Multiple sequence alignment - TraesCS3B01G502200

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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 TraesCS3B01G502200 chr3B 100.000 4464 0 0 1 4464 746283836 746288299 0.000000e+00 8244.0
1 TraesCS3B01G502200 chr3B 95.532 2216 50 10 1 2205 744845685 744847862 0.000000e+00 3498.0
2 TraesCS3B01G502200 chr3B 96.136 1087 19 4 1127 2205 744728218 744729289 0.000000e+00 1753.0
3 TraesCS3B01G502200 chr3B 95.581 973 42 1 2201 3172 744729562 744730534 0.000000e+00 1557.0
4 TraesCS3B01G502200 chr3B 93.927 988 38 15 2201 3168 744848135 744849120 0.000000e+00 1472.0
5 TraesCS3B01G502200 chr3B 97.297 814 17 2 3492 4300 744849300 744850113 0.000000e+00 1376.0
6 TraesCS3B01G502200 chr3B 86.507 793 91 9 1416 2205 745203470 745202691 0.000000e+00 857.0
7 TraesCS3B01G502200 chr3B 85.660 795 100 7 1411 2205 744590512 744591292 0.000000e+00 824.0
8 TraesCS3B01G502200 chr3B 87.009 739 85 3 1468 2206 744419881 744419154 0.000000e+00 822.0
9 TraesCS3B01G502200 chr3B 85.535 795 101 7 1411 2205 746856446 746855666 0.000000e+00 819.0
10 TraesCS3B01G502200 chr3B 86.031 451 60 3 2701 3150 745473288 745472840 8.680000e-132 481.0
11 TraesCS3B01G502200 chr3B 91.292 356 23 5 3464 3817 744730923 744731272 3.120000e-131 479.0
12 TraesCS3B01G502200 chr3B 83.858 508 70 10 2639 3144 746792844 746792347 1.450000e-129 473.0
13 TraesCS3B01G502200 chr3B 78.493 637 95 32 2411 3027 744598119 744597505 3.260000e-101 379.0
14 TraesCS3B01G502200 chr3B 82.166 471 47 13 3840 4285 745192854 745193312 1.960000e-98 370.0
15 TraesCS3B01G502200 chr3B 93.927 247 11 2 3665 3909 745720334 745720578 1.960000e-98 370.0
16 TraesCS3B01G502200 chr3B 87.500 304 23 6 3164 3466 744730565 744730854 1.990000e-88 337.0
17 TraesCS3B01G502200 chr3B 82.477 331 37 13 2201 2531 744545748 744545439 2.050000e-68 270.0
18 TraesCS3B01G502200 chr3B 83.492 315 25 7 3762 4049 746353599 746353913 7.360000e-68 268.0
19 TraesCS3B01G502200 chr3B 97.419 155 3 1 3164 3317 744849150 744849304 3.420000e-66 263.0
20 TraesCS3B01G502200 chr3B 92.818 181 11 1 4284 4462 744850471 744850651 1.230000e-65 261.0
21 TraesCS3B01G502200 chr3B 78.802 434 50 15 4025 4456 745286009 745286402 2.060000e-63 254.0
22 TraesCS3B01G502200 chr3B 78.311 438 53 15 4021 4456 745241600 745241997 1.240000e-60 244.0
23 TraesCS3B01G502200 chr3B 82.301 226 26 10 1407 1622 745547364 745547585 2.740000e-42 183.0
24 TraesCS3B01G502200 chr3B 98.000 100 1 1 2583 2681 744848461 744848560 5.940000e-39 172.0
25 TraesCS3B01G502200 chr3B 87.857 140 17 0 967 1106 732849765 732849626 9.930000e-37 165.0
26 TraesCS3B01G502200 chr3B 87.857 140 15 2 965 1103 716297214 716297076 3.570000e-36 163.0
27 TraesCS3B01G502200 chr3B 89.600 125 13 0 4161 4285 746353918 746354042 4.620000e-35 159.0
28 TraesCS3B01G502200 chr3B 76.488 336 48 14 2201 2531 745541082 745541391 2.150000e-33 154.0
29 TraesCS3B01G502200 chr3B 93.976 83 5 0 2201 2283 747331416 747331498 4.690000e-25 126.0
30 TraesCS3B01G502200 chr3D 93.802 1081 54 6 1129 2205 560551215 560552286 0.000000e+00 1613.0
31 TraesCS3B01G502200 chr3D 90.359 975 64 14 2201 3168 560641092 560642043 0.000000e+00 1253.0
32 TraesCS3B01G502200 chr3D 96.373 579 20 1 2590 3168 560553017 560553594 0.000000e+00 952.0
33 TraesCS3B01G502200 chr3D 86.792 901 59 13 1310 2205 560639974 560640819 0.000000e+00 950.0
34 TraesCS3B01G502200 chr3D 83.333 930 77 35 3572 4464 560554078 560554966 0.000000e+00 787.0
35 TraesCS3B01G502200 chr3D 90.167 600 35 10 3464 4048 560642434 560643024 0.000000e+00 760.0
36 TraesCS3B01G502200 chr3D 94.387 481 22 1 2201 2681 560552559 560553034 0.000000e+00 734.0
37 TraesCS3B01G502200 chr3D 80.000 985 146 31 2205 3171 560753557 560754508 0.000000e+00 680.0
38 TraesCS3B01G502200 chr3D 87.889 289 13 6 3186 3466 560642091 560642365 2.000000e-83 320.0
39 TraesCS3B01G502200 chr3D 87.336 229 25 1 2330 2554 560285687 560285459 4.430000e-65 259.0
40 TraesCS3B01G502200 chr3D 90.780 141 13 0 963 1103 415189981 415190121 5.890000e-44 189.0
41 TraesCS3B01G502200 chr3D 86.503 163 19 3 4147 4309 560700984 560701143 4.590000e-40 176.0
42 TraesCS3B01G502200 chr3D 97.436 78 2 0 3164 3241 560553624 560553701 2.800000e-27 134.0
43 TraesCS3B01G502200 chr3D 92.771 83 6 0 2201 2283 560268591 560268509 2.180000e-23 121.0
44 TraesCS3B01G502200 chr3D 91.566 83 7 0 2201 2283 560867703 560867785 1.010000e-21 115.0
45 TraesCS3B01G502200 chr3D 90.476 84 7 1 2201 2283 560784893 560784810 4.720000e-20 110.0
46 TraesCS3B01G502200 chr3D 82.143 112 12 6 1324 1435 560857224 560857327 6.150000e-14 89.8
47 TraesCS3B01G502200 chr3D 83.333 78 5 4 3724 3799 560480272 560480343 1.040000e-06 65.8
48 TraesCS3B01G502200 chr3A 87.176 772 72 11 1440 2205 696637176 696637926 0.000000e+00 852.0
49 TraesCS3B01G502200 chr3A 81.878 607 78 15 2708 3293 629088745 629089340 2.410000e-132 483.0
50 TraesCS3B01G502200 chr3A 91.977 349 19 3 613 959 711546606 711546265 8.680000e-132 481.0
51 TraesCS3B01G502200 chr3A 83.239 531 75 10 2708 3230 696331219 696330695 4.040000e-130 475.0
52 TraesCS3B01G502200 chr3A 94.719 303 16 0 306 608 711546948 711546646 5.230000e-129 472.0
53 TraesCS3B01G502200 chr3A 84.404 327 35 7 2205 2531 629057463 629057773 1.560000e-79 307.0
54 TraesCS3B01G502200 chr3A 88.571 140 11 2 829 963 83303914 83303775 9.930000e-37 165.0
55 TraesCS3B01G502200 chr2B 83.697 687 61 29 310 960 672747433 672746762 6.390000e-168 601.0
56 TraesCS3B01G502200 chr2B 83.115 687 62 31 310 960 672853096 672853764 1.080000e-160 577.0
57 TraesCS3B01G502200 chr2B 88.235 136 16 0 968 1103 707597944 707597809 3.570000e-36 163.0
58 TraesCS3B01G502200 chr2B 84.615 143 21 1 154 296 707598092 707597951 1.670000e-29 141.0
59 TraesCS3B01G502200 chr2B 91.667 84 4 2 3497 3577 674302641 674302558 3.650000e-21 113.0
60 TraesCS3B01G502200 chrUn 78.753 433 51 15 4025 4456 201952162 201951770 7.410000e-63 252.0
61 TraesCS3B01G502200 chrUn 89.231 65 6 1 228 292 374062600 374062537 3.700000e-11 80.5
62 TraesCS3B01G502200 chr2D 91.489 141 12 0 963 1103 179285192 179285332 1.270000e-45 195.0
63 TraesCS3B01G502200 chr6D 90.780 141 13 0 963 1103 248021425 248021565 5.890000e-44 189.0
64 TraesCS3B01G502200 chr1A 90.714 140 13 0 964 1103 547412754 547412893 2.120000e-43 187.0
65 TraesCS3B01G502200 chr6B 86.842 152 18 2 964 1113 61228601 61228752 7.680000e-38 169.0
66 TraesCS3B01G502200 chr5D 89.630 135 10 2 829 959 311761695 311761829 7.680000e-38 169.0
67 TraesCS3B01G502200 chr5D 97.368 38 1 0 3495 3532 314384630 314384667 1.040000e-06 65.8
68 TraesCS3B01G502200 chr1B 85.000 140 19 2 154 292 576923868 576923730 1.670000e-29 141.0
69 TraesCS3B01G502200 chr1B 80.423 189 27 4 306 492 130541826 130542006 7.790000e-28 135.0
70 TraesCS3B01G502200 chr4B 93.243 74 2 2 3507 3577 406681615 406681542 6.110000e-19 106.0
71 TraesCS3B01G502200 chr4B 88.506 87 9 1 3495 3580 168988627 168988541 2.200000e-18 104.0
72 TraesCS3B01G502200 chr4A 89.535 86 6 2 3495 3580 356556160 356556078 6.110000e-19 106.0
73 TraesCS3B01G502200 chr4A 88.506 87 7 2 3494 3577 32064486 32064572 7.900000e-18 102.0
74 TraesCS3B01G502200 chr4D 91.228 57 5 0 911 967 134138732 134138788 1.330000e-10 78.7
75 TraesCS3B01G502200 chr7D 87.692 65 5 2 3519 3580 556180650 556180714 6.190000e-09 73.1


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 TraesCS3B01G502200 chr3B 746283836 746288299 4463 False 8244.000000 8244 100.000000 1 4464 1 chr3B.!!$F8 4463
1 TraesCS3B01G502200 chr3B 744845685 744850651 4966 False 1173.666667 3498 95.832167 1 4462 6 chr3B.!!$F11 4461
2 TraesCS3B01G502200 chr3B 744728218 744731272 3054 False 1031.500000 1753 92.627250 1127 3817 4 chr3B.!!$F10 2690
3 TraesCS3B01G502200 chr3B 745202691 745203470 779 True 857.000000 857 86.507000 1416 2205 1 chr3B.!!$R6 789
4 TraesCS3B01G502200 chr3B 744590512 744591292 780 False 824.000000 824 85.660000 1411 2205 1 chr3B.!!$F1 794
5 TraesCS3B01G502200 chr3B 744419154 744419881 727 True 822.000000 822 87.009000 1468 2206 1 chr3B.!!$R3 738
6 TraesCS3B01G502200 chr3B 746855666 746856446 780 True 819.000000 819 85.535000 1411 2205 1 chr3B.!!$R9 794
7 TraesCS3B01G502200 chr3B 744597505 744598119 614 True 379.000000 379 78.493000 2411 3027 1 chr3B.!!$R5 616
8 TraesCS3B01G502200 chr3D 560551215 560554966 3751 False 844.000000 1613 93.066200 1129 4464 5 chr3D.!!$F7 3335
9 TraesCS3B01G502200 chr3D 560639974 560643024 3050 False 820.750000 1253 88.801750 1310 4048 4 chr3D.!!$F8 2738
10 TraesCS3B01G502200 chr3D 560753557 560754508 951 False 680.000000 680 80.000000 2205 3171 1 chr3D.!!$F4 966
11 TraesCS3B01G502200 chr3A 696637176 696637926 750 False 852.000000 852 87.176000 1440 2205 1 chr3A.!!$F3 765
12 TraesCS3B01G502200 chr3A 629088745 629089340 595 False 483.000000 483 81.878000 2708 3293 1 chr3A.!!$F2 585
13 TraesCS3B01G502200 chr3A 711546265 711546948 683 True 476.500000 481 93.348000 306 959 2 chr3A.!!$R3 653
14 TraesCS3B01G502200 chr3A 696330695 696331219 524 True 475.000000 475 83.239000 2708 3230 1 chr3A.!!$R2 522
15 TraesCS3B01G502200 chr2B 672746762 672747433 671 True 601.000000 601 83.697000 310 960 1 chr2B.!!$R1 650
16 TraesCS3B01G502200 chr2B 672853096 672853764 668 False 577.000000 577 83.115000 310 960 1 chr2B.!!$F1 650

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
98 99 1.147600 GACTGGTTGGTCACCCGTT 59.852 57.895 0.00 0.00 46.68 4.44 F
796 850 1.597854 TTGCAAGTGGAGGACGCTG 60.598 57.895 0.00 0.00 40.51 5.18 F
2067 2154 0.181587 TCTTTGTCAACCGCCCTTGA 59.818 50.000 0.00 0.00 0.00 3.02 F
2406 2781 1.318158 CCAAGGAGAGCATTGTGCCC 61.318 60.000 0.00 0.00 46.52 5.36 F
3183 3879 0.323816 TGTGTTGTTGGGCCTGACAA 60.324 50.000 18.02 18.02 33.67 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1833 1920 0.462759 CCGGAAGAAGATGGCTGTCC 60.463 60.000 0.00 0.0 0.00 4.02 R
2223 2587 0.182537 CCTGGCCGAATGTATCCCAA 59.817 55.000 0.00 0.0 0.00 4.12 R
2955 3570 0.036022 GGTCAGAGGCTTCAGCTTGT 59.964 55.000 0.00 0.0 41.70 3.16 R
3321 4036 0.828762 TGCTGATTGGCTTGCAAGGT 60.829 50.000 27.10 0.0 32.12 3.50 R
4378 5612 3.090037 TGTTTCTGGAACCAACCGAAAA 58.910 40.909 7.85 0.0 37.45 2.29 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
98 99 1.147600 GACTGGTTGGTCACCCGTT 59.852 57.895 0.00 0.00 46.68 4.44
258 259 3.402681 CCCCGCCATCCAGTCACT 61.403 66.667 0.00 0.00 0.00 3.41
259 260 2.124983 CCCGCCATCCAGTCACTG 60.125 66.667 0.00 0.00 0.00 3.66
796 850 1.597854 TTGCAAGTGGAGGACGCTG 60.598 57.895 0.00 0.00 40.51 5.18
797 851 2.743928 GCAAGTGGAGGACGCTGG 60.744 66.667 0.00 0.00 40.51 4.85
798 852 2.743928 CAAGTGGAGGACGCTGGC 60.744 66.667 0.00 0.00 40.51 4.85
799 853 4.021925 AAGTGGAGGACGCTGGCC 62.022 66.667 0.00 0.00 40.51 5.36
881 936 2.831333 CATAGTTACTGGGCTGAGCTG 58.169 52.381 3.72 0.00 0.00 4.24
901 956 9.056005 TGAGCTGCAAAAGTATAGGTATTAATG 57.944 33.333 1.02 0.00 0.00 1.90
941 997 2.440980 GCCATGGCCCAGGTCTTC 60.441 66.667 27.24 0.00 34.56 2.87
960 1017 3.710722 CCAACTGAGCTCCGCCCT 61.711 66.667 12.15 0.00 0.00 5.19
1011 1068 3.769739 ACCGTATATGCACATCCATGT 57.230 42.857 0.00 0.00 42.84 3.21
1021 1078 4.587891 TGCACATCCATGTCAAGTTATGA 58.412 39.130 0.00 0.00 39.39 2.15
1045 1102 9.093970 TGAAACCAGTTCGATGTATTATACAAG 57.906 33.333 9.24 6.96 39.59 3.16
1058 1115 9.899661 ATGTATTATACAAGTTCAGGCACTAAA 57.100 29.630 9.24 0.00 42.76 1.85
1079 1136 3.424703 ACTGCACATCTATGGCAAGTTT 58.575 40.909 0.00 0.00 34.95 2.66
1091 1148 1.606224 GGCAAGTTTGAGCACCATTGG 60.606 52.381 0.00 0.00 0.00 3.16
1316 1378 7.358023 GCAACTACACAATTTAAATGGACGTTG 60.358 37.037 9.65 14.54 0.00 4.10
2067 2154 0.181587 TCTTTGTCAACCGCCCTTGA 59.818 50.000 0.00 0.00 0.00 3.02
2223 2587 1.597027 GCACCTAACCTGCGTGTGT 60.597 57.895 0.00 0.00 0.00 3.72
2324 2699 6.238484 GCTTCTCTGCCGTGTCAATTAATAAT 60.238 38.462 0.00 0.00 0.00 1.28
2326 2701 7.946655 TCTCTGCCGTGTCAATTAATAATAG 57.053 36.000 0.00 0.00 0.00 1.73
2406 2781 1.318158 CCAAGGAGAGCATTGTGCCC 61.318 60.000 0.00 0.00 46.52 5.36
2439 2814 3.660970 TTGGCCATAGAGGTGCAATTA 57.339 42.857 6.09 0.00 40.61 1.40
2571 2951 7.174599 GCATTGTCAGAGCTGATTATTTATCCT 59.825 37.037 3.19 0.00 42.18 3.24
2695 3310 6.813649 CCTGAACTATGTATGCGCTAATATGT 59.186 38.462 9.73 0.00 0.00 2.29
2836 3451 2.985139 GTTGTTCTTCTACGAGTTCCGG 59.015 50.000 0.00 0.00 43.93 5.14
2955 3570 1.281867 GGGAGGTGATGGTGTGAATGA 59.718 52.381 0.00 0.00 0.00 2.57
3077 3693 2.743664 CACCGACATGCTTCTGATTTGA 59.256 45.455 0.00 0.00 0.00 2.69
3183 3879 0.323816 TGTGTTGTTGGGCCTGACAA 60.324 50.000 18.02 18.02 33.67 3.18
3294 4009 4.563580 GCTGGTGGAAGAAGTAACTGATCA 60.564 45.833 0.00 0.00 0.00 2.92
3363 4080 3.068448 GGGCTTTCTAGTACTCTAGTGCC 59.932 52.174 16.15 16.15 44.41 5.01
3364 4081 3.955551 GGCTTTCTAGTACTCTAGTGCCT 59.044 47.826 16.79 3.07 43.40 4.75
3365 4082 5.131784 GGCTTTCTAGTACTCTAGTGCCTA 58.868 45.833 16.79 3.83 43.40 3.93
3366 4083 5.239963 GGCTTTCTAGTACTCTAGTGCCTAG 59.760 48.000 16.79 10.62 43.40 3.02
3367 4084 5.278120 GCTTTCTAGTACTCTAGTGCCTAGC 60.278 48.000 0.00 0.00 42.88 3.42
3368 4085 5.369409 TTCTAGTACTCTAGTGCCTAGCA 57.631 43.478 0.00 0.00 42.88 3.49
3369 4086 4.963373 TCTAGTACTCTAGTGCCTAGCAG 58.037 47.826 0.00 6.04 42.88 4.24
3370 4087 2.938838 AGTACTCTAGTGCCTAGCAGG 58.061 52.381 0.00 0.00 40.08 4.85
3371 4088 1.957877 GTACTCTAGTGCCTAGCAGGG 59.042 57.143 4.65 0.00 40.08 4.45
3568 4379 3.191669 CACGGCACTTATTATGGAACGA 58.808 45.455 0.00 0.00 0.00 3.85
3822 4641 8.948631 AACACATGGATTACAGAATACTACTG 57.051 34.615 0.00 0.00 40.68 2.74
3910 4729 8.729756 CACACAATCAATCAAATGTACTCCTTA 58.270 33.333 0.00 0.00 0.00 2.69
4114 4953 7.770897 AGTTCCATTCCAATATACTTCTCACAC 59.229 37.037 0.00 0.00 0.00 3.82
4141 4980 7.027874 ACTTCACAAATAATTACTCCCTCCA 57.972 36.000 0.00 0.00 0.00 3.86
4287 5143 4.156922 AGAAACACGTTCACACAAATTCCA 59.843 37.500 0.00 0.00 38.86 3.53
4305 5535 3.342719 TCCAATGCACGAATACACACAT 58.657 40.909 0.00 0.00 0.00 3.21
4316 5546 7.275779 GCACGAATACACACATAATATCTAGGG 59.724 40.741 0.00 0.00 0.00 3.53
4318 5548 9.085645 ACGAATACACACATAATATCTAGGGAA 57.914 33.333 0.00 0.00 0.00 3.97
4371 5605 9.629878 TCATTTTAAAGTCCCACAAGTAAGTTA 57.370 29.630 0.00 0.00 0.00 2.24
4378 5612 6.370453 AGTCCCACAAGTAAGTTAAACCATT 58.630 36.000 0.00 0.00 0.00 3.16
4384 5618 7.168469 CCACAAGTAAGTTAAACCATTTTTCGG 59.832 37.037 0.00 0.00 0.00 4.30
4413 5647 8.454894 GGTTCCAGAAACATCTAATCTTTCTTC 58.545 37.037 0.00 0.00 39.81 2.87
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
39 40 4.389374 CCACTAGACCACTTCACATTTGT 58.611 43.478 0.00 0.00 0.00 2.83
45 46 2.417515 GCTAGCCACTAGACCACTTCAC 60.418 54.545 2.29 0.00 36.26 3.18
98 99 1.695242 ACTGGTGTTATGGTGGTTCGA 59.305 47.619 0.00 0.00 0.00 3.71
162 163 3.636153 ATAAGGCCCTGACTGAGAAAC 57.364 47.619 0.00 0.00 0.00 2.78
168 169 2.167693 TCGTACAATAAGGCCCTGACTG 59.832 50.000 0.00 0.00 0.00 3.51
172 173 5.576447 ATTTTTCGTACAATAAGGCCCTG 57.424 39.130 0.00 0.00 0.00 4.45
258 259 4.408821 GCATGGGACCCGCTGTCA 62.409 66.667 5.91 0.00 46.38 3.58
443 444 2.094130 AGGGTACGAGTAGAAGCAAAGC 60.094 50.000 0.00 0.00 0.00 3.51
901 956 4.212425 CCCGCCCAAGATTTTAACAAAAAC 59.788 41.667 0.00 0.00 33.47 2.43
960 1017 2.104729 GTATACGCCCGCGACCAA 59.895 61.111 17.16 0.00 42.83 3.67
1011 1068 5.995282 ACATCGAACTGGTTTCATAACTTGA 59.005 36.000 0.00 0.00 33.24 3.02
1021 1078 9.444600 AACTTGTATAATACATCGAACTGGTTT 57.555 29.630 0.00 0.00 38.68 3.27
1045 1102 1.946768 TGTGCAGTTTAGTGCCTGAAC 59.053 47.619 7.07 0.00 43.28 3.18
1058 1115 2.795231 ACTTGCCATAGATGTGCAGT 57.205 45.000 0.00 4.97 36.10 4.40
1233 1293 6.614160 ACAAATTAAACTGTGTATTACGCCC 58.386 36.000 4.99 0.00 0.00 6.13
1316 1378 7.361628 CCCTAGAAACAGCTTCTCTTCAATTTC 60.362 40.741 0.00 0.00 43.66 2.17
1833 1920 0.462759 CCGGAAGAAGATGGCTGTCC 60.463 60.000 0.00 0.00 0.00 4.02
2223 2587 0.182537 CCTGGCCGAATGTATCCCAA 59.817 55.000 0.00 0.00 0.00 4.12
2324 2699 4.787135 TTGGGATCATACATTGGCACTA 57.213 40.909 0.00 0.00 0.00 2.74
2326 2701 4.942761 AATTGGGATCATACATTGGCAC 57.057 40.909 0.00 0.00 0.00 5.01
2439 2814 0.537143 TGACAGAATTGCGGCAACCT 60.537 50.000 18.94 14.87 0.00 3.50
2695 3310 4.202233 TGCAAATGAAAACAATCAGCAGGA 60.202 37.500 0.00 0.00 31.76 3.86
2836 3451 0.875059 CAACTTCGCTTCTTGACCCC 59.125 55.000 0.00 0.00 0.00 4.95
2955 3570 0.036022 GGTCAGAGGCTTCAGCTTGT 59.964 55.000 0.00 0.00 41.70 3.16
3077 3693 0.555769 TCAAAGGGGTCAGCAAACCT 59.444 50.000 7.38 0.00 39.42 3.50
3319 4034 1.135286 GCTGATTGGCTTGCAAGGTAC 60.135 52.381 27.10 11.04 0.00 3.34
3320 4035 1.176527 GCTGATTGGCTTGCAAGGTA 58.823 50.000 27.10 0.00 0.00 3.08
3321 4036 0.828762 TGCTGATTGGCTTGCAAGGT 60.829 50.000 27.10 0.00 32.12 3.50
3375 4092 4.892934 ACAAACCAGAAAAACCATGCTAGA 59.107 37.500 0.00 0.00 0.00 2.43
3380 4097 4.399004 TGGACAAACCAGAAAAACCATG 57.601 40.909 0.00 0.00 44.64 3.66
3568 4379 6.384305 ACTGCAGTAATCAGTAATACTCCCTT 59.616 38.462 20.16 0.00 42.45 3.95
3822 4641 5.277828 CCAGTTTGGTCTGTGCTACTTTAAC 60.278 44.000 0.00 0.00 34.02 2.01
3910 4729 4.302455 CTGAATCGGATCGATAAGCTGTT 58.698 43.478 0.00 0.00 46.30 3.16
4114 4953 7.281100 GGAGGGAGTAATTATTTGTGAAGTCTG 59.719 40.741 0.00 0.00 0.00 3.51
4287 5143 8.607441 AGATATTATGTGTGTATTCGTGCATT 57.393 30.769 0.00 0.00 0.00 3.56
4358 5592 7.168469 CCGAAAAATGGTTTAACTTACTTGTGG 59.832 37.037 0.00 0.00 0.00 4.17
4378 5612 3.090037 TGTTTCTGGAACCAACCGAAAA 58.910 40.909 7.85 0.00 37.45 2.29
4384 5618 7.454260 AAGATTAGATGTTTCTGGAACCAAC 57.546 36.000 0.00 0.00 37.45 3.77
4413 5647 7.860373 TGTCGAAATATTTCTGAAGTTTGTTGG 59.140 33.333 22.52 5.79 35.07 3.77


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

AutoCloner maintained by Alex Coulton.