Multiple sequence alignment - TraesCS4B01G308200

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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 TraesCS4B01G308200 chr4B 100.000 4746 0 0 1 4746 598914960 598910215 0.000000e+00 8765.0
1 TraesCS4B01G308200 chr4B 96.202 1290 43 3 941 2227 599170615 599169329 0.000000e+00 2106.0
2 TraesCS4B01G308200 chr4B 94.786 1074 36 8 1 1054 598604309 598603236 0.000000e+00 1655.0
3 TraesCS4B01G308200 chr4B 94.664 937 44 5 1 932 599171601 599170666 0.000000e+00 1448.0
4 TraesCS4B01G308200 chr4B 88.400 1000 88 15 3744 4729 598599068 598598083 0.000000e+00 1179.0
5 TraesCS4B01G308200 chr4B 87.620 832 69 18 3910 4731 599149948 599149141 0.000000e+00 935.0
6 TraesCS4B01G308200 chr4B 85.932 789 80 16 1369 2139 598458866 598458091 0.000000e+00 813.0
7 TraesCS4B01G308200 chr4B 88.946 588 46 7 3340 3912 599168976 599168393 0.000000e+00 708.0
8 TraesCS4B01G308200 chr4B 97.970 394 8 0 1044 1437 598603090 598602697 0.000000e+00 684.0
9 TraesCS4B01G308200 chr4B 96.726 336 11 0 1892 2227 598602368 598602033 1.150000e-155 560.0
10 TraesCS4B01G308200 chr4B 97.264 329 8 1 1524 1852 598602700 598602373 1.490000e-154 556.0
11 TraesCS4B01G308200 chr4B 90.704 398 33 3 949 1342 598459257 598458860 1.170000e-145 527.0
12 TraesCS4B01G308200 chr4B 89.447 398 31 8 3340 3736 598601584 598601197 4.270000e-135 492.0
13 TraesCS4B01G308200 chr4B 74.860 895 126 53 3421 4291 598455701 598454882 9.910000e-82 315.0
14 TraesCS4B01G308200 chr4B 88.618 123 8 6 733 850 598459601 598459480 1.380000e-30 145.0
15 TraesCS4B01G308200 chr4D 94.335 2436 120 11 941 3372 474701387 474698966 0.000000e+00 3718.0
16 TraesCS4B01G308200 chr4D 95.326 1348 57 6 3402 4746 474698971 474697627 0.000000e+00 2135.0
17 TraesCS4B01G308200 chr4D 92.379 866 53 6 78 932 474702305 474701442 0.000000e+00 1221.0
18 TraesCS4B01G308200 chr4D 87.297 677 56 13 949 1620 474603215 474602564 0.000000e+00 747.0
19 TraesCS4B01G308200 chr4D 87.959 490 50 6 1658 2140 474602553 474602066 1.920000e-158 569.0
20 TraesCS4B01G308200 chr4D 76.721 915 151 35 3403 4288 474599447 474598566 2.010000e-123 453.0
21 TraesCS4B01G308200 chr4D 86.235 247 23 4 2493 2729 15916640 15916885 1.690000e-64 257.0
22 TraesCS4B01G308200 chr4D 87.727 220 20 6 637 850 474603614 474603396 2.840000e-62 250.0
23 TraesCS4B01G308200 chr4D 95.062 81 4 0 1 81 474702649 474702569 1.390000e-25 128.0
24 TraesCS4B01G308200 chr4A 90.507 1222 98 14 933 2140 681653096 681654313 0.000000e+00 1598.0
25 TraesCS4B01G308200 chr4A 89.568 1227 98 19 938 2140 681592965 681594185 0.000000e+00 1530.0
26 TraesCS4B01G308200 chr4A 93.939 429 19 5 505 932 681592495 681592917 4.000000e-180 641.0
27 TraesCS4B01G308200 chr4A 90.462 325 28 3 1 324 681592159 681592481 4.390000e-115 425.0
28 TraesCS4B01G308200 chr4A 76.419 793 131 39 3413 4181 681658490 681659250 1.250000e-100 377.0
29 TraesCS4B01G308200 chr4A 74.212 857 119 43 3422 4253 681610666 681611445 1.010000e-66 265.0
30 TraesCS4B01G308200 chr4A 83.618 293 35 9 2151 2440 681658122 681658404 3.640000e-66 263.0
31 TraesCS4B01G308200 chr4A 86.939 245 5 10 688 932 681652845 681653062 2.840000e-62 250.0
32 TraesCS4B01G308200 chr4A 87.778 90 8 2 3 92 681651907 681651993 8.400000e-18 102.0
33 TraesCS4B01G308200 chr4A 85.106 94 9 3 568 660 681652757 681652846 1.820000e-14 91.6
34 TraesCS4B01G308200 chr5B 87.977 341 33 5 90 427 229823157 229822822 3.440000e-106 396.0
35 TraesCS4B01G308200 chr5B 87.390 341 35 5 90 427 229891625 229891290 7.450000e-103 385.0
36 TraesCS4B01G308200 chr6B 87.500 344 34 5 88 427 84861319 84860981 5.760000e-104 388.0
37 TraesCS4B01G308200 chr6B 87.316 339 35 5 93 428 526777437 526777104 9.640000e-102 381.0
38 TraesCS4B01G308200 chr1B 86.819 349 36 6 84 427 97326585 97326928 9.640000e-102 381.0
39 TraesCS4B01G308200 chr3B 78.710 620 84 26 994 1603 13731873 13732454 2.090000e-98 370.0
40 TraesCS4B01G308200 chr3D 82.452 416 60 9 1697 2104 5175705 5175295 7.560000e-93 351.0
41 TraesCS4B01G308200 chr3D 79.128 436 64 17 1171 1603 9543511 9543922 4.680000e-70 276.0
42 TraesCS4B01G308200 chr3D 86.364 88 9 2 3649 3736 9545549 9545633 5.060000e-15 93.5
43 TraesCS4B01G308200 chr3A 77.153 569 78 27 1043 1603 11677472 11676948 2.800000e-72 283.0
44 TraesCS4B01G308200 chr3A 76.761 568 82 25 1043 1603 11704918 11704394 6.050000e-69 272.0
45 TraesCS4B01G308200 chr3A 86.555 238 26 3 1869 2103 11704121 11703887 1.690000e-64 257.0
46 TraesCS4B01G308200 chr3A 84.112 107 14 2 3639 3745 11702784 11702681 3.020000e-17 100.0
47 TraesCS4B01G308200 chr3A 83.962 106 14 1 3640 3745 11675333 11675231 1.090000e-16 99.0
48 TraesCS4B01G308200 chr7A 86.000 100 13 1 1 100 634399663 634399565 6.500000e-19 106.0
49 TraesCS4B01G308200 chr7A 85.106 94 8 5 1 92 721109722 721109633 1.820000e-14 91.6
50 TraesCS4B01G308200 chrUn 83.158 95 14 2 2 96 19194652 19194744 8.460000e-13 86.1
51 TraesCS4B01G308200 chr2D 83.696 92 13 2 1 92 627930530 627930619 8.460000e-13 86.1


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 TraesCS4B01G308200 chr4B 598910215 598914960 4745 True 8765.000000 8765 100.000000 1 4746 1 chr4B.!!$R1 4745
1 TraesCS4B01G308200 chr4B 599168393 599171601 3208 True 1420.666667 2106 93.270667 1 3912 3 chr4B.!!$R5 3911
2 TraesCS4B01G308200 chr4B 599149141 599149948 807 True 935.000000 935 87.620000 3910 4731 1 chr4B.!!$R2 821
3 TraesCS4B01G308200 chr4B 598598083 598604309 6226 True 854.333333 1655 94.098833 1 4729 6 chr4B.!!$R4 4728
4 TraesCS4B01G308200 chr4B 598454882 598459601 4719 True 450.000000 813 85.028500 733 4291 4 chr4B.!!$R3 3558
5 TraesCS4B01G308200 chr4D 474697627 474702649 5022 True 1800.500000 3718 94.275500 1 4746 4 chr4D.!!$R2 4745
6 TraesCS4B01G308200 chr4D 474598566 474603614 5048 True 504.750000 747 84.926000 637 4288 4 chr4D.!!$R1 3651
7 TraesCS4B01G308200 chr4A 681592159 681594185 2026 False 865.333333 1530 91.323000 1 2140 3 chr4A.!!$F2 2139
8 TraesCS4B01G308200 chr4A 681651907 681659250 7343 False 446.933333 1598 85.061167 3 4181 6 chr4A.!!$F3 4178
9 TraesCS4B01G308200 chr4A 681610666 681611445 779 False 265.000000 265 74.212000 3422 4253 1 chr4A.!!$F1 831
10 TraesCS4B01G308200 chr3B 13731873 13732454 581 False 370.000000 370 78.710000 994 1603 1 chr3B.!!$F1 609
11 TraesCS4B01G308200 chr3A 11702681 11704918 2237 True 209.666667 272 82.476000 1043 3745 3 chr3A.!!$R2 2702

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
380 656 5.304101 AGAAATGCACCTTACATTGTGGAAA 59.696 36.000 0.0 0.0 37.78 3.13 F
1008 2051 3.084039 ACCATTTGTCTCGATGTTGCAT 58.916 40.909 0.0 0.0 0.00 3.96 F
2537 8249 0.941542 TTTCGTTTGGCTTCGTCCAG 59.058 50.000 0.0 0.0 37.44 3.86 F
2990 8702 0.167470 CAGTGCTTCGCCATTCACAG 59.833 55.000 0.0 0.0 32.25 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1234 2439 0.179000 GTGATGATTCCTCCACCGCT 59.821 55.000 0.0 0.0 0.0 5.52 R
2781 8493 0.034896 ATCGCCGACCACAAAGTTCT 59.965 50.000 0.0 0.0 0.0 3.01 R
3645 9999 1.225704 CCCTCCTCCACCTGAATGC 59.774 63.158 0.0 0.0 0.0 3.56 R
4379 12881 1.550327 CAAGCCTTTTCCTCCTTCCC 58.450 55.000 0.0 0.0 0.0 3.97 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
73 74 5.806955 ATTTGGGGTTATCTGGTTAGGAA 57.193 39.130 0.00 0.00 0.00 3.36
199 469 9.927668 ATTACCCTTGTCAAATTTGTTGATTAG 57.072 29.630 17.47 7.90 0.00 1.73
201 471 7.433680 ACCCTTGTCAAATTTGTTGATTAGTC 58.566 34.615 17.47 0.81 0.00 2.59
253 527 6.628644 AAGAGATATAGGCAATTAGGGGAC 57.371 41.667 0.00 0.00 0.00 4.46
264 538 6.332901 AGGCAATTAGGGGACATATACTTTCT 59.667 38.462 0.00 0.00 0.00 2.52
380 656 5.304101 AGAAATGCACCTTACATTGTGGAAA 59.696 36.000 0.00 0.00 37.78 3.13
511 795 5.858381 ACCTTATCGATCATTGTACATGCT 58.142 37.500 0.00 0.00 0.00 3.79
939 1958 7.016170 AGGCCAGGTTCTAACATAAAAACAATT 59.984 33.333 5.01 0.00 0.00 2.32
1008 2051 3.084039 ACCATTTGTCTCGATGTTGCAT 58.916 40.909 0.00 0.00 0.00 3.96
1651 2968 9.482175 ACTCTTTCTACATTTCATAGTACTCCT 57.518 33.333 0.00 0.00 0.00 3.69
1821 3186 2.597805 AGACCGTGGTGCTCGTCT 60.598 61.111 0.00 0.00 0.00 4.18
2243 7918 6.972901 TGCAAAGTATTACAGATAGTGAGACG 59.027 38.462 0.00 0.00 33.62 4.18
2273 7948 7.080353 ACGATTAAGTATAGCAACCCAAAAC 57.920 36.000 0.00 0.00 0.00 2.43
2384 8078 9.479549 TTGCTCCTATCCAAAATCTATTTTCTT 57.520 29.630 0.00 0.00 37.86 2.52
2402 8114 4.002906 TCTTAGACATGGCACGTTCTTT 57.997 40.909 0.00 0.00 0.00 2.52
2413 8125 3.492313 GCACGTTCTTTAAGATGGCAAG 58.508 45.455 0.00 0.00 0.00 4.01
2433 8145 5.682990 GCAAGATGACCACCAATTTATGCAT 60.683 40.000 3.79 3.79 0.00 3.96
2441 8153 8.922237 TGACCACCAATTTATGCATAAACATAT 58.078 29.630 29.32 14.25 35.31 1.78
2447 8159 9.761504 CCAATTTATGCATAAACATATGTTCCA 57.238 29.630 29.32 15.18 37.25 3.53
2496 8208 4.278956 CGGTTCTCTCCCGGTTTG 57.721 61.111 0.00 0.00 41.78 2.93
2533 8245 1.385528 AGGTTTTCGTTTGGCTTCGT 58.614 45.000 0.00 0.00 0.00 3.85
2537 8249 0.941542 TTTCGTTTGGCTTCGTCCAG 59.058 50.000 0.00 0.00 37.44 3.86
2542 8254 1.990160 TTTGGCTTCGTCCAGGTGGT 61.990 55.000 0.00 0.00 37.44 4.16
2591 8303 1.002544 CCTCAACTCTGGTTCCTCCAC 59.997 57.143 0.00 0.00 41.93 4.02
2592 8304 1.002544 CTCAACTCTGGTTCCTCCACC 59.997 57.143 0.00 0.00 41.93 4.61
2621 8333 2.250921 TTATGGAGTTGGGGGACGTA 57.749 50.000 0.00 0.00 0.00 3.57
2649 8361 1.878656 AAGTCTCCTTGGAGCGACGG 61.879 60.000 11.61 0.00 0.00 4.79
2679 8391 2.435938 GTGGGCGAGATTGGCGAA 60.436 61.111 0.00 0.00 34.76 4.70
2687 8399 0.953960 GAGATTGGCGAAACGGTGGT 60.954 55.000 0.00 0.00 0.00 4.16
2688 8400 1.209127 GATTGGCGAAACGGTGGTG 59.791 57.895 0.00 0.00 0.00 4.17
2714 8426 2.159071 TCTCGTCGTTCCCTTTTGTTCA 60.159 45.455 0.00 0.00 0.00 3.18
2717 8429 2.018515 GTCGTTCCCTTTTGTTCACCA 58.981 47.619 0.00 0.00 0.00 4.17
2728 8440 2.479566 TGTTCACCAGCTTCTCCATC 57.520 50.000 0.00 0.00 0.00 3.51
2781 8493 2.232941 GTGGTCGAGGGATCTTGTACAA 59.767 50.000 8.28 8.28 0.00 2.41
2795 8507 4.569162 TCTTGTACAAGAACTTTGTGGTCG 59.431 41.667 31.26 5.71 43.79 4.79
2816 8528 2.126071 ATGGTCGTCTTCGTGGCG 60.126 61.111 0.00 0.00 46.47 5.69
2823 8535 1.586564 GTCTTCGTGGCGATCTCGG 60.587 63.158 1.34 0.00 40.23 4.63
2854 8566 0.535102 AGGTTTGGTTCTCCAGTGCG 60.535 55.000 0.00 0.00 45.22 5.34
2917 8629 2.573915 GACTTCCTTGGATGGAGGAACT 59.426 50.000 1.61 0.00 45.81 3.01
2924 8636 0.393537 GGATGGAGGAACTGGTGCTG 60.394 60.000 0.00 0.00 41.55 4.41
2938 8650 2.274760 GCTGGGGCTGAGAAGCAT 59.725 61.111 0.00 0.00 35.69 3.79
2959 8671 1.227060 GGATTTACCCCGGTCGACG 60.227 63.158 9.92 4.95 43.80 5.12
2961 8673 3.704908 ATTTACCCCGGTCGACGCG 62.705 63.158 9.92 13.83 42.52 6.01
2983 8695 2.243957 CGTGAACAGTGCTTCGCCA 61.244 57.895 11.08 0.00 0.00 5.69
2990 8702 0.167470 CAGTGCTTCGCCATTCACAG 59.833 55.000 0.00 0.00 32.25 3.66
3004 8716 0.745486 TCACAGCGGGCATCTTCATG 60.745 55.000 0.00 0.00 0.00 3.07
3013 8725 1.386533 GCATCTTCATGGACCCACAG 58.613 55.000 0.00 0.00 0.00 3.66
3040 8752 2.961669 GCGGCGATGGTTTGTTCGT 61.962 57.895 12.98 0.00 37.66 3.85
3055 8767 5.779529 TTGTTCGTAGTTTCTAGGACTGT 57.220 39.130 9.19 0.00 0.00 3.55
3076 8788 2.610859 GGCCCCTGTCTTCCTCCA 60.611 66.667 0.00 0.00 0.00 3.86
3085 8797 1.271543 TGTCTTCCTCCAATGGCTGTG 60.272 52.381 0.00 0.00 0.00 3.66
3087 8799 1.003580 TCTTCCTCCAATGGCTGTGTC 59.996 52.381 0.00 0.00 0.00 3.67
3088 8800 0.770499 TTCCTCCAATGGCTGTGTCA 59.230 50.000 0.00 0.00 0.00 3.58
3141 8853 1.301401 TTTGCAGAGACGTTCCCCG 60.301 57.895 0.00 0.00 44.03 5.73
3160 8872 2.675844 CCGAGGACGTGATTGCATTTTA 59.324 45.455 0.00 0.00 37.88 1.52
3177 8889 5.656859 GCATTTTATCCTTTTAGTGGGGACT 59.343 40.000 0.00 0.00 31.48 3.85
3180 8892 7.770366 TTTTATCCTTTTAGTGGGGACTTTC 57.230 36.000 0.00 0.00 31.48 2.62
3196 8908 4.127171 GACTTTCTTGCAGTTGTACTGGA 58.873 43.478 8.73 3.03 46.01 3.86
3216 8928 0.322816 ACACCTACTCTCGCGGGTTA 60.323 55.000 5.57 0.00 0.00 2.85
3229 8941 2.094734 CGCGGGTTATGTTGTAGTTTCC 59.905 50.000 0.00 0.00 0.00 3.13
3259 8971 3.651803 CCATGTTTGGCCTCGTTTTTA 57.348 42.857 3.32 0.00 35.85 1.52
3261 8973 3.987220 CCATGTTTGGCCTCGTTTTTAAG 59.013 43.478 3.32 0.00 35.85 1.85
3280 8993 2.693069 AGGAACATGCAGAAGACTTCG 58.307 47.619 9.53 6.18 34.02 3.79
3281 8994 1.129437 GGAACATGCAGAAGACTTCGC 59.871 52.381 18.85 18.85 34.02 4.70
3283 8996 1.436600 ACATGCAGAAGACTTCGCAG 58.563 50.000 26.68 22.03 40.48 5.18
3284 8997 1.001293 ACATGCAGAAGACTTCGCAGA 59.999 47.619 26.68 13.69 40.48 4.26
3285 8998 1.659601 CATGCAGAAGACTTCGCAGAG 59.340 52.381 26.68 20.88 40.48 3.35
3290 9003 3.248602 GCAGAAGACTTCGCAGAGAAAAA 59.751 43.478 20.02 0.00 38.57 1.94
3299 9012 1.657538 CGCAGAGAAAAAGCACACGTC 60.658 52.381 0.00 0.00 0.00 4.34
3301 9014 1.070577 CAGAGAAAAAGCACACGTCGG 60.071 52.381 0.00 0.00 0.00 4.79
3514 9842 3.008923 TGTGGTGGTAAGCATCAATCTCA 59.991 43.478 0.00 0.00 35.94 3.27
3629 9983 7.486407 AGGGCTATGACTTCAAATTTTCATT 57.514 32.000 8.08 0.00 31.20 2.57
3767 12245 4.455606 AGACTGGAGAAACAAGAAACTGG 58.544 43.478 0.00 0.00 0.00 4.00
3770 12248 4.884164 ACTGGAGAAACAAGAAACTGGAAG 59.116 41.667 0.00 0.00 42.29 3.46
3842 12323 4.322539 CGTACGTACATATATGCGTGCAAT 59.677 41.667 24.50 5.33 39.27 3.56
3980 12467 9.892130 AGAACTATATATAGGCTACAAAATGGC 57.108 33.333 21.20 0.00 34.69 4.40
4102 12589 5.126869 TGAGCTTTTTGATTGGTTCACTTCA 59.873 36.000 0.00 0.00 32.84 3.02
4224 12718 3.491267 GTGTAGTCTCTTGCGATAATGGC 59.509 47.826 0.00 0.00 0.00 4.40
4257 12754 2.047274 CGAAGGGCGTGGTGATGT 60.047 61.111 0.00 0.00 34.64 3.06
4258 12755 1.671054 CGAAGGGCGTGGTGATGTT 60.671 57.895 0.00 0.00 34.64 2.71
4323 12823 2.957491 TTGAGTTTGTGCCACTTTGG 57.043 45.000 0.00 0.00 41.55 3.28
4682 13189 0.042131 AGGTCGATACACCCCCTTCA 59.958 55.000 0.00 0.00 37.09 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
199 469 3.933332 AGCCTAACTGATTTACTTGCGAC 59.067 43.478 0.00 0.00 0.00 5.19
201 471 4.946784 AAGCCTAACTGATTTACTTGCG 57.053 40.909 0.00 0.00 0.00 4.85
412 694 2.976356 GGTTACTCCCGCCGTTCT 59.024 61.111 0.00 0.00 0.00 3.01
511 795 2.963101 AGCTAAGTGCCGGTACATATGA 59.037 45.455 25.19 3.84 44.23 2.15
939 1958 5.651139 ACCGCAGAACTAATCAGAACTAGTA 59.349 40.000 0.00 0.00 0.00 1.82
1234 2439 0.179000 GTGATGATTCCTCCACCGCT 59.821 55.000 0.00 0.00 0.00 5.52
1540 2844 0.539051 CGCTGGTTGATCTTCTCCCT 59.461 55.000 0.00 0.00 0.00 4.20
1649 2966 7.166473 GCAAATCGATTAAGCATTTACTGAAGG 59.834 37.037 23.07 0.00 0.00 3.46
1650 2967 7.912250 AGCAAATCGATTAAGCATTTACTGAAG 59.088 33.333 27.12 0.00 0.00 3.02
1651 2968 7.761409 AGCAAATCGATTAAGCATTTACTGAA 58.239 30.769 27.12 0.00 0.00 3.02
1853 3221 2.933287 AACCCCGGACATGCCTCA 60.933 61.111 0.73 0.00 0.00 3.86
1859 3227 1.614241 CCGAGAAGAACCCCGGACAT 61.614 60.000 0.73 0.00 44.29 3.06
2059 3434 3.369681 GGTGGTAATAATCACGGTGGACA 60.370 47.826 8.50 0.00 34.93 4.02
2243 7918 7.707893 TGGGTTGCTATACTTAATCGTTACTTC 59.292 37.037 0.00 0.00 0.00 3.01
2258 7933 4.668138 AGGAAGGTTTTGGGTTGCTATA 57.332 40.909 0.00 0.00 0.00 1.31
2259 7934 3.542969 AGGAAGGTTTTGGGTTGCTAT 57.457 42.857 0.00 0.00 0.00 2.97
2384 8078 5.142061 TCTTAAAGAACGTGCCATGTCTA 57.858 39.130 0.00 0.00 0.00 2.59
2402 8114 2.575735 TGGTGGTCATCTTGCCATCTTA 59.424 45.455 0.00 0.00 36.84 2.10
2413 8125 7.264221 TGTTTATGCATAAATTGGTGGTCATC 58.736 34.615 29.36 15.22 35.02 2.92
2441 8153 3.664025 CTGCCGGAGCGATGGAACA 62.664 63.158 5.05 0.00 44.07 3.18
2496 8208 6.728089 AAACCTAACCCTACAGCTATCTAC 57.272 41.667 0.00 0.00 0.00 2.59
2542 8254 4.357947 GACACTGCTCCGACGCCA 62.358 66.667 0.00 0.00 0.00 5.69
2547 8259 3.197766 AGATTTATTGGACACTGCTCCGA 59.802 43.478 0.00 0.00 32.22 4.55
2591 8303 2.203139 TCCATAATGCCACCGCGG 60.203 61.111 26.86 26.86 38.08 6.46
2592 8304 1.095228 AACTCCATAATGCCACCGCG 61.095 55.000 0.00 0.00 38.08 6.46
2601 8313 1.591768 ACGTCCCCCAACTCCATAAT 58.408 50.000 0.00 0.00 0.00 1.28
2649 8361 1.527370 GCCCACCCACACTAGATCC 59.473 63.158 0.00 0.00 0.00 3.36
2679 8391 0.391597 ACGAGATCAACACCACCGTT 59.608 50.000 0.00 0.00 0.00 4.44
2687 8399 1.254026 AGGGAACGACGAGATCAACA 58.746 50.000 0.00 0.00 0.00 3.33
2688 8400 2.365408 AAGGGAACGACGAGATCAAC 57.635 50.000 0.00 0.00 0.00 3.18
2714 8426 1.965754 GAGCCGATGGAGAAGCTGGT 61.966 60.000 0.00 0.00 35.23 4.00
2717 8429 2.790791 CCGAGCCGATGGAGAAGCT 61.791 63.158 0.00 0.00 38.56 3.74
2744 8456 1.153823 CACTCGTAGGCGTTGGAGG 60.154 63.158 10.05 0.00 39.49 4.30
2751 8463 2.403987 CTCGACCACTCGTAGGCG 59.596 66.667 0.00 0.00 41.02 5.52
2767 8479 5.765182 CACAAAGTTCTTGTACAAGATCCCT 59.235 40.000 33.02 25.34 45.78 4.20
2781 8493 0.034896 ATCGCCGACCACAAAGTTCT 59.965 50.000 0.00 0.00 0.00 3.01
2784 8496 1.671054 CCATCGCCGACCACAAAGT 60.671 57.895 0.00 0.00 0.00 2.66
2795 8507 2.158959 CACGAAGACGACCATCGCC 61.159 63.158 9.77 0.00 45.12 5.54
2823 8535 2.282745 AAACCTCTGGCCAGCTGC 60.283 61.111 28.91 3.68 40.16 5.25
2824 8536 1.975407 CCAAACCTCTGGCCAGCTG 60.975 63.158 28.91 22.10 0.00 4.24
2825 8537 2.011617 AACCAAACCTCTGGCCAGCT 62.012 55.000 28.91 9.78 40.45 4.24
2832 8544 2.498167 CACTGGAGAACCAAACCTCTG 58.502 52.381 0.00 0.00 46.32 3.35
2917 8629 2.853542 TTCTCAGCCCCAGCACCA 60.854 61.111 0.00 0.00 43.56 4.17
2924 8636 2.123982 CCCATGCTTCTCAGCCCC 60.124 66.667 0.00 0.00 46.74 5.80
2961 8673 3.579626 GAAGCACTGTTCACGCGGC 62.580 63.158 12.47 0.36 0.00 6.53
2962 8674 2.551270 GAAGCACTGTTCACGCGG 59.449 61.111 12.47 0.00 0.00 6.46
2963 8675 2.168621 CGAAGCACTGTTCACGCG 59.831 61.111 3.53 3.53 0.00 6.01
2983 8695 0.035152 TGAAGATGCCCGCTGTGAAT 60.035 50.000 0.00 0.00 0.00 2.57
2990 8702 2.189499 GGTCCATGAAGATGCCCGC 61.189 63.158 0.00 0.00 0.00 6.13
3004 8716 1.966451 CAAACGGCTCTGTGGGTCC 60.966 63.158 0.00 0.00 0.00 4.46
3033 8745 5.508489 CCACAGTCCTAGAAACTACGAACAA 60.508 44.000 0.00 0.00 0.00 2.83
3040 8752 3.097614 GCCTCCACAGTCCTAGAAACTA 58.902 50.000 0.00 0.00 0.00 2.24
3055 8767 2.610859 GGAAGACAGGGGCCTCCA 60.611 66.667 0.00 0.00 38.24 3.86
3076 8788 1.167851 CCATCGTTGACACAGCCATT 58.832 50.000 0.00 0.00 0.00 3.16
3085 8797 2.388232 GGACACCGCCATCGTTGAC 61.388 63.158 0.00 0.00 32.20 3.18
3087 8799 2.358125 TGGACACCGCCATCGTTG 60.358 61.111 0.00 0.00 34.11 4.10
3088 8800 2.047274 CTGGACACCGCCATCGTT 60.047 61.111 0.00 0.00 37.30 3.85
3114 8826 1.305201 GTCTCTGCAAACCAACCGAA 58.695 50.000 0.00 0.00 0.00 4.30
3141 8853 4.576463 AGGATAAAATGCAATCACGTCCTC 59.424 41.667 0.00 0.00 0.00 3.71
3160 8872 5.325239 CAAGAAAGTCCCCACTAAAAGGAT 58.675 41.667 0.00 0.00 30.14 3.24
3177 8889 4.095782 GTGTTCCAGTACAACTGCAAGAAA 59.904 41.667 1.43 0.00 44.63 2.52
3180 8892 2.290641 GGTGTTCCAGTACAACTGCAAG 59.709 50.000 1.43 0.00 44.63 4.01
3196 8908 1.183676 AACCCGCGAGAGTAGGTGTT 61.184 55.000 8.23 0.00 38.39 3.32
3199 8911 1.030457 CATAACCCGCGAGAGTAGGT 58.970 55.000 8.23 1.03 39.77 3.08
3200 8912 1.030457 ACATAACCCGCGAGAGTAGG 58.970 55.000 8.23 0.20 0.00 3.18
3216 8928 4.153475 GCATACACACGGAAACTACAACAT 59.847 41.667 0.00 0.00 0.00 2.71
3229 8941 2.261037 CCAAACATGGCATACACACG 57.739 50.000 0.00 0.00 0.00 4.49
3259 8971 3.070018 CGAAGTCTTCTGCATGTTCCTT 58.930 45.455 10.81 0.00 0.00 3.36
3261 8973 1.129437 GCGAAGTCTTCTGCATGTTCC 59.871 52.381 18.41 0.00 32.28 3.62
3280 8993 1.657538 CGACGTGTGCTTTTTCTCTGC 60.658 52.381 0.00 0.00 0.00 4.26
3281 8994 1.070577 CCGACGTGTGCTTTTTCTCTG 60.071 52.381 0.00 0.00 0.00 3.35
3283 8996 0.384353 GCCGACGTGTGCTTTTTCTC 60.384 55.000 0.00 0.00 0.00 2.87
3284 8997 0.814010 AGCCGACGTGTGCTTTTTCT 60.814 50.000 0.00 0.00 32.94 2.52
3285 8998 0.863144 TAGCCGACGTGTGCTTTTTC 59.137 50.000 13.05 0.00 39.00 2.29
3290 9003 0.528924 TATGTTAGCCGACGTGTGCT 59.471 50.000 12.51 12.51 41.57 4.40
3299 9012 7.487829 AGTGCATAATTGTTTTTATGTTAGCCG 59.512 33.333 0.00 0.00 40.27 5.52
3384 9692 7.847096 ACTAATATTTTCCCCGCAAAAAGATT 58.153 30.769 0.00 10.61 39.50 2.40
3514 9842 9.762933 ACAATGTTTTATGTTGTTGCTCTAAAT 57.237 25.926 0.00 0.00 32.53 1.40
3629 9983 8.461222 CACCTGAATGCTAAAGTCAATAAATCA 58.539 33.333 0.00 0.00 0.00 2.57
3636 9990 4.326826 CTCCACCTGAATGCTAAAGTCAA 58.673 43.478 0.00 0.00 0.00 3.18
3645 9999 1.225704 CCCTCCTCCACCTGAATGC 59.774 63.158 0.00 0.00 0.00 3.56
3770 12248 7.183360 ATTGTATACAAAGCCGTAGTTAGGCC 61.183 42.308 21.57 0.00 45.52 5.19
3842 12323 2.358582 CCGCTGCATCAATTAATGGTCA 59.641 45.455 0.00 0.00 0.00 4.02
4010 12497 5.379187 TGATAATGAATGACCACCATCCTG 58.621 41.667 0.00 0.00 33.53 3.86
4078 12565 5.126869 TGAAGTGAACCAATCAAAAAGCTCA 59.873 36.000 0.00 0.00 40.50 4.26
4079 12566 5.591099 TGAAGTGAACCAATCAAAAAGCTC 58.409 37.500 0.00 0.00 40.50 4.09
4102 12589 9.182214 GCCATGATCTAATGACCATAACATAAT 57.818 33.333 0.00 0.00 0.00 1.28
4379 12881 1.550327 CAAGCCTTTTCCTCCTTCCC 58.450 55.000 0.00 0.00 0.00 3.97
4527 13030 5.009610 GCATGGAAAATAATGGTCGTGGTAT 59.990 40.000 0.00 0.00 0.00 2.73
4665 13172 2.773993 TTTGAAGGGGGTGTATCGAC 57.226 50.000 0.00 0.00 0.00 4.20
4689 13201 8.225107 CCATCAAAATTTGCATAGAAAGTTGTG 58.775 33.333 0.00 0.00 0.00 3.33


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

AutoCloner maintained by Alex Coulton.