TraesCS6D01G054900 chr6D 91.026 234 17 4 1365 1597 25879793 25879563 2.430000e-81 313.0
7 TraesCS6D01G054900 chr6D 92.157 51 0 3 2319 2366 25826130 25826081 5.800000e-08 69.4
8 TraesCS6D01G054900 chr6A 92.801 1153 45 12 454 1591 24048091 24049220 0.000000e+00 1635.0
9 TraesCS6D01G054900 chr6A 90.807 1251 72 12 1614 2823 24049212 24050460 0.000000e+00 1633.0
10 TraesCS6D01G054900 chr6A 88.516 566 65 0 1675 2240 24030824 24030259 0.000000e+00 686.0
11 TraesCS6D01G054900 chr6A 82.353 833 95 28 767 1597 24031659 24030877 0.000000e+00 676.0
12 TraesCS6D01G054900 chr6A 86.911 573 74 1 1677 2248 23896092 23895520 2.730000e-180 641.0
13 TraesCS6D01G054900 chr6A 86.441 590 74 4 1677 2262 23951761 23951174 2.730000e-180 641.0
14 TraesCS6D01G054900 chr6A 81.250 800 106 32 455 1225 23897344 23896560 9.940000e-170 606.0
15 TraesCS6D01G054900 chr6A 81.314 685 86 24 886 1567 23963284 23962639 4.790000e-143 518.0
16 TraesCS6D01G054900 chr6A 87.059 340 26 11 2802 3139 24050467 24050790 5.110000e-98 368.0
17 TraesCS6D01G054900 chr6A 93.443 244 15 1 211 454 24047493 24047735 8.550000e-96 361.0
18 TraesCS6D01G054900 chr6A 87.500 264 25 5 1305 1565 23896433 23896175 6.800000e-77 298.0
19 TraesCS6D01G054900 chr6A 95.322 171 8 0 11 181 24046001 24046171 4.120000e-69 272.0
20 TraesCS6D01G054900 chr6A 94.872 39 1 1 2328 2366 23951066 23951029 3.490000e-05 60.2
21 TraesCS6D01G054900 chr6B 88.077 931 61 17 2337 3240 42394503 42395410 0.000000e+00 1059.0
22 TraesCS6D01G054900 chr6B 87.046 826 95 10 454 1271 42392492 42393313 0.000000e+00 922.0
23 TraesCS6D01G054900 chr6B 89.265 680 59 7 1677 2346 42393649 42394324 0.000000e+00 839.0
24 TraesCS6D01G054900 chr6B 80.836 1148 139 49 455 1567 42006292 42005191 0.000000e+00 826.0
25 TraesCS6D01G054900 chr6B 88.430 605 64 1 1645 2243 42318189 42317585 0.000000e+00 725.0
26 TraesCS6D01G054900 chr6B 82.005 828 101 29 755 1567 42231897 42231103 0.000000e+00 660.0
27 TraesCS6D01G054900 chr6B 86.736 573 75 1 1677 2248 42005120 42004548 1.270000e-178 636.0
28 TraesCS6D01G054900 chr6B 87.594 266 25 6 1333 1597 42318467 42318209 5.250000e-78 302.0
29 TraesCS6D01G054900 chr6B 88.703 239 23 3 1333 1567 42393342 42393580 4.090000e-74 289.0
30 TraesCS6D01G054900 chr6B 82.111 341 44 9 889 1228 42318967 42318643 3.180000e-70 276.0
31 TraesCS6D01G054900 chr6B 86.939 245 27 4 211 454 42391894 42392134 1.480000e-68 270.0
32 TraesCS6D01G054900 chr7D 80.344 1048 160 34 1330 2361 579100060 579099043 0.000000e+00 752.0
33 TraesCS6D01G054900 chr7B 80.642 1028 150 35 1363 2361 643292475 643291468 0.000000e+00 750.0
34 TraesCS6D01G054900 chr7B 81.818 880 133 20 1366 2242 643462571 643463426 0.000000e+00 713.0
35 TraesCS6D01G054900 chr7B 81.421 732 106 20 1646 2361 643295760 643295043 3.630000e-159 571.0
36 TraesCS6D01G054900 chr7B 85.455 220 31 1 1013 1231 643292754 643292535 9.040000e-56 228.0
37 TraesCS6D01G054900 chr7B 94.000 50 2 1 133 182 52948903 52948951 1.250000e-09 75.0
38 TraesCS6D01G054900 chr7A 82.147 885 132 20 1363 2242 670946926 670946063 0.000000e+00 736.0
39 TraesCS6D01G054900 chr7A 86.792 212 27 1 1021 1231 670947228 670947017 5.400000e-58 235.0
40 TraesCS6D01G054900 chr7A 86.076 158 22 0 297 454 25934975 25934818 1.550000e-38 171.0
41 TraesCS6D01G054900 chr3A 85.632 174 24 1 281 454 11836767 11836939 7.140000e-42 182.0
42 TraesCS6D01G054900 chr4B 89.474 133 14 0 322 454 636169283 636169151 5.560000e-38 169.0
43 TraesCS6D01G054900 chrUn 83.735 166 24 3 291 454 1417213 1417377 1.560000e-33 154.0
44 TraesCS6D01G054900 chrUn 83.735 166 24 3 291 454 298251276 298251440 1.560000e-33 154.0
45 TraesCS6D01G054900 chrUn 83.735 166 24 3 291 454 298256158 298256322 1.560000e-33 154.0
46 TraesCS6D01G054900 chr5D 84.049 163 20 4 295 454 457334190 457334349 5.600000e-33 152.0
47 TraesCS6D01G054900 chr2D 83.036 112 15 4 2734 2844 621553985 621553877 7.400000e-17 99.0
48 TraesCS6D01G054900 chr3B 92.593 54 3 1 133 186 92223584 92223636 3.470000e-10 76.8
49 TraesCS6D01G054900 chr3B 94.118 51 2 1 136 186 92240831 92240782 3.470000e-10 76.8
50 TraesCS6D01G054900 chr3B 92.593 54 3 1 133 186 201580718 201580770 3.470000e-10 76.8
51 TraesCS6D01G054900 chr3B 92.157 51 3 1 136 186 772644102 772644053 1.610000e-08 71.3
52 TraesCS6D01G054900 chr1D 94.118 51 2 1 136 186 350980716 350980667 3.470000e-10 76.8
53 TraesCS6D01G054900 chr1B 94.118 51 2 1 136 186 286080058 286080009 3.470000e-10 76.8
54 TraesCS6D01G054900 chr1A 92.593 54 3 1 133 186 94738459 94738511 3.470000e-10 76.8


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 TraesCS6D01G054900 chr6D 25913972 25917211 3239 False 5984.000000 5984 100.000000 1 3240 1 chr6D.!!$F1 3239
1 TraesCS6D01G054900 chr6D 25803751 25805641 1890 True 746.500000 828 82.385500 455 2380 2 chr6D.!!$R2 1925
2 TraesCS6D01G054900 chr6D 25852100 25852766 666 True 582.000000 582 82.546000 873 1567 1 chr6D.!!$R1 694
3 TraesCS6D01G054900 chr6D 25878942 25879793 851 True 513.000000 713 90.152500 1365 2243 2 chr6D.!!$R4 878
4 TraesCS6D01G054900 chr6D 25826081 25827882 1801 True 288.700000 508 87.939000 732 2366 2 chr6D.!!$R3 1634
5 TraesCS6D01G054900 chr6A 24046001 24050790 4789 False 853.800000 1635 91.886400 11 3139 5 chr6A.!!$F1 3128
6 TraesCS6D01G054900 chr6A 24030259 24031659 1400 True 681.000000 686 85.434500 767 2240 2 chr6A.!!$R4 1473
7 TraesCS6D01G054900 chr6A 23962639 23963284 645 True 518.000000 518 81.314000 886 1567 1 chr6A.!!$R1 681
8 TraesCS6D01G054900 chr6A 23895520 23897344 1824 True 515.000000 641 85.220333 455 2248 3 chr6A.!!$R2 1793
9 TraesCS6D01G054900 chr6A 23951029 23951761 732 True 350.600000 641 90.656500 1677 2366 2 chr6A.!!$R3 689
10 TraesCS6D01G054900 chr6B 42004548 42006292 1744 True 731.000000 826 83.786000 455 2248 2 chr6B.!!$R2 1793
11 TraesCS6D01G054900 chr6B 42391894 42395410 3516 False 675.800000 1059 88.006000 211 3240 5 chr6B.!!$F1 3029
12 TraesCS6D01G054900 chr6B 42231103 42231897 794 True 660.000000 660 82.005000 755 1567 1 chr6B.!!$R1 812
13 TraesCS6D01G054900 chr6B 42317585 42318967 1382 True 434.333333 725 86.045000 889 2243 3 chr6B.!!$R3 1354
14 TraesCS6D01G054900 chr7D 579099043 579100060 1017 True 752.000000 752 80.344000 1330 2361 1 chr7D.!!$R1 1031
15 TraesCS6D01G054900 chr7B 643462571 643463426 855 False 713.000000 713 81.818000 1366 2242 1 chr7B.!!$F2 876
16 TraesCS6D01G054900 chr7B 643291468 643295760 4292 True 516.333333 750 82.506000 1013 2361 3 chr7B.!!$R1 1348
17 TraesCS6D01G054900 chr7A 670946063 670947228 1165 True 485.500000 736 84.469500 1021 2242 2 chr7A.!!$R2 1221

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
704 2374 0.385390 CCGGAATGCCATTTGGTAGC 59.615 55.0 0.00 0.00 37.57 3.58 F
1083 3078 0.317938 CCGCGTATAGTCAGCTGTCC 60.318 60.0 14.67 5.81 0.00 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1781 4009 0.250901 AACGCCTTGATGAGCAGGTT 60.251 50.0 0.00 0.0 0.0 3.50 R
2928 5635 0.886563 GTATATGGGACCCGAGACCG 59.113 60.0 5.91 0.0 0.0 4.79 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
27 28 9.208022 GATCATGTTCATGGATTATCGAAACTA 57.792 33.333 12.02 0.00 0.00 2.24
46 47 4.256920 ACTATGCAAGAACTCGATTTGCT 58.743 39.130 18.48 10.68 45.53 3.91
97 98 1.908299 GGCACCCCCACTCCTTTTG 60.908 63.158 0.00 0.00 0.00 2.44
104 105 0.890683 CCCACTCCTTTTGGCATCAC 59.109 55.000 0.00 0.00 40.12 3.06
182 183 8.768955 GCCAAAAACATGAACATACAAACATAA 58.231 29.630 0.00 0.00 0.00 1.90
187 188 9.486497 AAACATGAACATACAAACATAATGCAA 57.514 25.926 0.00 0.00 0.00 4.08
188 189 8.692110 ACATGAACATACAAACATAATGCAAG 57.308 30.769 0.00 0.00 0.00 4.01
190 191 8.588789 CATGAACATACAAACATAATGCAAGTG 58.411 33.333 0.00 0.00 0.00 3.16
191 192 6.585702 TGAACATACAAACATAATGCAAGTGC 59.414 34.615 0.00 0.00 42.50 4.40
209 1487 6.263344 CAAGTGCAAACAATATCTCATCTGG 58.737 40.000 0.00 0.00 0.00 3.86
229 1522 9.330063 CATCTGGTAGTATTGAATTTAGCTGAA 57.670 33.333 0.00 0.00 0.00 3.02
230 1523 9.905713 ATCTGGTAGTATTGAATTTAGCTGAAA 57.094 29.630 0.00 0.00 0.00 2.69
274 1567 5.465935 TCTCATCCCGCAAACAAAATTAAC 58.534 37.500 0.00 0.00 0.00 2.01
305 1598 2.021042 TCCCAGGGAGAGGATTTATGGT 60.021 50.000 3.01 0.00 0.00 3.55
347 1641 4.090588 CCCTCGTGCCCGCCTTTA 62.091 66.667 0.00 0.00 0.00 1.85
704 2374 0.385390 CCGGAATGCCATTTGGTAGC 59.615 55.000 0.00 0.00 37.57 3.58
865 2553 4.445453 TGACCATTCTACATGCATCTCAC 58.555 43.478 0.00 0.00 0.00 3.51
876 2564 1.264020 TGCATCTCACGCAACTGAAAC 59.736 47.619 0.00 0.00 36.17 2.78
1072 3067 1.419012 TCCTCTCCTCTTCCGCGTATA 59.581 52.381 4.92 0.00 0.00 1.47
1083 3078 0.317938 CCGCGTATAGTCAGCTGTCC 60.318 60.000 14.67 5.81 0.00 4.02
1152 3147 0.813184 CCACAATGATCAAGGCGCTT 59.187 50.000 7.64 0.00 0.00 4.68
1278 3350 6.089920 TGTCGAATTGATTTACGATCACAC 57.910 37.500 0.00 0.00 37.14 3.82
1327 3475 5.575606 GTGCTAGTGAACACGCTTAATTAGA 59.424 40.000 0.00 0.00 36.20 2.10
1438 3605 0.319641 AGACAGCCTTTCCGAACGTC 60.320 55.000 0.00 0.00 0.00 4.34
1567 3734 1.343506 GCACTTTCCTGGTACGTACG 58.656 55.000 18.98 15.01 0.00 3.67
1569 3736 2.860062 CACTTTCCTGGTACGTACGAG 58.140 52.381 25.66 25.66 32.63 4.18
1586 3753 5.118050 CGTACGAGTACAACACAATCAATGT 59.882 40.000 10.44 0.00 38.17 2.71
1587 3754 6.306117 CGTACGAGTACAACACAATCAATGTA 59.694 38.462 10.44 0.00 36.62 2.29
1588 3755 6.462073 ACGAGTACAACACAATCAATGTAC 57.538 37.500 6.78 6.78 45.26 2.90
1589 3756 5.986741 ACGAGTACAACACAATCAATGTACA 59.013 36.000 14.96 0.00 46.58 2.90
1590 3757 6.145534 ACGAGTACAACACAATCAATGTACAG 59.854 38.462 14.96 11.21 46.58 2.74
1591 3758 6.364976 CGAGTACAACACAATCAATGTACAGA 59.635 38.462 14.96 0.00 46.58 3.41
1594 3761 4.761739 ACAACACAATCAATGTACAGAGGG 59.238 41.667 0.33 0.00 41.46 4.30
1595 3762 4.640771 ACACAATCAATGTACAGAGGGT 57.359 40.909 0.33 0.00 41.46 4.34
1596 3763 5.755409 ACACAATCAATGTACAGAGGGTA 57.245 39.130 0.33 0.00 41.46 3.69
1597 3764 6.313519 ACACAATCAATGTACAGAGGGTAT 57.686 37.500 0.33 0.00 41.46 2.73
1598 3765 6.349300 ACACAATCAATGTACAGAGGGTATC 58.651 40.000 0.33 0.00 41.46 2.24
1599 3766 6.156949 ACACAATCAATGTACAGAGGGTATCT 59.843 38.462 0.33 0.00 41.46 1.98
1600 3767 7.344612 ACACAATCAATGTACAGAGGGTATCTA 59.655 37.037 0.33 0.00 41.46 1.98
1601 3768 7.869937 CACAATCAATGTACAGAGGGTATCTAG 59.130 40.741 0.33 0.00 41.46 2.43
1602 3769 7.565398 ACAATCAATGTACAGAGGGTATCTAGT 59.435 37.037 0.33 0.00 41.63 2.57
1603 3770 8.424918 CAATCAATGTACAGAGGGTATCTAGTT 58.575 37.037 0.33 0.00 36.10 2.24
1604 3771 7.973048 TCAATGTACAGAGGGTATCTAGTTT 57.027 36.000 0.33 0.00 36.10 2.66
1605 3772 8.375493 TCAATGTACAGAGGGTATCTAGTTTT 57.625 34.615 0.33 0.00 36.10 2.43
1606 3773 9.483489 TCAATGTACAGAGGGTATCTAGTTTTA 57.517 33.333 0.33 0.00 36.10 1.52
1735 3963 3.735029 GACTCGACGACGGCCAGT 61.735 66.667 0.00 0.00 40.21 4.00
1781 4009 2.040544 GCGCCAAGCTTAAGCCTGA 61.041 57.895 24.59 0.00 44.04 3.86
1785 4013 1.888391 GCCAAGCTTAAGCCTGAACCT 60.888 52.381 24.59 2.51 43.38 3.50
1867 4095 2.109126 GCACACCATCGGCTTCTCC 61.109 63.158 0.00 0.00 0.00 3.71
2044 4272 3.296709 CTACCGCAACCTGGTCGCT 62.297 63.158 8.32 0.00 40.96 4.93
2173 4401 0.250038 CGGCGATGATCAAGATGGGT 60.250 55.000 0.00 0.00 0.00 4.51
2562 5236 7.568199 TTTCGATCTTTCTTTTCTTCCAGTT 57.432 32.000 0.00 0.00 0.00 3.16
2563 5237 7.568199 TTCGATCTTTCTTTTCTTCCAGTTT 57.432 32.000 0.00 0.00 0.00 2.66
2564 5238 8.671384 TTCGATCTTTCTTTTCTTCCAGTTTA 57.329 30.769 0.00 0.00 0.00 2.01
2565 5239 8.084590 TCGATCTTTCTTTTCTTCCAGTTTAC 57.915 34.615 0.00 0.00 0.00 2.01
2608 5283 3.674682 GCTAATTGCCCATACGTTGCAAA 60.675 43.478 15.20 0.00 46.82 3.68
2635 5311 9.411189 GGGGTATACATATTTTAGTGGTTCAAA 57.589 33.333 5.01 0.00 0.00 2.69
2653 5329 8.859090 TGGTTCAAAATCAGTTTTATCTGACAT 58.141 29.630 0.00 0.00 45.40 3.06
2720 5396 5.114743 TCATTTAGGTATGGGTAGGGGAT 57.885 43.478 0.00 0.00 0.00 3.85
2794 5470 5.365605 TGGGAGGAGACGTATGTGATAAAAT 59.634 40.000 0.00 0.00 0.00 1.82
2801 5477 7.876068 GGAGACGTATGTGATAAAATGGGATTA 59.124 37.037 0.00 0.00 0.00 1.75
2813 5489 1.200519 TGGGATTAACCGGAGTGGAG 58.799 55.000 9.46 0.00 42.00 3.86
2820 5496 3.147595 CCGGAGTGGAGGCGATGA 61.148 66.667 0.00 0.00 42.00 2.92
2823 5499 0.179073 CGGAGTGGAGGCGATGAAAT 60.179 55.000 0.00 0.00 0.00 2.17
2833 5538 1.408822 GGCGATGAAATGAACTCCCCT 60.409 52.381 0.00 0.00 0.00 4.79
2947 5654 0.886563 CGGTCTCGGGTCCCATATAC 59.113 60.000 9.12 0.00 0.00 1.47
3103 5810 2.025793 TGTGGACTCTGGGACAAAAACA 60.026 45.455 0.00 0.00 38.70 2.83
3113 5821 7.446931 ACTCTGGGACAAAAACAAAACAAATTT 59.553 29.630 0.00 0.00 38.70 1.82
3152 5860 9.061610 GTGTGAATTGTAACATTTACATAGTGC 57.938 33.333 0.00 0.00 0.00 4.40
3202 5911 3.198635 CCTGGAAGCTAGTCATTCCTTCA 59.801 47.826 18.40 4.49 44.46 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 8.992073 CATAGTTTCGATAATCCATGAACATGA 58.008 33.333 15.21 3.55 41.20 3.07
6 7 6.765512 TGCATAGTTTCGATAATCCATGAACA 59.234 34.615 0.00 0.00 0.00 3.18
7 8 7.189693 TGCATAGTTTCGATAATCCATGAAC 57.810 36.000 0.00 0.00 0.00 3.18
8 9 7.714813 TCTTGCATAGTTTCGATAATCCATGAA 59.285 33.333 0.00 0.00 0.00 2.57
9 10 7.216494 TCTTGCATAGTTTCGATAATCCATGA 58.784 34.615 0.00 0.00 0.00 3.07
19 20 4.168922 TCGAGTTCTTGCATAGTTTCGA 57.831 40.909 8.45 8.45 32.80 3.71
27 28 3.254166 ACAAGCAAATCGAGTTCTTGCAT 59.746 39.130 24.36 13.43 46.26 3.96
46 47 4.009675 GGAAGCAACACATAGGATGACAA 58.990 43.478 0.00 0.00 0.00 3.18
91 92 4.222124 AGTAGTAGGTGATGCCAAAAGG 57.778 45.455 0.00 0.00 40.61 3.11
97 98 3.906720 TCCAAAGTAGTAGGTGATGCC 57.093 47.619 0.00 0.00 37.58 4.40
104 105 7.979444 TCAAATTGAGTTCCAAAGTAGTAGG 57.021 36.000 0.00 0.00 38.43 3.18
184 185 5.742453 CAGATGAGATATTGTTTGCACTTGC 59.258 40.000 0.00 0.00 42.50 4.01
187 188 5.503927 ACCAGATGAGATATTGTTTGCACT 58.496 37.500 0.00 0.00 0.00 4.40
188 189 5.824904 ACCAGATGAGATATTGTTTGCAC 57.175 39.130 0.00 0.00 0.00 4.57
190 191 8.839310 ATACTACCAGATGAGATATTGTTTGC 57.161 34.615 0.00 0.00 0.00 3.68
229 1522 8.486210 TGAGAGGTGAACTAATGTTGCTATATT 58.514 33.333 0.00 0.00 36.39 1.28
230 1523 8.023021 TGAGAGGTGAACTAATGTTGCTATAT 57.977 34.615 0.00 0.00 36.39 0.86
244 1537 0.036388 TTGCGGGATGAGAGGTGAAC 60.036 55.000 0.00 0.00 0.00 3.18
274 1567 2.034687 CCCTGGGAGGCAAGTGTG 59.965 66.667 7.01 0.00 32.73 3.82
301 1594 2.120909 GCCCGCACTTGCATACCAT 61.121 57.895 1.48 0.00 42.21 3.55
305 1598 1.745115 GTGAGCCCGCACTTGCATA 60.745 57.895 1.48 0.00 42.21 3.14
347 1641 6.054941 ACTTTGAAAATCGGAAGCCAAAATT 58.945 32.000 0.00 0.00 0.00 1.82
607 2270 6.263842 TGGATAAAGATCATGTTCATCAAGCC 59.736 38.462 6.55 2.23 33.27 4.35
678 2345 3.004315 CCAAATGGCATTCCGGTATACAC 59.996 47.826 14.04 0.00 34.14 2.90
680 2347 3.219281 ACCAAATGGCATTCCGGTATAC 58.781 45.455 24.93 0.00 39.32 1.47
759 2429 2.857152 GACTAAGAGCAACGCATCTCTG 59.143 50.000 2.32 0.00 39.43 3.35
865 2553 1.331756 AGCACTCTTGTTTCAGTTGCG 59.668 47.619 0.00 0.00 32.36 4.85
876 2564 7.880195 AGCCACCTATTTATAATAGCACTCTTG 59.120 37.037 0.00 0.00 0.00 3.02
1041 3036 1.228215 AGGAGAGGAGGAAGAGGGCT 61.228 60.000 0.00 0.00 0.00 5.19
1072 3067 3.374402 CGACGGGGACAGCTGACT 61.374 66.667 23.35 0.00 0.00 3.41
1301 3449 1.217882 AAGCGTGTTCACTAGCACAC 58.782 50.000 9.43 9.43 38.33 3.82
1438 3605 4.215742 TAGCCCCGCACCGAATCG 62.216 66.667 0.00 0.00 0.00 3.34
1567 3734 7.148573 CCTCTGTACATTGATTGTGTTGTACTC 60.149 40.741 11.86 0.00 42.98 2.59
1569 3736 6.128282 CCCTCTGTACATTGATTGTGTTGTAC 60.128 42.308 0.00 5.38 42.91 2.90
1611 3778 3.810743 GCAGTGTACCCTCTGTCCATTTT 60.811 47.826 10.12 0.00 35.20 1.82
1612 3779 2.290323 GCAGTGTACCCTCTGTCCATTT 60.290 50.000 10.12 0.00 35.20 2.32
1622 3789 4.215109 ACAAGAAAAATGCAGTGTACCCT 58.785 39.130 0.00 0.00 0.00 4.34
1735 3963 1.221466 CGCTGTTCGCCTCAGTCAAA 61.221 55.000 0.00 0.00 35.60 2.69
1781 4009 0.250901 AACGCCTTGATGAGCAGGTT 60.251 50.000 0.00 0.00 0.00 3.50
1785 4013 1.014044 GTCGAACGCCTTGATGAGCA 61.014 55.000 0.00 0.00 0.00 4.26
1867 4095 2.328099 GCGGAAGTTGAGGCACTGG 61.328 63.158 0.00 0.00 41.55 4.00
2173 4401 3.131326 CGTGAGCGGGTTGATGTTA 57.869 52.632 0.00 0.00 0.00 2.41
2416 5060 5.661312 ACTTACATGATGAAGCAGGTACCTA 59.339 40.000 15.80 0.00 35.12 3.08
2471 5116 2.373169 TCTCACTCCATGCTTGGTTTCT 59.627 45.455 17.54 0.00 44.06 2.52
2565 5239 6.020971 AGCGAGTAAAATTAAACCAAAGGG 57.979 37.500 0.00 0.00 41.29 3.95
2585 5260 6.957178 TTTGCAACGTATGGGCAATTAGCG 62.957 45.833 14.54 0.00 45.81 4.26
2608 5283 8.339720 TGAACCACTAAAATATGTATACCCCT 57.660 34.615 0.00 0.00 0.00 4.79
2645 5321 7.564793 TGGTGCTTGTAAGTTATATGTCAGAT 58.435 34.615 0.00 0.00 0.00 2.90
2648 5324 9.845740 AATATGGTGCTTGTAAGTTATATGTCA 57.154 29.630 0.00 0.00 0.00 3.58
2691 5367 9.822727 CCCTACCCATACCTAAATGAAATTAAT 57.177 33.333 0.00 0.00 33.67 1.40
2720 5396 7.309920 GTTTTTCTTCTCCGCATTATTTACCA 58.690 34.615 0.00 0.00 0.00 3.25
2794 5470 1.200519 CTCCACTCCGGTTAATCCCA 58.799 55.000 0.00 0.00 35.57 4.37
2801 5477 2.683933 ATCGCCTCCACTCCGGTT 60.684 61.111 0.00 0.00 35.57 4.44
2813 5489 1.025041 GGGGAGTTCATTTCATCGCC 58.975 55.000 0.00 0.00 37.57 5.54
2928 5635 0.886563 GTATATGGGACCCGAGACCG 59.113 60.000 5.91 0.00 0.00 4.79
3145 5853 7.253750 GCGGAATTAAACAAAATCAGCACTATG 60.254 37.037 0.00 0.00 0.00 2.23
3152 5860 7.083875 TCTAGGCGGAATTAAACAAAATCAG 57.916 36.000 0.00 0.00 0.00 2.90
3164 5872 1.065418 CCAGGTGTTCTAGGCGGAATT 60.065 52.381 0.00 0.00 0.00 2.17
3168 5876 0.108138 CTTCCAGGTGTTCTAGGCGG 60.108 60.000 0.00 0.00 0.00 6.13


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

AutoCloner maintained by Alex Coulton.