Multiple sequence alignment - TraesCS2B01G096800

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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 TraesCS2B01G096800 chr2B 100.000 3657 0 0 1 3657 56918660 56915004 0.000000e+00 6754.0
1 TraesCS2B01G096800 chr2B 88.394 741 54 17 953 1685 56899501 56900217 0.000000e+00 863.0
2 TraesCS2B01G096800 chr2B 91.166 283 14 5 2158 2432 56900807 56901086 1.240000e-99 374.0
3 TraesCS2B01G096800 chr2D 92.605 1501 61 16 640 2098 34344170 34342678 0.000000e+00 2111.0
4 TraesCS2B01G096800 chr2D 87.466 742 61 15 953 1685 34329576 34330294 0.000000e+00 826.0
5 TraesCS2B01G096800 chr2D 96.210 343 9 3 2091 2431 34342649 34342309 3.190000e-155 558.0
6 TraesCS2B01G096800 chr2D 91.429 280 18 4 2153 2432 34330894 34331167 2.670000e-101 379.0
7 TraesCS2B01G096800 chr2D 90.860 186 16 1 2479 2664 34342188 34342004 7.840000e-62 248.0
8 TraesCS2B01G096800 chr2D 80.311 193 29 7 3195 3381 408456861 408457050 1.770000e-28 137.0
9 TraesCS2B01G096800 chr2A 91.275 1490 65 26 640 2093 37277056 37275596 0.000000e+00 1971.0
10 TraesCS2B01G096800 chr2A 89.431 861 40 21 2809 3623 37274795 37273940 0.000000e+00 1038.0
11 TraesCS2B01G096800 chr2A 93.968 630 16 5 2092 2699 37275561 37274932 0.000000e+00 933.0
12 TraesCS2B01G096800 chr2A 87.854 741 62 15 953 1685 37269421 37270141 0.000000e+00 845.0
13 TraesCS2B01G096800 chr2A 90.278 288 15 6 2158 2436 37270718 37271001 7.460000e-97 364.0
14 TraesCS2B01G096800 chr2A 89.231 130 3 2 2700 2827 37274868 37274748 6.320000e-33 152.0
15 TraesCS2B01G096800 chr2A 93.651 63 4 0 577 639 76367578 76367516 1.080000e-15 95.3
16 TraesCS2B01G096800 chr7B 94.898 490 18 4 1 485 746620508 746620021 0.000000e+00 760.0
17 TraesCS2B01G096800 chr7B 91.018 167 8 4 478 639 746618835 746618671 6.150000e-53 219.0
18 TraesCS2B01G096800 chr7B 88.679 159 14 2 1935 2093 27077895 27078049 1.340000e-44 191.0
19 TraesCS2B01G096800 chr7B 92.308 65 5 0 578 642 616902463 616902527 3.890000e-15 93.5
20 TraesCS2B01G096800 chr6D 86.029 408 39 12 1 396 381177093 381177494 4.370000e-114 422.0
21 TraesCS2B01G096800 chr6D 83.056 301 34 12 283 569 129165075 129164778 1.300000e-64 257.0
22 TraesCS2B01G096800 chr4D 78.151 357 41 17 3046 3371 430892304 430891954 3.730000e-45 193.0
23 TraesCS2B01G096800 chr4D 100.000 30 0 0 3383 3412 47729841 47729870 5.100000e-04 56.5
24 TraesCS2B01G096800 chr1A 77.136 398 46 26 3045 3400 27400539 27400933 4.820000e-44 189.0
25 TraesCS2B01G096800 chr1A 79.730 222 34 9 3188 3402 463926418 463926635 2.270000e-32 150.0
26 TraesCS2B01G096800 chr1A 97.222 36 0 1 3383 3418 536301101 536301135 3.940000e-05 60.2
27 TraesCS2B01G096800 chr5B 83.784 185 27 3 3189 3371 113823886 113824069 4.860000e-39 172.0
28 TraesCS2B01G096800 chr5B 80.682 176 20 6 3188 3351 458631758 458631585 1.380000e-24 124.0
29 TraesCS2B01G096800 chr5B 93.750 64 4 0 577 640 82138311 82138248 3.010000e-16 97.1
30 TraesCS2B01G096800 chr3D 79.151 259 30 12 3046 3284 489734214 489733960 1.360000e-34 158.0
31 TraesCS2B01G096800 chr1D 80.645 217 31 8 3188 3400 358218392 358218183 1.360000e-34 158.0
32 TraesCS2B01G096800 chr1D 90.123 81 4 4 563 639 466009054 466009134 6.460000e-18 102.0
33 TraesCS2B01G096800 chr5D 84.762 105 12 2 552 652 545803694 545803798 6.460000e-18 102.0
34 TraesCS2B01G096800 chr3B 85.567 97 10 2 547 639 109909533 109909629 8.360000e-17 99.0
35 TraesCS2B01G096800 chr3B 91.549 71 5 1 571 640 820509469 820509399 3.010000e-16 97.1
36 TraesCS2B01G096800 chr3B 100.000 30 0 0 3383 3412 796548539 796548568 5.100000e-04 56.5
37 TraesCS2B01G096800 chrUn 91.549 71 5 1 571 640 310738491 310738421 3.010000e-16 97.1
38 TraesCS2B01G096800 chr1B 76.098 205 36 10 3188 3381 409676038 409675836 1.080000e-15 95.3


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 TraesCS2B01G096800 chr2B 56915004 56918660 3656 True 6754.000000 6754 100.00000 1 3657 1 chr2B.!!$R1 3656
1 TraesCS2B01G096800 chr2B 56899501 56901086 1585 False 618.500000 863 89.78000 953 2432 2 chr2B.!!$F1 1479
2 TraesCS2B01G096800 chr2D 34342004 34344170 2166 True 972.333333 2111 93.22500 640 2664 3 chr2D.!!$R1 2024
3 TraesCS2B01G096800 chr2D 34329576 34331167 1591 False 602.500000 826 89.44750 953 2432 2 chr2D.!!$F2 1479
4 TraesCS2B01G096800 chr2A 37273940 37277056 3116 True 1023.500000 1971 90.97625 640 3623 4 chr2A.!!$R2 2983
5 TraesCS2B01G096800 chr2A 37269421 37271001 1580 False 604.500000 845 89.06600 953 2436 2 chr2A.!!$F1 1483
6 TraesCS2B01G096800 chr7B 746618671 746620508 1837 True 489.500000 760 92.95800 1 639 2 chr7B.!!$R1 638

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
456 462 0.250338 AAGGGGTCTGCAGTTCGAAC 60.250 55.0 20.71 20.71 0.00 3.95 F
1681 2914 0.251354 GCTCAGGCAGATCAGGTGAA 59.749 55.0 0.00 0.00 38.54 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1701 2959 1.070821 GGTTAACCGAACGTGTAGGC 58.929 55.0 9.34 0.0 39.12 3.93 R
2759 4440 0.468226 CCCCGTATTTGGAGCTGCTA 59.532 55.0 6.82 0.0 0.00 3.49 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
22 23 2.942376 TGCAAGTCTTTCATCGTGTGTT 59.058 40.909 0.00 0.00 0.00 3.32
54 55 7.920160 AAAATCACCACAGTTTGAAAAATGT 57.080 28.000 3.20 3.20 46.71 2.71
146 148 8.797266 AAAAATTCACATCGTCCTAGAAAAAC 57.203 30.769 0.00 0.00 0.00 2.43
276 278 6.972328 GTGTGTGCATTGAGAAAAGAAGTAAA 59.028 34.615 0.00 0.00 0.00 2.01
281 283 5.115622 GCATTGAGAAAAGAAGTAAACGCAC 59.884 40.000 0.00 0.00 0.00 5.34
308 310 0.537143 TCGCTGGCACAAAATCCTGT 60.537 50.000 0.00 0.00 38.70 4.00
332 334 1.819288 ACACCGAGTCACTGTAGATGG 59.181 52.381 0.00 0.00 0.00 3.51
357 359 3.774066 TGTAGCACTGTGAATCAGATCG 58.226 45.455 12.86 0.00 46.27 3.69
416 422 7.890655 AGAAAATTGATTTTACTCTAGCCTGGT 59.109 33.333 1.93 0.00 39.86 4.00
440 446 1.372004 CATGCGTGCACCAACAAGG 60.372 57.895 12.15 0.00 45.67 3.61
456 462 0.250338 AAGGGGTCTGCAGTTCGAAC 60.250 55.000 20.71 20.71 0.00 3.95
485 491 1.398022 CGCGGCGCATTCTTTTTCTG 61.398 55.000 32.61 6.65 0.00 3.02
486 492 1.677353 GCGGCGCATTCTTTTTCTGC 61.677 55.000 29.21 0.00 0.00 4.26
692 1895 0.885196 TTGCCATAGAACCGCAAACC 59.115 50.000 0.00 0.00 39.43 3.27
702 1908 0.802494 ACCGCAAACCGAGCTAAATG 59.198 50.000 0.00 0.00 40.02 2.32
711 1917 0.572590 CGAGCTAAATGAACGAGGCG 59.427 55.000 0.00 0.00 0.00 5.52
738 1952 1.120530 AATTACACCGCCGGAGAGAT 58.879 50.000 11.71 0.00 0.00 2.75
789 2003 9.646336 CAAGAAGAAAGAAAAAGAAATGCAATG 57.354 29.630 0.00 0.00 0.00 2.82
795 2009 5.159209 AGAAAAAGAAATGCAATGCTCTCG 58.841 37.500 6.82 0.00 0.00 4.04
842 2056 4.885907 CAGCTACATCCATCAATTCCAACT 59.114 41.667 0.00 0.00 0.00 3.16
883 2097 6.018469 ACAGAATCATTTCCATCCCAGAAAA 58.982 36.000 0.00 0.00 36.83 2.29
894 2109 4.201950 CCATCCCAGAAAATAAGCAAGACG 60.202 45.833 0.00 0.00 0.00 4.18
927 2146 1.815613 CACTCACTCACTCGATCACCT 59.184 52.381 0.00 0.00 0.00 4.00
1681 2914 0.251354 GCTCAGGCAGATCAGGTGAA 59.749 55.000 0.00 0.00 38.54 3.18
1701 2959 1.141019 GCATGCATTGTCCTGCCTG 59.859 57.895 14.21 0.00 41.58 4.85
1703 2961 2.056223 ATGCATTGTCCTGCCTGCC 61.056 57.895 0.00 0.00 41.58 4.85
1704 2962 2.362120 GCATTGTCCTGCCTGCCT 60.362 61.111 0.00 0.00 36.10 4.75
1705 2963 1.077501 GCATTGTCCTGCCTGCCTA 60.078 57.895 0.00 0.00 36.10 3.93
1706 2964 1.379642 GCATTGTCCTGCCTGCCTAC 61.380 60.000 0.00 0.00 36.10 3.18
1707 2965 0.035152 CATTGTCCTGCCTGCCTACA 60.035 55.000 0.00 0.00 0.00 2.74
1708 2966 0.035056 ATTGTCCTGCCTGCCTACAC 60.035 55.000 0.00 0.00 0.00 2.90
1709 2967 2.125512 GTCCTGCCTGCCTACACG 60.126 66.667 0.00 0.00 0.00 4.49
1710 2968 2.603473 TCCTGCCTGCCTACACGT 60.603 61.111 0.00 0.00 0.00 4.49
1711 2969 2.214216 TCCTGCCTGCCTACACGTT 61.214 57.895 0.00 0.00 0.00 3.99
1712 2970 1.741770 CCTGCCTGCCTACACGTTC 60.742 63.158 0.00 0.00 0.00 3.95
1729 2987 3.495753 ACGTTCGGTTAACCTGTTCATTC 59.504 43.478 22.12 3.84 34.33 2.67
1759 3017 6.094464 TGTCGATCGATCCTTTAGTAAACTGA 59.906 38.462 22.50 3.50 0.00 3.41
1760 3018 7.140048 GTCGATCGATCCTTTAGTAAACTGAT 58.860 38.462 22.50 0.00 0.00 2.90
1761 3019 8.288208 GTCGATCGATCCTTTAGTAAACTGATA 58.712 37.037 22.50 0.00 0.00 2.15
2050 3457 3.126879 ATGTCCATGTGCGCACCG 61.127 61.111 35.72 26.08 0.00 4.94
2477 4084 3.087031 CACTGGAGCAATGTTCCATTCT 58.913 45.455 18.95 2.63 43.46 2.40
2515 4122 1.084289 GTAACTGGAACCATGGTCGC 58.916 55.000 20.07 13.45 0.00 5.19
2545 4152 3.568007 TGTTTTTCTTCCAGGATTCGGTG 59.432 43.478 0.00 0.00 0.00 4.94
2671 4278 5.105554 CGCTACCTAGATTGCTCTGGATAAT 60.106 44.000 0.00 0.00 31.92 1.28
2672 4279 6.337356 GCTACCTAGATTGCTCTGGATAATC 58.663 44.000 0.00 0.00 31.92 1.75
2673 4280 6.071108 GCTACCTAGATTGCTCTGGATAATCA 60.071 42.308 0.00 0.00 34.18 2.57
2674 4281 6.949117 ACCTAGATTGCTCTGGATAATCAT 57.051 37.500 0.00 0.00 34.18 2.45
2675 4282 9.194972 CTACCTAGATTGCTCTGGATAATCATA 57.805 37.037 0.00 0.00 34.18 2.15
2676 4283 8.621126 ACCTAGATTGCTCTGGATAATCATAT 57.379 34.615 0.00 0.00 34.18 1.78
2735 4416 0.245266 TGATCGCAACACGGCTAAGA 59.755 50.000 0.00 0.00 43.89 2.10
2755 4436 5.256806 AGAAGGTTTTGTTAGCTACCCAT 57.743 39.130 0.00 0.00 0.00 4.00
2756 4437 5.641155 AGAAGGTTTTGTTAGCTACCCATT 58.359 37.500 0.00 0.00 0.00 3.16
2757 4438 6.786122 AGAAGGTTTTGTTAGCTACCCATTA 58.214 36.000 0.00 0.00 0.00 1.90
2758 4439 6.657966 AGAAGGTTTTGTTAGCTACCCATTAC 59.342 38.462 0.00 0.00 0.00 1.89
2759 4440 6.135819 AGGTTTTGTTAGCTACCCATTACT 57.864 37.500 0.00 0.00 0.00 2.24
2760 4441 7.261688 AGGTTTTGTTAGCTACCCATTACTA 57.738 36.000 0.00 0.00 0.00 1.82
2761 4442 7.336396 AGGTTTTGTTAGCTACCCATTACTAG 58.664 38.462 0.00 0.00 0.00 2.57
2762 4443 6.037940 GGTTTTGTTAGCTACCCATTACTAGC 59.962 42.308 0.00 0.00 36.40 3.42
2763 4444 5.943349 TTGTTAGCTACCCATTACTAGCA 57.057 39.130 0.00 0.00 38.29 3.49
2807 4488 5.222079 TGATAATGTAATAGCCCTCGCAA 57.778 39.130 0.00 0.00 37.52 4.85
2808 4489 5.616270 TGATAATGTAATAGCCCTCGCAAA 58.384 37.500 0.00 0.00 37.52 3.68
2809 4490 6.058833 TGATAATGTAATAGCCCTCGCAAAA 58.941 36.000 0.00 0.00 37.52 2.44
2810 4491 6.544197 TGATAATGTAATAGCCCTCGCAAAAA 59.456 34.615 0.00 0.00 37.52 1.94
2833 4514 6.743575 AATTGATAATGTAATAGCCCTCGC 57.256 37.500 0.00 0.00 0.00 5.03
2881 4562 1.601903 CAAGTAGCTTTCCGTGCACAA 59.398 47.619 18.64 0.89 0.00 3.33
2889 4570 3.065233 GCTTTCCGTGCACAATGATCATA 59.935 43.478 18.64 0.00 0.00 2.15
2893 4574 4.954875 TCCGTGCACAATGATCATACATA 58.045 39.130 18.64 0.00 0.00 2.29
2897 4578 6.293571 CCGTGCACAATGATCATACATACAAT 60.294 38.462 18.64 0.00 0.00 2.71
2915 4596 8.200792 ACATACAATTTTGTCTTTTGCCACTAA 58.799 29.630 0.00 0.00 42.35 2.24
2916 4597 9.206870 CATACAATTTTGTCTTTTGCCACTAAT 57.793 29.630 0.00 0.00 42.35 1.73
2960 4641 2.507407 TGCCTTATTGAGTTCACCCC 57.493 50.000 0.00 0.00 0.00 4.95
2961 4642 1.992557 TGCCTTATTGAGTTCACCCCT 59.007 47.619 0.00 0.00 0.00 4.79
3021 4702 4.991687 GCTCAGTCATACTATAGGCCAAAC 59.008 45.833 5.01 0.00 0.00 2.93
3032 4713 0.249911 AGGCCAAACTGTCTCACGTC 60.250 55.000 5.01 0.00 0.00 4.34
3047 4728 0.250814 ACGTCGATAGGGGGCTAGAG 60.251 60.000 0.00 0.00 0.00 2.43
3057 4738 1.536940 GGGGCTAGAGGACGTATCTC 58.463 60.000 6.06 7.98 0.00 2.75
3058 4739 1.536940 GGGCTAGAGGACGTATCTCC 58.463 60.000 12.93 6.99 31.96 3.71
3064 4745 0.386113 GAGGACGTATCTCCTGCACC 59.614 60.000 0.00 0.00 41.11 5.01
3076 4757 2.048222 TGCACCGGAGCTTCTTCG 60.048 61.111 24.52 0.00 34.99 3.79
3398 5122 2.383527 CGAAGAAGCTCCGGTGCAC 61.384 63.158 28.68 21.00 34.99 4.57
3493 5217 1.884579 AGCACCATGTTTCTCTGCAAG 59.115 47.619 0.00 0.00 0.00 4.01
3613 5338 6.320434 TCCACTCATTCCCATAAACATACA 57.680 37.500 0.00 0.00 0.00 2.29
3617 5342 6.374053 CACTCATTCCCATAAACATACACACA 59.626 38.462 0.00 0.00 0.00 3.72
3623 5348 4.517075 CCCATAAACATACACACACACACA 59.483 41.667 0.00 0.00 0.00 3.72
3624 5349 5.448438 CCATAAACATACACACACACACAC 58.552 41.667 0.00 0.00 0.00 3.82
3625 5350 5.008118 CCATAAACATACACACACACACACA 59.992 40.000 0.00 0.00 0.00 3.72
3626 5351 4.349663 AAACATACACACACACACACAC 57.650 40.909 0.00 0.00 0.00 3.82
3627 5352 2.979240 ACATACACACACACACACACA 58.021 42.857 0.00 0.00 0.00 3.72
3628 5353 2.675844 ACATACACACACACACACACAC 59.324 45.455 0.00 0.00 0.00 3.82
3629 5354 2.457366 TACACACACACACACACACA 57.543 45.000 0.00 0.00 0.00 3.72
3630 5355 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
3631 5356 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
3632 5357 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
3633 5358 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
3634 5359 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
3635 5360 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
3636 5361 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
3637 5362 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
3638 5363 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
3639 5364 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
3640 5365 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
3641 5366 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
3642 5367 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
3643 5368 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
3644 5369 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
3645 5370 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
3646 5371 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
3647 5372 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
3648 5373 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
3649 5374 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
3650 5375 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
3651 5376 1.155889 CACACACACACACACACACT 58.844 50.000 0.00 0.00 0.00 3.55
3652 5377 1.535028 CACACACACACACACACACTT 59.465 47.619 0.00 0.00 0.00 3.16
3653 5378 2.031245 CACACACACACACACACACTTT 60.031 45.455 0.00 0.00 0.00 2.66
3654 5379 3.187432 CACACACACACACACACACTTTA 59.813 43.478 0.00 0.00 0.00 1.85
3655 5380 3.187637 ACACACACACACACACACTTTAC 59.812 43.478 0.00 0.00 0.00 2.01
3656 5381 2.745281 ACACACACACACACACTTTACC 59.255 45.455 0.00 0.00 0.00 2.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
246 248 1.217001 TCTCAATGCACACACACGTC 58.783 50.000 0.00 0.00 0.00 4.34
276 278 0.100682 CCAGCGATGTACTAGTGCGT 59.899 55.000 5.39 5.32 0.00 5.24
281 283 2.293677 TTGTGCCAGCGATGTACTAG 57.706 50.000 0.00 0.00 0.00 2.57
308 310 2.156917 CTACAGTGACTCGGTGTGGTA 58.843 52.381 0.00 0.00 0.00 3.25
332 334 2.414481 CTGATTCACAGTGCTACAGTGC 59.586 50.000 0.00 0.00 41.30 4.40
357 359 2.044832 GAGTCGCTGATGCATGGTGC 62.045 60.000 2.46 4.41 45.29 5.01
440 446 0.250338 AAGGTTCGAACTGCAGACCC 60.250 55.000 26.32 8.57 0.00 4.46
456 462 4.299316 GCGCCGCGAATGCTAAGG 62.299 66.667 18.91 0.00 39.65 2.69
633 1836 4.340617 CCTTGTGGCTTTATTAAGGGTCA 58.659 43.478 0.00 0.00 35.41 4.02
681 1884 0.869730 TTTAGCTCGGTTTGCGGTTC 59.130 50.000 0.00 0.00 35.28 3.62
692 1895 0.572590 CGCCTCGTTCATTTAGCTCG 59.427 55.000 0.00 0.00 0.00 5.03
711 1917 1.659098 CGGCGGTGTAATTGAGAGAAC 59.341 52.381 0.00 0.00 0.00 3.01
718 1924 0.174845 TCTCTCCGGCGGTGTAATTG 59.825 55.000 27.32 12.34 0.00 2.32
738 1952 2.130272 ACTGGCGAGTCTAGTCATGA 57.870 50.000 0.00 0.00 29.79 3.07
760 1974 7.121911 GCATTTCTTTTTCTTTCTTCTTGTGC 58.878 34.615 0.00 0.00 0.00 4.57
795 2009 0.460284 CACATGTGGCCGGTCTAGAC 60.460 60.000 18.51 14.87 0.00 2.59
842 2056 2.103432 TCTGTACGCCTCACTTGGAAAA 59.897 45.455 0.00 0.00 0.00 2.29
883 2097 1.927174 GTGTGATCGCGTCTTGCTTAT 59.073 47.619 5.77 0.00 43.27 1.73
894 2109 1.063806 GTGAGTGAGTGTGTGATCGC 58.936 55.000 0.00 0.00 0.00 4.58
927 2146 1.205655 CAGCAGCAGAGCAACTAGGTA 59.794 52.381 0.00 0.00 36.85 3.08
1327 2560 4.742201 CTCCGTGGCCGTCACCAG 62.742 72.222 0.00 0.00 43.23 4.00
1542 2775 4.069232 TGGTGCCGCTCCTTCTCG 62.069 66.667 12.54 0.00 0.00 4.04
1701 2959 1.070821 GGTTAACCGAACGTGTAGGC 58.929 55.000 9.34 0.00 39.12 3.93
1707 2965 2.600470 TGAACAGGTTAACCGAACGT 57.400 45.000 18.91 11.83 42.08 3.99
1708 2966 3.120442 GGAATGAACAGGTTAACCGAACG 60.120 47.826 18.91 11.22 42.08 3.95
1709 2967 3.816523 TGGAATGAACAGGTTAACCGAAC 59.183 43.478 18.91 11.98 42.08 3.95
1710 2968 4.088056 TGGAATGAACAGGTTAACCGAA 57.912 40.909 18.91 4.78 42.08 4.30
1711 2969 3.773418 TGGAATGAACAGGTTAACCGA 57.227 42.857 18.91 2.71 42.08 4.69
1712 2970 5.160641 CAAATGGAATGAACAGGTTAACCG 58.839 41.667 18.91 15.50 42.08 4.44
1729 2987 5.050490 ACTAAAGGATCGATCGACAAATGG 58.950 41.667 22.06 10.33 0.00 3.16
1759 3017 5.723672 ACTGTGCACACTACTGTTACTAT 57.276 39.130 17.42 0.00 0.00 2.12
1760 3018 6.638096 TTACTGTGCACACTACTGTTACTA 57.362 37.500 17.42 0.00 33.25 1.82
1761 3019 5.524971 TTACTGTGCACACTACTGTTACT 57.475 39.130 17.42 0.00 33.25 2.24
2515 4122 4.099266 TCCTGGAAGAAAAACAACACATGG 59.901 41.667 0.00 0.00 34.07 3.66
2545 4152 1.786579 GCCAATCGTTGCACAAACTTC 59.213 47.619 0.00 0.00 36.56 3.01
2675 4282 9.933240 GTAGGAGTATGTGGGTAGGTATATTAT 57.067 37.037 0.00 0.00 0.00 1.28
2676 4283 8.903921 TGTAGGAGTATGTGGGTAGGTATATTA 58.096 37.037 0.00 0.00 0.00 0.98
2735 4416 6.549242 AGTAATGGGTAGCTAACAAAACCTT 58.451 36.000 11.71 0.00 32.38 3.50
2755 4436 3.181469 CCCGTATTTGGAGCTGCTAGTAA 60.181 47.826 6.82 0.00 0.00 2.24
2756 4437 2.364324 CCCGTATTTGGAGCTGCTAGTA 59.636 50.000 6.82 0.00 0.00 1.82
2757 4438 1.139058 CCCGTATTTGGAGCTGCTAGT 59.861 52.381 6.82 0.00 0.00 2.57
2758 4439 1.541233 CCCCGTATTTGGAGCTGCTAG 60.541 57.143 6.82 0.00 0.00 3.42
2759 4440 0.468226 CCCCGTATTTGGAGCTGCTA 59.532 55.000 6.82 0.00 0.00 3.49
2760 4441 1.224592 CCCCGTATTTGGAGCTGCT 59.775 57.895 6.82 0.00 0.00 4.24
2761 4442 1.823899 CCCCCGTATTTGGAGCTGC 60.824 63.158 0.00 0.00 0.00 5.25
2762 4443 1.823899 GCCCCCGTATTTGGAGCTG 60.824 63.158 0.00 0.00 0.00 4.24
2763 4444 1.858739 TTGCCCCCGTATTTGGAGCT 61.859 55.000 0.00 0.00 0.00 4.09
2807 4488 8.082242 GCGAGGGCTATTACATTATCAATTTTT 58.918 33.333 0.00 0.00 35.83 1.94
2808 4489 7.230510 TGCGAGGGCTATTACATTATCAATTTT 59.769 33.333 0.00 0.00 40.82 1.82
2809 4490 6.714810 TGCGAGGGCTATTACATTATCAATTT 59.285 34.615 0.00 0.00 40.82 1.82
2810 4491 6.237901 TGCGAGGGCTATTACATTATCAATT 58.762 36.000 0.00 0.00 40.82 2.32
2811 4492 5.804639 TGCGAGGGCTATTACATTATCAAT 58.195 37.500 0.00 0.00 40.82 2.57
2812 4493 5.222079 TGCGAGGGCTATTACATTATCAA 57.778 39.130 0.00 0.00 40.82 2.57
2813 4494 4.882842 TGCGAGGGCTATTACATTATCA 57.117 40.909 0.00 0.00 40.82 2.15
2814 4495 6.554334 TTTTGCGAGGGCTATTACATTATC 57.446 37.500 0.00 0.00 40.82 1.75
2815 4496 6.952773 TTTTTGCGAGGGCTATTACATTAT 57.047 33.333 0.00 0.00 40.82 1.28
2889 4570 6.581712 AGTGGCAAAAGACAAAATTGTATGT 58.418 32.000 0.00 0.00 42.43 2.29
2939 4620 3.011708 AGGGGTGAACTCAATAAGGCAAT 59.988 43.478 0.00 0.00 0.00 3.56
2960 4641 1.933853 GGTATAGTGCGCTTTGTGGAG 59.066 52.381 9.73 0.00 0.00 3.86
2961 4642 1.553248 AGGTATAGTGCGCTTTGTGGA 59.447 47.619 9.73 0.00 0.00 4.02
3021 4702 0.663688 CCCCTATCGACGTGAGACAG 59.336 60.000 0.00 0.00 0.00 3.51
3032 4713 0.961358 CGTCCTCTAGCCCCCTATCG 60.961 65.000 0.00 0.00 0.00 2.92
3047 4728 1.065928 CGGTGCAGGAGATACGTCC 59.934 63.158 0.00 0.00 36.79 4.79
3057 4738 1.743252 GAAGAAGCTCCGGTGCAGG 60.743 63.158 28.68 4.26 34.99 4.85
3058 4739 2.097038 CGAAGAAGCTCCGGTGCAG 61.097 63.158 28.68 7.82 34.99 4.41
3064 4745 3.046280 GGTAACCGAAGAAGCTCCG 57.954 57.895 0.00 0.00 0.00 4.63
3129 4810 6.265196 AGGTTCATGTCTTTTCAATGCACTAA 59.735 34.615 0.00 0.00 0.00 2.24
3138 4819 6.770303 TGACAACATAGGTTCATGTCTTTTCA 59.230 34.615 11.00 0.00 38.19 2.69
3198 4896 6.379133 GGCCCATTATCATATTGATGTCACAT 59.621 38.462 0.00 0.00 37.70 3.21
3207 4905 9.865321 CTTTAGATTTGGCCCATTATCATATTG 57.135 33.333 0.00 0.00 0.00 1.90
3309 5007 9.313323 CACATAACATTAAAGTAAGTTGTCACG 57.687 33.333 0.00 0.00 0.00 4.35
3318 5016 7.757526 AGCGCATTCACATAACATTAAAGTAA 58.242 30.769 11.47 0.00 0.00 2.24
3351 5049 5.132897 TCCAAATGTTTGAAAAGATCCGG 57.867 39.130 7.04 0.00 40.55 5.14
3381 5079 2.035442 GGTGCACCGGAGCTTCTTC 61.035 63.158 22.49 9.59 34.99 2.87
3398 5122 2.158505 TCCCCCTAGAGAACGTATCTGG 60.159 54.545 12.26 9.57 38.96 3.86
3454 5178 5.278463 GGTGCTATGTTGTTTGAATGACACT 60.278 40.000 0.00 0.00 0.00 3.55
3564 5289 8.900983 TGTGTATGTTTATGAGCATAAGCATA 57.099 30.769 23.85 23.85 46.32 3.14
3613 5338 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
3617 5342 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
3623 5348 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
3624 5349 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
3625 5350 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
3626 5351 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
3627 5352 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
3628 5353 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
3629 5354 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
3630 5355 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
3631 5356 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
3632 5357 1.155889 AGTGTGTGTGTGTGTGTGTG 58.844 50.000 0.00 0.00 0.00 3.82
3633 5358 1.890876 AAGTGTGTGTGTGTGTGTGT 58.109 45.000 0.00 0.00 0.00 3.72
3634 5359 2.987413 AAAGTGTGTGTGTGTGTGTG 57.013 45.000 0.00 0.00 0.00 3.82
3635 5360 2.745281 GGTAAAGTGTGTGTGTGTGTGT 59.255 45.455 0.00 0.00 0.00 3.72
3636 5361 3.398954 GGTAAAGTGTGTGTGTGTGTG 57.601 47.619 0.00 0.00 0.00 3.82


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

AutoCloner maintained by Alex Coulton.