Multiple sequence alignment - TraesCS6D01G058700

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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 TraesCS6D01G058700 chr6D 100.000 4239 0 0 632 4870 27676374 27672136 0.000000e+00 7829.0
1 TraesCS6D01G058700 chr6D 100.000 340 0 0 1 340 27677005 27676666 3.200000e-176 628.0
2 TraesCS6D01G058700 chr6B 95.694 1347 45 5 1783 3120 51427139 51425797 0.000000e+00 2154.0
3 TraesCS6D01G058700 chr6B 87.653 980 88 19 3132 4084 51425640 51424667 0.000000e+00 1109.0
4 TraesCS6D01G058700 chr6B 90.566 848 26 19 926 1764 51428003 51427201 0.000000e+00 1074.0
5 TraesCS6D01G058700 chr6B 92.228 193 14 1 4098 4290 624611213 624611404 6.210000e-69 272.0
6 TraesCS6D01G058700 chr6B 82.450 302 26 14 65 340 51428903 51428603 6.300000e-59 239.0
7 TraesCS6D01G058700 chr6B 96.250 80 3 0 1 80 51429071 51428992 1.100000e-26 132.0
8 TraesCS6D01G058700 chr6A 93.764 1347 62 11 1783 3120 30432786 30434119 0.000000e+00 2002.0
9 TraesCS6D01G058700 chr6A 93.128 975 30 8 3132 4078 30434277 30435242 0.000000e+00 1395.0
10 TraesCS6D01G058700 chr6A 92.285 674 33 13 632 1296 30431578 30432241 0.000000e+00 939.0
11 TraesCS6D01G058700 chr6A 92.112 393 19 4 1373 1765 30432276 30432656 1.190000e-150 544.0
12 TraesCS6D01G058700 chr6A 91.520 342 26 3 1 340 30431175 30431515 7.380000e-128 468.0
13 TraesCS6D01G058700 chr6A 83.271 269 37 7 4317 4581 389754799 389754535 1.750000e-59 241.0
14 TraesCS6D01G058700 chr7D 88.765 810 57 8 3301 4078 627570462 627569655 0.000000e+00 961.0
15 TraesCS6D01G058700 chr7D 74.691 810 108 54 2185 2933 631819404 631820177 2.230000e-68 270.0
16 TraesCS6D01G058700 chr7D 83.486 109 15 3 1476 1582 631818797 631818904 1.120000e-16 99.0
17 TraesCS6D01G058700 chr3A 86.317 877 76 23 3239 4078 620631402 620632271 0.000000e+00 915.0
18 TraesCS6D01G058700 chr3A 85.795 880 79 14 3239 4078 66297990 66298863 0.000000e+00 891.0
19 TraesCS6D01G058700 chr3A 80.412 291 50 5 4290 4578 728440271 728440556 1.060000e-51 215.0
20 TraesCS6D01G058700 chr2A 85.795 880 79 14 3239 4078 210329414 210328541 0.000000e+00 891.0
21 TraesCS6D01G058700 chr2A 91.865 504 33 8 4371 4870 773795435 773794936 0.000000e+00 697.0
22 TraesCS6D01G058700 chr2A 92.308 195 15 0 4096 4290 773795677 773795483 1.340000e-70 278.0
23 TraesCS6D01G058700 chr2A 83.895 267 32 8 4319 4581 617723357 617723098 1.350000e-60 244.0
24 TraesCS6D01G058700 chr2A 82.422 256 40 5 4324 4578 746774219 746774470 8.210000e-53 219.0
25 TraesCS6D01G058700 chr5A 85.795 880 77 16 3239 4078 306451445 306452316 0.000000e+00 889.0
26 TraesCS6D01G058700 chr5A 87.298 433 25 8 1224 1656 345323423 345323021 7.380000e-128 468.0
27 TraesCS6D01G058700 chr7A 85.568 880 81 14 3239 4078 184080536 184081409 0.000000e+00 880.0
28 TraesCS6D01G058700 chr7A 81.780 236 33 7 1001 1228 736552406 736552173 6.430000e-44 189.0
29 TraesCS6D01G058700 chr2D 93.471 582 31 7 4294 4870 599278363 599277784 0.000000e+00 857.0
30 TraesCS6D01G058700 chr2D 93.467 199 11 2 4093 4290 599278676 599278479 1.330000e-75 294.0
31 TraesCS6D01G058700 chr5B 86.341 798 69 12 3313 4078 488455720 488454931 0.000000e+00 833.0
32 TraesCS6D01G058700 chr5B 90.514 253 21 3 4620 4870 532367497 532367748 1.010000e-86 331.0
33 TraesCS6D01G058700 chr4B 85.697 811 80 19 3301 4078 327120235 327121042 0.000000e+00 822.0
34 TraesCS6D01G058700 chr4B 82.090 402 40 15 1255 1656 275870842 275871211 1.020000e-81 315.0
35 TraesCS6D01G058700 chr4B 97.297 37 1 0 1632 1668 237889555 237889591 4.070000e-06 63.9
36 TraesCS6D01G058700 chr1A 92.391 552 28 11 4290 4832 557134390 557133844 0.000000e+00 774.0
37 TraesCS6D01G058700 chr1A 91.748 206 15 2 4085 4290 557134699 557134496 7.980000e-73 285.0
38 TraesCS6D01G058700 chr1A 91.371 197 16 1 4095 4290 6807677 6807873 8.030000e-68 268.0
39 TraesCS6D01G058700 chr1A 91.837 49 1 2 4582 4627 547903801 547903753 1.130000e-06 65.8
40 TraesCS6D01G058700 chrUn 91.304 529 39 7 4290 4814 10358646 10358121 0.000000e+00 715.0
41 TraesCS6D01G058700 chrUn 91.304 529 39 7 4290 4814 287715267 287714742 0.000000e+00 715.0
42 TraesCS6D01G058700 chrUn 94.898 196 10 0 4095 4290 10359102 10358907 1.700000e-79 307.0
43 TraesCS6D01G058700 chrUn 79.832 238 36 8 2880 3107 176259082 176258847 3.900000e-36 163.0
44 TraesCS6D01G058700 chrUn 79.832 238 36 8 2880 3107 176283280 176283045 3.900000e-36 163.0
45 TraesCS6D01G058700 chrUn 79.832 238 36 8 2880 3107 176315949 176315714 3.900000e-36 163.0
46 TraesCS6D01G058700 chrUn 79.832 238 36 8 2880 3107 382546905 382547140 3.900000e-36 163.0
47 TraesCS6D01G058700 chrUn 79.832 238 36 8 2880 3107 390363491 390363256 3.900000e-36 163.0
48 TraesCS6D01G058700 chrUn 97.297 37 1 0 1632 1668 304220821 304220857 4.070000e-06 63.9
49 TraesCS6D01G058700 chrUn 97.297 37 1 0 1632 1668 346577973 346577937 4.070000e-06 63.9
50 TraesCS6D01G058700 chr7B 93.643 409 20 3 1353 1761 637758737 637759139 1.500000e-169 606.0
51 TraesCS6D01G058700 chr7B 92.417 211 16 0 1761 1971 637759233 637759443 7.920000e-78 302.0
52 TraesCS6D01G058700 chr7B 80.870 230 34 7 992 1213 743383115 743383342 6.480000e-39 172.0
53 TraesCS6D01G058700 chr7B 79.832 238 36 8 2880 3107 715934140 715934375 3.900000e-36 163.0
54 TraesCS6D01G058700 chr7B 79.832 238 36 8 2880 3107 715972498 715972733 3.900000e-36 163.0
55 TraesCS6D01G058700 chr7B 81.507 146 14 8 1367 1509 693652345 693652480 1.850000e-19 108.0
56 TraesCS6D01G058700 chr7B 82.000 100 4 6 1640 1737 73566390 73566477 6.760000e-09 73.1
57 TraesCS6D01G058700 chr2B 92.961 412 23 3 1353 1764 549276309 549275904 3.240000e-166 595.0
58 TraesCS6D01G058700 chr2B 91.827 208 17 0 1764 1971 549275810 549275603 1.710000e-74 291.0
59 TraesCS6D01G058700 chr5D 94.237 295 12 5 4578 4870 355636121 355636412 3.460000e-121 446.0
60 TraesCS6D01G058700 chr5D 97.500 200 5 0 4091 4290 355635899 355636098 4.670000e-90 342.0
61 TraesCS6D01G058700 chr4A 86.143 433 30 11 1224 1656 588328209 588328611 1.610000e-119 440.0
62 TraesCS6D01G058700 chr4A 83.030 165 15 8 1367 1528 740885799 740885645 2.360000e-28 137.0
63 TraesCS6D01G058700 chr3D 93.559 295 12 4 4578 4870 383114212 383114501 2.690000e-117 433.0
64 TraesCS6D01G058700 chr3D 86.275 357 21 6 1300 1656 590337177 590336849 3.580000e-96 363.0
65 TraesCS6D01G058700 chr3D 96.373 193 6 1 4098 4290 383113998 383114189 2.830000e-82 316.0
66 TraesCS6D01G058700 chr1D 91.393 244 17 3 4568 4809 21701310 21701551 1.010000e-86 331.0
67 TraesCS6D01G058700 chr1B 90.640 203 17 2 4095 4295 550038191 550037989 8.030000e-68 268.0


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 TraesCS6D01G058700 chr6D 27672136 27677005 4869 True 4228.5 7829 100.0000 1 4870 2 chr6D.!!$R1 4869
1 TraesCS6D01G058700 chr6B 51424667 51429071 4404 True 941.6 2154 90.5226 1 4084 5 chr6B.!!$R1 4083
2 TraesCS6D01G058700 chr6A 30431175 30435242 4067 False 1069.6 2002 92.5618 1 4078 5 chr6A.!!$F1 4077
3 TraesCS6D01G058700 chr7D 627569655 627570462 807 True 961.0 961 88.7650 3301 4078 1 chr7D.!!$R1 777
4 TraesCS6D01G058700 chr3A 620631402 620632271 869 False 915.0 915 86.3170 3239 4078 1 chr3A.!!$F2 839
5 TraesCS6D01G058700 chr3A 66297990 66298863 873 False 891.0 891 85.7950 3239 4078 1 chr3A.!!$F1 839
6 TraesCS6D01G058700 chr2A 210328541 210329414 873 True 891.0 891 85.7950 3239 4078 1 chr2A.!!$R1 839
7 TraesCS6D01G058700 chr2A 773794936 773795677 741 True 487.5 697 92.0865 4096 4870 2 chr2A.!!$R3 774
8 TraesCS6D01G058700 chr5A 306451445 306452316 871 False 889.0 889 85.7950 3239 4078 1 chr5A.!!$F1 839
9 TraesCS6D01G058700 chr7A 184080536 184081409 873 False 880.0 880 85.5680 3239 4078 1 chr7A.!!$F1 839
10 TraesCS6D01G058700 chr2D 599277784 599278676 892 True 575.5 857 93.4690 4093 4870 2 chr2D.!!$R1 777
11 TraesCS6D01G058700 chr5B 488454931 488455720 789 True 833.0 833 86.3410 3313 4078 1 chr5B.!!$R1 765
12 TraesCS6D01G058700 chr4B 327120235 327121042 807 False 822.0 822 85.6970 3301 4078 1 chr4B.!!$F3 777
13 TraesCS6D01G058700 chr1A 557133844 557134699 855 True 529.5 774 92.0695 4085 4832 2 chr1A.!!$R2 747
14 TraesCS6D01G058700 chrUn 287714742 287715267 525 True 715.0 715 91.3040 4290 4814 1 chrUn.!!$R4 524
15 TraesCS6D01G058700 chrUn 10358121 10359102 981 True 511.0 715 93.1010 4095 4814 2 chrUn.!!$R7 719
16 TraesCS6D01G058700 chr7B 637758737 637759443 706 False 454.0 606 93.0300 1353 1971 2 chr7B.!!$F6 618
17 TraesCS6D01G058700 chr2B 549275603 549276309 706 True 443.0 595 92.3940 1353 1971 2 chr2B.!!$R1 618
18 TraesCS6D01G058700 chr5D 355635899 355636412 513 False 394.0 446 95.8685 4091 4870 2 chr5D.!!$F1 779
19 TraesCS6D01G058700 chr3D 383113998 383114501 503 False 374.5 433 94.9660 4098 4870 2 chr3D.!!$F1 772

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
942 1328 0.185175 AGGGTTCTGCGAGGGTTTTT 59.815 50.000 0.0 0.0 0.00 1.94 F
1668 2059 0.540365 CACTCCACACAAGGCCCAAT 60.540 55.000 0.0 0.0 0.00 3.16 F
2225 2824 0.179100 ATGCTGGAATCACGGTCTCG 60.179 55.000 0.0 0.0 43.02 4.04 F
3207 3970 1.197721 CCTTTTCGCTTCATGTTCGCT 59.802 47.619 0.0 0.0 0.00 4.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2225 2824 0.317938 CGTAGCAGATGTCGTAGGGC 60.318 60.0 0.00 0.00 0.00 5.19 R
3554 4332 0.038892 GTAACCTGCACTCCGACGAA 60.039 55.0 0.00 0.00 0.00 3.85 R
3681 4463 1.766494 TAAATGACATGCAGGCAGGG 58.234 50.0 10.85 2.73 39.86 4.45 R
4118 4932 2.552599 TGAACATCCGTGGCAAGTTA 57.447 45.0 0.00 0.00 0.00 2.24 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
20 21 2.825836 CACCCGAGCCAGCCAATC 60.826 66.667 0.00 0.00 0.00 2.67
152 257 4.433186 TGAAAATGGAGCACATAAACGG 57.567 40.909 0.00 0.00 39.40 4.44
156 261 5.659440 AAATGGAGCACATAAACGGAAAT 57.341 34.783 0.00 0.00 39.40 2.17
235 362 6.668323 TGCATTTAAGTTGAGTGAGTTAAGC 58.332 36.000 0.00 0.00 0.00 3.09
278 407 8.359060 TGAGTTAAAATTTGGAAATTCGGTTG 57.641 30.769 0.00 0.00 37.62 3.77
339 472 2.708593 GAACAACGCCCCCTTTCCCT 62.709 60.000 0.00 0.00 0.00 4.20
750 886 2.770827 CCTTTCCCTTCCACCCCC 59.229 66.667 0.00 0.00 0.00 5.40
770 906 2.563179 CCTTGGTCTCTTTCTTCTCCGA 59.437 50.000 0.00 0.00 0.00 4.55
788 924 0.534203 GACAAGAACAAGGCCACCGA 60.534 55.000 5.01 0.00 0.00 4.69
804 940 4.194720 GAGCCGAGACGCCACGAT 62.195 66.667 0.00 0.00 0.00 3.73
805 941 4.194720 AGCCGAGACGCCACGATC 62.195 66.667 0.00 0.00 0.00 3.69
807 943 3.822192 CCGAGACGCCACGATCCA 61.822 66.667 0.00 0.00 0.00 3.41
837 973 1.675552 GACCCTCTTCTCTCCTCTCG 58.324 60.000 0.00 0.00 0.00 4.04
853 995 4.544689 CGCCGACGAGAGGAGCAG 62.545 72.222 0.00 0.00 43.93 4.24
942 1328 0.185175 AGGGTTCTGCGAGGGTTTTT 59.815 50.000 0.00 0.00 0.00 1.94
946 1332 3.257375 GGGTTCTGCGAGGGTTTTTAATT 59.743 43.478 0.00 0.00 0.00 1.40
952 1338 7.455641 TCTGCGAGGGTTTTTAATTCAAATA 57.544 32.000 0.00 0.00 0.00 1.40
1245 1631 5.360649 AGCTCTTCTACCTGGTAAAATCC 57.639 43.478 8.11 0.00 0.00 3.01
1253 1642 6.266080 TCTACCTGGTAAAATCCTAGACCAA 58.734 40.000 8.11 0.00 41.34 3.67
1278 1667 0.841961 CAGATTCAGGGCCATCTCCA 59.158 55.000 6.18 0.00 0.00 3.86
1436 1827 1.863325 TGATCCTCTGCTCTGCTCTT 58.137 50.000 0.00 0.00 0.00 2.85
1437 1828 3.023939 TGATCCTCTGCTCTGCTCTTA 57.976 47.619 0.00 0.00 0.00 2.10
1439 1830 4.734266 TGATCCTCTGCTCTGCTCTTATA 58.266 43.478 0.00 0.00 0.00 0.98
1440 1831 5.331906 TGATCCTCTGCTCTGCTCTTATAT 58.668 41.667 0.00 0.00 0.00 0.86
1441 1832 5.185442 TGATCCTCTGCTCTGCTCTTATATG 59.815 44.000 0.00 0.00 0.00 1.78
1442 1833 4.734266 TCCTCTGCTCTGCTCTTATATGA 58.266 43.478 0.00 0.00 0.00 2.15
1584 1975 0.678048 GCCTTCCCGTTCTCATGCTT 60.678 55.000 0.00 0.00 0.00 3.91
1627 2018 3.415212 TCTGCTTACTCTGCTTGCAATT 58.585 40.909 0.00 0.00 33.07 2.32
1652 2043 5.946942 CCATATGGTATATGCTCTCCACT 57.053 43.478 14.09 0.00 32.60 4.00
1668 2059 0.540365 CACTCCACACAAGGCCCAAT 60.540 55.000 0.00 0.00 0.00 3.16
1957 2555 3.365520 TGTATGTCATCGCACGTAAACAC 59.634 43.478 0.00 0.00 0.00 3.32
1958 2556 2.143008 TGTCATCGCACGTAAACACT 57.857 45.000 0.00 0.00 0.00 3.55
2225 2824 0.179100 ATGCTGGAATCACGGTCTCG 60.179 55.000 0.00 0.00 43.02 4.04
2229 2828 2.722201 GGAATCACGGTCTCGCCCT 61.722 63.158 0.00 0.00 40.63 5.19
2264 2863 4.028131 ACGGTTTCCATGATAGACTGGTA 58.972 43.478 0.00 0.00 34.03 3.25
2301 2900 1.246056 GGACAATCAGCTGCAGGCAA 61.246 55.000 17.12 1.11 44.79 4.52
2470 3077 5.044846 AGGCATTCTGGTTTAGTGGACTATT 60.045 40.000 0.00 0.00 0.00 1.73
2486 3093 4.564821 GGACTATTTACCACAGGCTCACAA 60.565 45.833 0.00 0.00 0.00 3.33
2589 3196 3.486209 GCATTACAATTTGCTGGCATTGC 60.486 43.478 0.00 0.00 35.95 3.56
2813 3420 6.043706 CAGATATCCTCTTAACCTGGATTGGT 59.956 42.308 0.00 0.00 40.62 3.67
2830 3437 2.795329 TGGTTTGCCCTTCTCTTCATC 58.205 47.619 0.00 0.00 0.00 2.92
3127 3734 7.956420 AAAATATCGTAGGTTCATATTCGCA 57.044 32.000 0.00 0.00 0.00 5.10
3128 3735 8.547967 AAAATATCGTAGGTTCATATTCGCAT 57.452 30.769 0.00 0.00 0.00 4.73
3129 3736 7.757097 AATATCGTAGGTTCATATTCGCATC 57.243 36.000 0.00 0.00 0.00 3.91
3130 3737 4.577834 TCGTAGGTTCATATTCGCATCA 57.422 40.909 0.00 0.00 0.00 3.07
3136 3893 8.443160 CGTAGGTTCATATTCGCATCATTAATT 58.557 33.333 0.00 0.00 0.00 1.40
3137 3894 9.546909 GTAGGTTCATATTCGCATCATTAATTG 57.453 33.333 0.00 0.00 0.00 2.32
3201 3964 2.095059 CCAAGTCCCTTTTCGCTTCATG 60.095 50.000 0.00 0.00 0.00 3.07
3207 3970 1.197721 CCTTTTCGCTTCATGTTCGCT 59.802 47.619 0.00 0.00 0.00 4.93
3237 4000 3.245264 CCAGGGACCATAAAACACCTCTT 60.245 47.826 0.00 0.00 0.00 2.85
3554 4332 5.193679 GCTATGGTTTGGACTAATGGTTCT 58.806 41.667 0.00 0.00 0.00 3.01
3681 4463 1.365699 TCTTTACCCGCGAAATCAGC 58.634 50.000 8.23 0.00 0.00 4.26
3690 4472 2.768492 CGAAATCAGCCCTGCCTGC 61.768 63.158 0.00 0.00 32.87 4.85
4084 4898 3.459828 TCCATGTTTGATACTCCCTCCA 58.540 45.455 0.00 0.00 0.00 3.86
4085 4899 4.047166 TCCATGTTTGATACTCCCTCCAT 58.953 43.478 0.00 0.00 0.00 3.41
4086 4900 5.223655 TCCATGTTTGATACTCCCTCCATA 58.776 41.667 0.00 0.00 0.00 2.74
4087 4901 5.669904 TCCATGTTTGATACTCCCTCCATAA 59.330 40.000 0.00 0.00 0.00 1.90
4088 4902 6.159575 TCCATGTTTGATACTCCCTCCATAAA 59.840 38.462 0.00 0.00 0.00 1.40
4089 4903 6.263168 CCATGTTTGATACTCCCTCCATAAAC 59.737 42.308 0.00 0.00 0.00 2.01
4118 4932 3.253921 GGTAAATACAACCGTGGTGCTTT 59.746 43.478 0.00 0.00 0.00 3.51
4138 4953 1.686355 AACTTGCCACGGATGTTCAA 58.314 45.000 0.00 0.00 0.00 2.69
4196 5011 0.814410 TAAAACTTGGCACGGACGCA 60.814 50.000 0.00 0.00 0.00 5.24
4319 5402 0.955428 GCCTGACGATTGGTTGCTGA 60.955 55.000 0.00 0.00 0.00 4.26
4322 5405 2.349590 CTGACGATTGGTTGCTGATCA 58.650 47.619 0.00 0.00 0.00 2.92
4331 5414 1.153369 TTGCTGATCACGCTAGCCC 60.153 57.895 9.66 0.00 36.64 5.19
4445 5528 1.064952 GGCCCATATTGCACACGTTAC 59.935 52.381 0.00 0.00 0.00 2.50
4716 5808 0.107848 ACAAAATACTCCCTCCGCCG 60.108 55.000 0.00 0.00 0.00 6.46
4783 5875 1.780309 CTTACATTATGGGGCAGGGGA 59.220 52.381 0.00 0.00 0.00 4.81
4784 5876 2.147946 TACATTATGGGGCAGGGGAT 57.852 50.000 0.00 0.00 0.00 3.85
4786 5878 1.710809 ACATTATGGGGCAGGGGATAC 59.289 52.381 0.00 0.00 0.00 2.24
4787 5879 1.995542 CATTATGGGGCAGGGGATACT 59.004 52.381 0.00 0.00 0.00 2.12
4788 5880 3.189606 CATTATGGGGCAGGGGATACTA 58.810 50.000 0.00 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
197 324 7.770801 ACTTAAATGCAAGGAGTTCAAAAAC 57.229 32.000 0.00 0.00 35.50 2.43
235 362 9.515020 TTTAACTCATCAAACACTTGCTTAAAG 57.485 29.630 0.00 0.00 42.07 1.85
278 407 4.281657 AGGGATAAAGGAGTGCATTTTCC 58.718 43.478 6.73 6.73 30.91 3.13
663 796 4.400776 CGTCGTCGTCGTCGTCGT 62.401 66.667 18.87 0.00 45.27 4.34
750 886 3.005897 TGTCGGAGAAGAAAGAGACCAAG 59.994 47.826 0.00 0.00 39.69 3.61
756 892 4.621991 TGTTCTTGTCGGAGAAGAAAGAG 58.378 43.478 26.02 0.00 40.30 2.85
770 906 0.535102 CTCGGTGGCCTTGTTCTTGT 60.535 55.000 3.32 0.00 0.00 3.16
798 934 4.873129 CGGAGCGGTGGATCGTGG 62.873 72.222 0.00 0.00 0.00 4.94
800 936 3.823330 GTCGGAGCGGTGGATCGT 61.823 66.667 0.00 0.00 0.00 3.73
801 937 4.907034 CGTCGGAGCGGTGGATCG 62.907 72.222 0.00 0.00 0.00 3.69
802 938 3.515286 TCGTCGGAGCGGTGGATC 61.515 66.667 0.00 0.00 0.00 3.36
803 939 3.823330 GTCGTCGGAGCGGTGGAT 61.823 66.667 0.00 0.00 0.00 3.41
837 973 4.863925 GCTGCTCCTCTCGTCGGC 62.864 72.222 0.00 0.00 0.00 5.54
912 1054 1.901948 AGAACCCTCGTCTCGTGCA 60.902 57.895 0.00 0.00 0.00 4.57
946 1332 9.033711 TGAATGATTGGAGTGGAATTTATTTGA 57.966 29.630 0.00 0.00 0.00 2.69
952 1338 7.333323 GGAATTGAATGATTGGAGTGGAATTT 58.667 34.615 0.00 0.00 0.00 1.82
990 1376 1.077285 CTCCCACATGGCATCTGCA 60.077 57.895 0.00 0.00 44.36 4.41
1159 1545 3.507009 GGAGACGAGGACGACCCG 61.507 72.222 11.70 11.70 42.66 5.28
1243 1629 6.373005 TGAATCTGAATGTTTGGTCTAGGA 57.627 37.500 0.00 0.00 0.00 2.94
1245 1631 5.587844 CCCTGAATCTGAATGTTTGGTCTAG 59.412 44.000 0.00 0.00 0.00 2.43
1253 1642 2.905415 TGGCCCTGAATCTGAATGTT 57.095 45.000 0.00 0.00 0.00 2.71
1302 1693 9.261180 CTGTAACTCTGAAGAAATGTCAGTTAA 57.739 33.333 1.67 0.00 42.63 2.01
1381 1772 3.437213 TCAACCGGAGAGGATGAAACTA 58.563 45.455 9.46 0.00 46.97 2.24
1436 1827 3.072915 CCTGGTCACCCTGCAATCATATA 59.927 47.826 0.00 0.00 0.00 0.86
1437 1828 2.158564 CCTGGTCACCCTGCAATCATAT 60.159 50.000 0.00 0.00 0.00 1.78
1439 1830 0.033796 CCTGGTCACCCTGCAATCAT 60.034 55.000 0.00 0.00 0.00 2.45
1440 1831 1.379916 CCTGGTCACCCTGCAATCA 59.620 57.895 0.00 0.00 0.00 2.57
1441 1832 0.962356 CACCTGGTCACCCTGCAATC 60.962 60.000 0.00 0.00 0.00 2.67
1442 1833 1.075482 CACCTGGTCACCCTGCAAT 59.925 57.895 0.00 0.00 0.00 3.56
1584 1975 3.444742 AGCAAGCAAGCACAGCAATATTA 59.555 39.130 3.19 0.00 36.85 0.98
1651 2042 0.251297 TCATTGGGCCTTGTGTGGAG 60.251 55.000 4.53 0.00 0.00 3.86
1652 2043 0.251297 CTCATTGGGCCTTGTGTGGA 60.251 55.000 4.53 0.00 0.00 4.02
1668 2059 1.875514 GTCACTTGCATTGCACTCTCA 59.124 47.619 11.66 0.00 38.71 3.27
1865 2463 5.437060 TGGAACAGATACAGATAAAAGGGC 58.563 41.667 0.00 0.00 0.00 5.19
1921 2519 6.238456 CGATGACATACACAAACATGGCTTAT 60.238 38.462 0.00 0.00 31.03 1.73
2059 2657 2.886391 GCAGGCCCCCAAATAGTAAACA 60.886 50.000 0.00 0.00 0.00 2.83
2089 2687 3.311110 GACGGGTGCTGGTGGAGA 61.311 66.667 0.00 0.00 0.00 3.71
2134 2732 8.489489 AGATATCAGACTTGGAATAGCTGAAAA 58.511 33.333 5.32 0.00 38.87 2.29
2141 2740 7.158021 GGGAACAGATATCAGACTTGGAATAG 58.842 42.308 5.32 0.00 0.00 1.73
2225 2824 0.317938 CGTAGCAGATGTCGTAGGGC 60.318 60.000 0.00 0.00 0.00 5.19
2229 2828 2.159338 GGAAACCGTAGCAGATGTCGTA 60.159 50.000 0.00 0.00 0.00 3.43
2264 2863 1.691976 TCCAAGTGTCCAGTGATCGTT 59.308 47.619 0.00 0.00 0.00 3.85
2301 2900 7.727181 AGCAACTCGGACAGTATAAGAAATAT 58.273 34.615 0.00 0.00 32.30 1.28
2470 3077 1.136828 AGGTTGTGAGCCTGTGGTAA 58.863 50.000 0.00 0.00 34.56 2.85
2486 3093 2.567615 AGGTTCGATCTTACTGCAAGGT 59.432 45.455 0.00 0.00 39.30 3.50
2589 3196 2.492012 ACGAGCTAGTAGGTATCACCG 58.508 52.381 0.89 3.99 44.90 4.94
2813 3420 6.814954 ACTATAGATGAAGAGAAGGGCAAA 57.185 37.500 6.78 0.00 0.00 3.68
2830 3437 6.769822 AGCTTCATTGAATGGACCAACTATAG 59.230 38.462 5.20 0.00 0.00 1.31
2903 3510 3.545366 ACTCCCCTCGCTTTCTATTTC 57.455 47.619 0.00 0.00 0.00 2.17
3050 3657 7.250569 TCTGCATCGAAATTATGTCCTTTTTC 58.749 34.615 0.00 0.00 0.00 2.29
3124 3731 8.800972 GCATATGTAAATCCAATTAATGATGCG 58.199 33.333 4.29 0.00 0.00 4.73
3128 3735 9.695526 GCTTGCATATGTAAATCCAATTAATGA 57.304 29.630 7.66 0.00 0.00 2.57
3129 3736 8.641155 CGCTTGCATATGTAAATCCAATTAATG 58.359 33.333 7.66 0.00 0.00 1.90
3130 3737 8.359642 ACGCTTGCATATGTAAATCCAATTAAT 58.640 29.630 7.66 0.00 0.00 1.40
3136 3893 3.944650 ACACGCTTGCATATGTAAATCCA 59.055 39.130 7.66 0.00 0.00 3.41
3137 3894 4.282068 CACACGCTTGCATATGTAAATCC 58.718 43.478 7.66 0.00 0.00 3.01
3153 3910 1.491563 CAGGAAACTACGCACACGC 59.508 57.895 0.00 0.00 41.06 5.34
3201 3964 2.872858 GTCCCTGGATAATGAAGCGAAC 59.127 50.000 0.00 0.00 0.00 3.95
3207 3970 6.605594 GTGTTTTATGGTCCCTGGATAATGAA 59.394 38.462 0.00 0.00 0.00 2.57
3237 4000 8.792633 GCAACCACTATATATGGAAAAATAGCA 58.207 33.333 14.48 0.00 39.87 3.49
3554 4332 0.038892 GTAACCTGCACTCCGACGAA 60.039 55.000 0.00 0.00 0.00 3.85
3681 4463 1.766494 TAAATGACATGCAGGCAGGG 58.234 50.000 10.85 2.73 39.86 4.45
3690 4472 4.022935 ACACAGTGCAGGTTAAATGACATG 60.023 41.667 0.00 0.00 34.64 3.21
4084 4898 9.895138 ACGGTTGTATTTACCTCATTAGTTTAT 57.105 29.630 0.00 0.00 33.35 1.40
4085 4899 9.153721 CACGGTTGTATTTACCTCATTAGTTTA 57.846 33.333 0.00 0.00 33.35 2.01
4086 4900 7.120138 CCACGGTTGTATTTACCTCATTAGTTT 59.880 37.037 0.00 0.00 33.35 2.66
4087 4901 6.596497 CCACGGTTGTATTTACCTCATTAGTT 59.404 38.462 0.00 0.00 33.35 2.24
4088 4902 6.110707 CCACGGTTGTATTTACCTCATTAGT 58.889 40.000 0.00 0.00 33.35 2.24
4089 4903 6.036735 CACCACGGTTGTATTTACCTCATTAG 59.963 42.308 0.00 0.00 33.35 1.73
4118 4932 2.552599 TGAACATCCGTGGCAAGTTA 57.447 45.000 0.00 0.00 0.00 2.24
4138 4953 7.807907 CGTATTTTTCAAGTTCAGGCACTAAAT 59.192 33.333 0.00 0.00 36.02 1.40
4319 5402 2.687200 TGTGGGGGCTAGCGTGAT 60.687 61.111 9.00 0.00 0.00 3.06
4331 5414 4.577834 ATTAAAACTTGTTCGGTGTGGG 57.422 40.909 0.00 0.00 0.00 4.61


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

AutoCloner maintained by Alex Coulton.