Multiple sequence alignment - TraesCS2B01G304700

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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 TraesCS2B01G304700 chr2B 100.000 4002 0 0 1 4002 434010947 434006946 0.000000e+00 7391.0
1 TraesCS2B01G304700 chr2B 95.418 1964 87 3 2039 4002 84657401 84659361 0.000000e+00 3125.0
2 TraesCS2B01G304700 chr2B 86.575 581 74 3 14 593 434010349 434009772 4.360000e-179 638.0
3 TraesCS2B01G304700 chr2B 86.575 581 74 3 599 1176 434010934 434010355 4.360000e-179 638.0
4 TraesCS2B01G304700 chr7B 95.825 1964 77 3 2039 4002 524570947 524568989 0.000000e+00 3168.0
5 TraesCS2B01G304700 chr6B 95.672 1964 83 2 2039 4002 172649230 172647269 0.000000e+00 3155.0
6 TraesCS2B01G304700 chr6B 95.672 1964 79 5 2039 4002 68602015 68603972 0.000000e+00 3151.0
7 TraesCS2B01G304700 chr6B 91.293 379 32 1 599 976 369765609 369765231 2.130000e-142 516.0
8 TraesCS2B01G304700 chr6B 86.667 360 30 6 992 1341 369765246 369764895 2.260000e-102 383.0
9 TraesCS2B01G304700 chr6B 79.630 216 26 7 1350 1552 369764919 369764709 5.390000e-29 139.0
10 TraesCS2B01G304700 chr5B 95.674 1965 78 6 2039 4002 48112225 48114183 0.000000e+00 3151.0
11 TraesCS2B01G304700 chr4B 95.506 1958 84 4 2045 4002 116187628 116185675 0.000000e+00 3125.0
12 TraesCS2B01G304700 chr4B 94.761 1966 95 8 2039 4002 598817011 598815052 0.000000e+00 3053.0
13 TraesCS2B01G304700 chr1B 95.221 1967 80 10 2039 3999 162046724 162044766 0.000000e+00 3099.0
14 TraesCS2B01G304700 chr3B 94.959 1964 93 6 2039 4002 815792752 815790795 0.000000e+00 3073.0
15 TraesCS2B01G304700 chr3B 90.179 112 9 2 3892 4002 517213731 517213621 1.160000e-30 145.0
16 TraesCS2B01G304700 chr7A 92.916 1341 85 7 2 1341 365462737 365464068 0.000000e+00 1941.0
17 TraesCS2B01G304700 chr7A 85.424 590 77 6 11 597 365463327 365463910 4.420000e-169 604.0
18 TraesCS2B01G304700 chr7A 87.619 210 15 3 1350 1549 365464045 365464253 2.400000e-57 233.0
19 TraesCS2B01G304700 chr1D 96.117 927 34 2 416 1341 143598582 143597657 0.000000e+00 1511.0
20 TraesCS2B01G304700 chr1D 90.563 710 52 7 1340 2041 143597691 143596989 0.000000e+00 926.0
21 TraesCS2B01G304700 chr1D 89.845 709 59 5 1340 2040 147713493 147714196 0.000000e+00 898.0
22 TraesCS2B01G304700 chr1D 97.136 419 12 0 2 420 143601496 143601078 0.000000e+00 708.0
23 TraesCS2B01G304700 chr1D 86.689 586 72 4 14 597 143598399 143597818 0.000000e+00 645.0
24 TraesCS2B01G304700 chr1D 87.931 406 46 2 599 1001 143601484 143601079 3.620000e-130 475.0
25 TraesCS2B01G304700 chr1D 92.308 286 22 0 1056 1341 147713242 147713527 1.340000e-109 407.0
26 TraesCS2B01G304700 chr5A 87.807 1099 94 22 2 1099 188371391 188370332 0.000000e+00 1251.0
27 TraesCS2B01G304700 chr5A 81.710 503 74 10 14 514 188370820 188370334 1.730000e-108 403.0
28 TraesCS2B01G304700 chr5A 79.690 581 88 15 599 1176 188371379 188370826 3.750000e-105 392.0
29 TraesCS2B01G304700 chr4D 94.928 552 26 2 791 1341 389363597 389364147 0.000000e+00 863.0
30 TraesCS2B01G304700 chr4D 95.736 516 21 1 282 796 389341226 389341741 0.000000e+00 830.0
31 TraesCS2B01G304700 chr4D 92.604 338 18 3 1708 2042 389364526 389364859 2.800000e-131 479.0
32 TraesCS2B01G304700 chr4D 89.600 375 39 0 1414 1788 389364153 389364527 1.010000e-130 477.0
33 TraesCS2B01G304700 chr4D 83.591 323 48 5 853 1173 389341215 389341534 8.410000e-77 298.0
34 TraesCS2B01G304700 chr4D 90.000 200 18 2 14 212 389341543 389341741 1.430000e-64 257.0
35 TraesCS2B01G304700 chr4D 93.478 46 3 0 1340 1385 389364113 389364158 7.180000e-08 69.4
36 TraesCS2B01G304700 chr1A 88.791 455 43 6 599 1051 379500912 379501360 5.850000e-153 551.0
37 TraesCS2B01G304700 chr1A 83.084 467 71 6 3 468 379500901 379501360 6.190000e-113 418.0
38 TraesCS2B01G304700 chr1A 84.656 189 23 3 1572 1760 378737640 378737458 2.460000e-42 183.0
39 TraesCS2B01G304700 chr1A 100.000 28 0 0 1305 1332 379501376 379501403 7.000000e-03 52.8
40 TraesCS2B01G304700 chr6D 85.000 100 13 2 1949 2046 242496913 242496814 2.540000e-17 100.0
41 TraesCS2B01G304700 chr6D 85.567 97 12 2 1946 2040 261147458 261147554 2.540000e-17 100.0
42 TraesCS2B01G304700 chr6D 84.536 97 13 2 1945 2040 111945454 111945359 1.180000e-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 TraesCS2B01G304700 chr2B 434006946 434010947 4001 True 2889.000000 7391 91.050000 1 4002 3 chr2B.!!$R1 4001
1 TraesCS2B01G304700 chr2B 84657401 84659361 1960 False 3125.000000 3125 95.418000 2039 4002 1 chr2B.!!$F1 1963
2 TraesCS2B01G304700 chr7B 524568989 524570947 1958 True 3168.000000 3168 95.825000 2039 4002 1 chr7B.!!$R1 1963
3 TraesCS2B01G304700 chr6B 172647269 172649230 1961 True 3155.000000 3155 95.672000 2039 4002 1 chr6B.!!$R1 1963
4 TraesCS2B01G304700 chr6B 68602015 68603972 1957 False 3151.000000 3151 95.672000 2039 4002 1 chr6B.!!$F1 1963
5 TraesCS2B01G304700 chr6B 369764709 369765609 900 True 346.000000 516 85.863333 599 1552 3 chr6B.!!$R2 953
6 TraesCS2B01G304700 chr5B 48112225 48114183 1958 False 3151.000000 3151 95.674000 2039 4002 1 chr5B.!!$F1 1963
7 TraesCS2B01G304700 chr4B 116185675 116187628 1953 True 3125.000000 3125 95.506000 2045 4002 1 chr4B.!!$R1 1957
8 TraesCS2B01G304700 chr4B 598815052 598817011 1959 True 3053.000000 3053 94.761000 2039 4002 1 chr4B.!!$R2 1963
9 TraesCS2B01G304700 chr1B 162044766 162046724 1958 True 3099.000000 3099 95.221000 2039 3999 1 chr1B.!!$R1 1960
10 TraesCS2B01G304700 chr3B 815790795 815792752 1957 True 3073.000000 3073 94.959000 2039 4002 1 chr3B.!!$R2 1963
11 TraesCS2B01G304700 chr7A 365462737 365464253 1516 False 926.000000 1941 88.653000 2 1549 3 chr7A.!!$F1 1547
12 TraesCS2B01G304700 chr1D 143596989 143601496 4507 True 853.000000 1511 91.687200 2 2041 5 chr1D.!!$R1 2039
13 TraesCS2B01G304700 chr1D 147713242 147714196 954 False 652.500000 898 91.076500 1056 2040 2 chr1D.!!$F1 984
14 TraesCS2B01G304700 chr5A 188370332 188371391 1059 True 682.000000 1251 83.069000 2 1176 3 chr5A.!!$R1 1174
15 TraesCS2B01G304700 chr4D 389363597 389364859 1262 False 472.100000 863 92.652500 791 2042 4 chr4D.!!$F2 1251
16 TraesCS2B01G304700 chr4D 389341215 389341741 526 False 461.666667 830 89.775667 14 1173 3 chr4D.!!$F1 1159
17 TraesCS2B01G304700 chr1A 379500901 379501403 502 False 340.600000 551 90.625000 3 1332 3 chr1A.!!$F1 1329

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
378 382 1.718757 CTGGGGCGCTTGCAACTATC 61.719 60.0 7.64 0.00 41.71 2.08 F
1021 3527 0.034670 GATGCTGAAGGTGGGCTCTT 60.035 55.0 0.00 0.00 0.00 2.85 F
1534 4075 0.319040 CCATGTACAGAGCCGGATCG 60.319 60.0 15.18 11.88 0.00 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1577 4118 0.103208 GAGCCGACTCTGTACATGGG 59.897 60.0 0.00 0.0 40.03 4.00 R
2984 5614 0.322546 ATTCACGGGCCAAAGGACTC 60.323 55.0 4.39 0.0 0.00 3.36 R
3364 6005 0.398381 AACCAACAACCCAGCCACAT 60.398 50.0 0.00 0.0 0.00 3.21 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
246 247 9.590451 CATGCAAATTATCCAAGTTTATGAAGT 57.410 29.630 0.00 0.00 0.00 3.01
280 281 8.043710 CACTGGAGGTAGTTTGATCTCTTATTT 58.956 37.037 0.00 0.00 0.00 1.40
359 363 5.194432 TCTAGGAGTGTCAACAGAGGATAC 58.806 45.833 0.00 0.00 0.00 2.24
378 382 1.718757 CTGGGGCGCTTGCAACTATC 61.719 60.000 7.64 0.00 41.71 2.08
532 3036 3.582714 AAGCTAATTGCCAAAGCTCAC 57.417 42.857 4.20 0.00 45.61 3.51
695 3199 4.389890 TTGCATATTTGATCCACCTTGC 57.610 40.909 0.00 0.00 0.00 4.01
758 3264 5.892568 AGTATCGAAGTACTGTTGATCCAC 58.107 41.667 0.00 0.00 33.78 4.02
885 3391 2.027561 GTGCACATGGTACTTACTGGGA 60.028 50.000 13.17 0.00 0.00 4.37
896 3402 2.979678 ACTTACTGGGAGTGGTGTGATT 59.020 45.455 0.00 0.00 0.00 2.57
1021 3527 0.034670 GATGCTGAAGGTGGGCTCTT 60.035 55.000 0.00 0.00 0.00 2.85
1029 3535 3.585289 TGAAGGTGGGCTCTTAACATGTA 59.415 43.478 0.00 0.00 0.00 2.29
1153 3661 4.379243 CGCGGTCTCACCTTGCCT 62.379 66.667 0.00 0.00 35.66 4.75
1233 3751 3.103742 ACTTTGTTCCCATGGTGTTGTT 58.896 40.909 11.73 0.00 0.00 2.83
1252 3770 7.584847 GTGTTGTTGCATCAAAAATTCAGATTG 59.415 33.333 11.67 0.00 0.00 2.67
1331 3849 3.114606 TGTAGAGGCATCCTTCCATTGA 58.885 45.455 0.00 0.00 31.76 2.57
1332 3850 3.718434 TGTAGAGGCATCCTTCCATTGAT 59.282 43.478 0.00 0.00 31.76 2.57
1333 3851 3.225177 AGAGGCATCCTTCCATTGATG 57.775 47.619 0.00 0.00 41.02 3.07
1334 3852 2.512896 AGAGGCATCCTTCCATTGATGT 59.487 45.455 0.00 0.00 40.37 3.06
1335 3853 3.718434 AGAGGCATCCTTCCATTGATGTA 59.282 43.478 0.00 0.00 40.37 2.29
1336 3854 4.353191 AGAGGCATCCTTCCATTGATGTAT 59.647 41.667 0.00 0.00 40.37 2.29
1337 3855 5.549228 AGAGGCATCCTTCCATTGATGTATA 59.451 40.000 0.00 0.00 40.37 1.47
1338 3856 6.044754 AGAGGCATCCTTCCATTGATGTATAA 59.955 38.462 0.00 0.00 40.37 0.98
1339 3857 6.797707 AGGCATCCTTCCATTGATGTATAAT 58.202 36.000 0.00 0.00 40.37 1.28
1340 3858 7.243824 AGGCATCCTTCCATTGATGTATAATT 58.756 34.615 0.00 0.00 40.37 1.40
1341 3859 7.731688 AGGCATCCTTCCATTGATGTATAATTT 59.268 33.333 0.00 0.00 40.37 1.82
1342 3860 8.031277 GGCATCCTTCCATTGATGTATAATTTC 58.969 37.037 0.00 0.00 40.37 2.17
1343 3861 8.800332 GCATCCTTCCATTGATGTATAATTTCT 58.200 33.333 0.00 0.00 40.37 2.52
1359 3877 9.914131 GTATAATTTCTTTAATGGCATCCTTCC 57.086 33.333 0.00 0.00 0.00 3.46
1360 3878 6.872585 AATTTCTTTAATGGCATCCTTCCA 57.127 33.333 0.00 0.00 38.09 3.53
1361 3879 7.441903 AATTTCTTTAATGGCATCCTTCCAT 57.558 32.000 0.00 0.00 45.70 3.41
1434 3952 7.609960 TGGCAGCTATCTATAGAGATTTTCTG 58.390 38.462 4.96 10.88 39.56 3.02
1462 3998 6.619329 GGAATATCCTAAGAGCTGGATCTT 57.381 41.667 6.58 6.36 41.67 2.40
1477 4013 5.825151 GCTGGATCTTAACTGGCTATTCTTT 59.175 40.000 0.00 0.00 0.00 2.52
1487 4023 7.944729 AACTGGCTATTCTTTCACATACATT 57.055 32.000 0.00 0.00 0.00 2.71
1534 4075 0.319040 CCATGTACAGAGCCGGATCG 60.319 60.000 15.18 11.88 0.00 3.69
1537 4078 1.399714 TGTACAGAGCCGGATCGAAT 58.600 50.000 15.18 6.35 0.00 3.34
1549 4090 2.942376 CGGATCGAATCAACCCATGAAA 59.058 45.455 0.00 0.00 42.54 2.69
1564 4105 7.865706 ACCCATGAAACTGACATAGTATTTC 57.134 36.000 0.00 0.00 39.18 2.17
1577 4118 1.084289 GTATTTCTGGTCGGTGGCAC 58.916 55.000 9.70 9.70 0.00 5.01
1614 4155 2.547855 GCTCAAACCAACCCATGAAACC 60.548 50.000 0.00 0.00 0.00 3.27
1656 4197 1.740025 GCAGCAAGTAGGTGGATTGAC 59.260 52.381 0.00 0.00 45.73 3.18
1727 4268 2.774234 ACCAATCTGTAGCTAGCCATGT 59.226 45.455 12.13 0.00 0.00 3.21
1728 4269 3.200825 ACCAATCTGTAGCTAGCCATGTT 59.799 43.478 12.13 0.00 0.00 2.71
1729 4270 3.812053 CCAATCTGTAGCTAGCCATGTTC 59.188 47.826 12.13 0.00 0.00 3.18
1817 4440 1.463674 GTGGCTTCCGATCCAAACAT 58.536 50.000 0.00 0.00 33.57 2.71
1899 4526 4.020662 TGGCATTGGTGGGTAATTTCTTTC 60.021 41.667 0.00 0.00 0.00 2.62
1900 4527 4.222810 GGCATTGGTGGGTAATTTCTTTCT 59.777 41.667 0.00 0.00 0.00 2.52
1901 4528 5.279960 GGCATTGGTGGGTAATTTCTTTCTT 60.280 40.000 0.00 0.00 0.00 2.52
1903 4530 7.382898 GCATTGGTGGGTAATTTCTTTCTTTA 58.617 34.615 0.00 0.00 0.00 1.85
1904 4531 7.545615 GCATTGGTGGGTAATTTCTTTCTTTAG 59.454 37.037 0.00 0.00 0.00 1.85
1905 4532 8.802267 CATTGGTGGGTAATTTCTTTCTTTAGA 58.198 33.333 0.00 0.00 0.00 2.10
1908 4535 9.374711 TGGTGGGTAATTTCTTTCTTTAGATTT 57.625 29.630 0.00 0.00 0.00 2.17
1938 4565 3.816523 TCCGATGGTTGTGGTTTTCTAAC 59.183 43.478 0.00 0.00 0.00 2.34
1977 4604 5.067283 GCCGGATGTTTCTAATTATTGTGGT 59.933 40.000 5.05 0.00 0.00 4.16
2017 4644 3.541242 TTTTTCTGGTGACCCCATCAT 57.459 42.857 0.00 0.00 44.15 2.45
2127 4754 9.708222 CATATGCTTTATAGTTTGTGTTCACTC 57.292 33.333 4.59 0.00 0.00 3.51
2247 4874 5.575606 GCATTGACATCCTTGATTCACTTTG 59.424 40.000 0.00 0.00 0.00 2.77
2294 4921 2.112297 GTTTCCACGGGGACTGCA 59.888 61.111 5.46 0.00 44.89 4.41
2355 4982 5.352846 TCACATTCTCTTGTTTGACACGAAA 59.647 36.000 0.00 0.00 0.00 3.46
2474 5104 7.630242 TTTTTCTTAGGTGGATCTTATGCAG 57.370 36.000 0.00 0.00 0.00 4.41
2656 5286 1.168714 ATTGCAAAGAGGCCGACTTC 58.831 50.000 16.21 7.72 0.00 3.01
2769 5399 5.703978 TTTTGGTGATGTGGAAGTATGTG 57.296 39.130 0.00 0.00 0.00 3.21
2789 5419 3.002759 GTGCTGTCTTTGTTCTTGTCTCC 59.997 47.826 0.00 0.00 0.00 3.71
2795 5425 5.163311 TGTCTTTGTTCTTGTCTCCTCATCA 60.163 40.000 0.00 0.00 0.00 3.07
3025 5656 7.538334 TGAATTCGAAGCATTAGTTTCATTGTG 59.462 33.333 3.35 0.00 34.98 3.33
3062 5693 9.716507 CGTACAGATTTTTAGGTTTGATAATGG 57.283 33.333 0.00 0.00 0.00 3.16
3204 5840 8.899427 TGATTTGGCTTTTGTGAATTTCAATA 57.101 26.923 0.00 0.00 0.00 1.90
3283 5919 2.218603 GAACTTCTGCCTCGGTTTTGA 58.781 47.619 0.00 0.00 0.00 2.69
3364 6005 5.431765 AGACTTGAACTTCTGCTTTGAGAA 58.568 37.500 0.00 0.00 0.00 2.87
3375 6016 1.915141 CTTTGAGAATGTGGCTGGGT 58.085 50.000 0.00 0.00 0.00 4.51
3417 6058 7.050377 AGAGGATATTCTGTGTTGTGTAATGG 58.950 38.462 0.00 0.00 0.00 3.16
3606 6249 5.302568 TCCAAGCAGAACTTCACATTTGAAT 59.697 36.000 0.00 0.00 41.05 2.57
3706 6350 9.151471 CGATTTTACATTCCAGAACTTCTTCTA 57.849 33.333 0.00 0.00 34.74 2.10
3766 6410 5.893255 TGCTGGTTGCTCTTTTATGGAATAT 59.107 36.000 0.00 0.00 43.37 1.28
3771 6415 9.420118 TGGTTGCTCTTTTATGGAATATAACAT 57.580 29.630 0.00 0.00 0.00 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
233 234 8.017373 CCAGTGTGTATCAACTTCATAAACTTG 58.983 37.037 0.00 0.00 0.00 3.16
240 241 4.287067 ACCTCCAGTGTGTATCAACTTCAT 59.713 41.667 0.00 0.00 0.00 2.57
246 247 5.305902 TCAAACTACCTCCAGTGTGTATCAA 59.694 40.000 0.00 0.00 35.57 2.57
280 281 3.818210 CCCAGTAAGTACAATGTGCACAA 59.182 43.478 25.72 3.79 0.00 3.33
359 363 1.718757 GATAGTTGCAAGCGCCCCAG 61.719 60.000 2.29 0.00 37.32 4.45
378 382 2.831333 CTTGGACATCATCTTCCTCCG 58.169 52.381 0.00 0.00 32.55 4.63
532 3036 3.447742 GAGAAGGCAAGGTTGTGTTTTG 58.552 45.455 0.00 0.00 0.00 2.44
896 3402 0.390340 GTCATCGGCTCTGTGAAGCA 60.390 55.000 0.00 0.00 44.35 3.91
934 3440 1.798735 CAAGCGCCACAATCTCCTG 59.201 57.895 2.29 0.00 0.00 3.86
1021 3527 0.244178 TCAGCACGCGGTACATGTTA 59.756 50.000 12.47 0.00 0.00 2.41
1029 3535 0.884704 AATCAAGTTCAGCACGCGGT 60.885 50.000 12.47 0.00 0.00 5.68
1153 3661 4.252878 TGTTTGCTATCTTGAGCGATCAA 58.747 39.130 16.26 16.26 45.99 2.57
1252 3770 7.793036 ACTGTGGGGTTAAGAAAGATATAGAC 58.207 38.462 0.00 0.00 0.00 2.59
1333 3851 9.914131 GGAAGGATGCCATTAAAGAAATTATAC 57.086 33.333 0.00 0.00 29.28 1.47
1334 3852 9.653516 TGGAAGGATGCCATTAAAGAAATTATA 57.346 29.630 0.00 0.00 40.78 0.98
1335 3853 8.551682 TGGAAGGATGCCATTAAAGAAATTAT 57.448 30.769 0.00 0.00 40.78 1.28
1336 3854 7.969690 TGGAAGGATGCCATTAAAGAAATTA 57.030 32.000 0.00 0.00 40.78 1.40
1337 3855 6.872585 TGGAAGGATGCCATTAAAGAAATT 57.127 33.333 0.00 0.00 40.78 1.82
1349 3867 7.318141 CAATTATACATCAATGGAAGGATGCC 58.682 38.462 0.00 0.00 43.64 4.40
1350 3868 7.177216 TCCAATTATACATCAATGGAAGGATGC 59.823 37.037 0.00 0.00 43.64 3.91
1351 3869 8.640063 TCCAATTATACATCAATGGAAGGATG 57.360 34.615 0.00 0.00 44.97 3.51
1352 3870 9.833179 ATTCCAATTATACATCAATGGAAGGAT 57.167 29.630 10.41 0.00 37.57 3.24
1434 3952 6.831976 TCCAGCTCTTAGGATATTCCTTTTC 58.168 40.000 0.59 0.00 46.91 2.29
1440 3958 8.811994 AGTTAAGATCCAGCTCTTAGGATATTC 58.188 37.037 12.50 2.59 40.74 1.75
1446 3982 4.742138 GCCAGTTAAGATCCAGCTCTTAGG 60.742 50.000 0.00 0.00 38.58 2.69
1462 3998 9.461312 AAATGTATGTGAAAGAATAGCCAGTTA 57.539 29.630 0.00 0.00 0.00 2.24
1487 4023 4.156922 CACCGGCCAAAAATACTATGTCAA 59.843 41.667 0.00 0.00 0.00 3.18
1534 4075 5.649782 ATGTCAGTTTCATGGGTTGATTC 57.350 39.130 0.00 0.00 33.34 2.52
1537 4078 5.241403 ACTATGTCAGTTTCATGGGTTGA 57.759 39.130 0.00 0.00 31.59 3.18
1549 4090 4.710375 ACCGACCAGAAATACTATGTCAGT 59.290 41.667 0.00 0.00 41.62 3.41
1564 4105 4.033776 ATGGGTGCCACCGACCAG 62.034 66.667 7.99 0.00 39.83 4.00
1577 4118 0.103208 GAGCCGACTCTGTACATGGG 59.897 60.000 0.00 0.00 40.03 4.00
1614 4155 3.063045 CACATGTGTGTCCAGATCGATTG 59.937 47.826 18.03 0.00 40.96 2.67
1644 4185 6.435904 CCAATGTTAAAAGGTCAATCCACCTA 59.564 38.462 0.00 0.00 46.97 3.08
1656 4197 4.551797 GCGTTTGCAACCAATGTTAAAAGG 60.552 41.667 0.00 0.00 42.15 3.11
1682 4223 7.775561 GGTTCTGTCAATTCAATTCCTAGGTAT 59.224 37.037 9.08 0.93 0.00 2.73
1817 4440 3.118149 ACATGCTATGTCCAATCTGCTCA 60.118 43.478 0.00 0.00 39.92 4.26
1846 4473 2.158460 AGCCTGCAACCTAATATTCCCC 60.158 50.000 0.00 0.00 0.00 4.81
1903 4530 8.413229 CCACAACCATCGGATTAATTTAAATCT 58.587 33.333 0.10 0.00 36.34 2.40
1904 4531 8.194769 ACCACAACCATCGGATTAATTTAAATC 58.805 33.333 0.10 0.00 35.51 2.17
1905 4532 8.073467 ACCACAACCATCGGATTAATTTAAAT 57.927 30.769 0.00 0.00 0.00 1.40
1908 4535 7.469537 AAACCACAACCATCGGATTAATTTA 57.530 32.000 0.00 0.00 0.00 1.40
1938 4565 4.758165 ACATCCGGCCGTTATTTTATTAGG 59.242 41.667 26.12 3.34 0.00 2.69
2127 4754 1.470098 CCTGCCAAGAATGAAAGGACG 59.530 52.381 0.00 0.00 33.22 4.79
2247 4874 5.593211 GCGACGTTTCCATATTATCGTAAC 58.407 41.667 0.00 0.00 0.00 2.50
2294 4921 7.390718 AGGCTAAGAAACACTCACGATATTTTT 59.609 33.333 0.00 0.00 0.00 1.94
2355 4982 9.723601 ATTTTGTCAACACAAGGCATAATAAAT 57.276 25.926 0.00 0.00 43.54 1.40
2455 5085 4.141620 ACACCTGCATAAGATCCACCTAAG 60.142 45.833 0.00 0.00 0.00 2.18
2545 5175 8.347771 CAACAAATCTCTTCATCTGTCAGAAAA 58.652 33.333 6.64 3.93 0.00 2.29
2552 5182 4.990526 ACCCAACAAATCTCTTCATCTGT 58.009 39.130 0.00 0.00 0.00 3.41
2656 5286 0.933097 CTGCTTCGGAACATCGATGG 59.067 55.000 28.09 11.33 39.03 3.51
2769 5399 3.471680 AGGAGACAAGAACAAAGACAGC 58.528 45.455 0.00 0.00 0.00 4.40
2789 5419 8.583810 ACACACAAGAAAAATCAAATGATGAG 57.416 30.769 0.00 0.00 42.53 2.90
2795 5425 8.513774 AGCAAAAACACACAAGAAAAATCAAAT 58.486 25.926 0.00 0.00 0.00 2.32
2984 5614 0.322546 ATTCACGGGCCAAAGGACTC 60.323 55.000 4.39 0.00 0.00 3.36
3025 5656 9.503427 CCTAAAAATCTGTACGAAATCAAATCC 57.497 33.333 0.00 0.00 0.00 3.01
3204 5840 0.944386 ACTGAAAAACGACGCAGCAT 59.056 45.000 0.00 0.00 31.74 3.79
3364 6005 0.398381 AACCAACAACCCAGCCACAT 60.398 50.000 0.00 0.00 0.00 3.21
3375 6016 3.394274 TCCTCTCCATCTGAAACCAACAA 59.606 43.478 0.00 0.00 0.00 2.83
3417 6058 5.859495 TGGTTGGGTTGAAAATTACCAATC 58.141 37.500 0.00 0.00 38.54 2.67
3606 6249 1.671054 GCAAGCCTAGGACAACGCA 60.671 57.895 14.75 0.00 0.00 5.24
3706 6350 7.013655 ACAGTTTTGAAGTTCATGTCAGCTTAT 59.986 33.333 6.36 0.00 0.00 1.73
3771 6415 4.890158 TTGTTATGAGAGGAAGTGCTCA 57.110 40.909 2.51 0.00 44.43 4.26
3956 6600 2.689471 AGTGCAAGCAGTGTTGAATTGA 59.311 40.909 0.83 0.00 0.00 2.57
3957 6601 3.088194 AGTGCAAGCAGTGTTGAATTG 57.912 42.857 0.83 1.35 0.00 2.32
3959 6603 3.130869 TGAAAGTGCAAGCAGTGTTGAAT 59.869 39.130 2.72 0.00 0.00 2.57
3962 6606 2.565210 TGAAAGTGCAAGCAGTGTTG 57.435 45.000 2.72 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.