Multiple sequence alignment - TraesCS7D01G537600

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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 TraesCS7D01G537600 chr7D 100.000 4468 0 0 1 4468 629115424 629119891 0.000000e+00 8251.0
1 TraesCS7D01G537600 chr7D 83.955 617 63 24 2018 2606 628223681 628223073 3.900000e-155 558.0
2 TraesCS7D01G537600 chr7D 81.818 594 75 23 1836 2410 628219619 628219040 6.770000e-128 468.0
3 TraesCS7D01G537600 chr7D 85.514 428 49 9 2667 3089 629110096 629110515 6.860000e-118 435.0
4 TraesCS7D01G537600 chr7D 78.237 363 53 11 1629 1966 628224229 628223868 4.530000e-50 209.0
5 TraesCS7D01G537600 chr7D 73.402 579 107 35 1835 2388 92140216 92140772 5.940000e-39 172.0
6 TraesCS7D01G537600 chr7D 87.179 156 15 2 1816 1966 629108776 629108931 5.940000e-39 172.0
7 TraesCS7D01G537600 chr7D 100.000 73 0 0 2673 2745 92217935 92218007 7.800000e-28 135.0
8 TraesCS7D01G537600 chr7D 74.859 354 62 22 2058 2404 92220009 92220342 7.800000e-28 135.0
9 TraesCS7D01G537600 chr7D 86.066 122 16 1 999 1120 628224855 628224735 3.630000e-26 130.0
10 TraesCS7D01G537600 chr7D 97.260 73 2 0 2673 2745 92140981 92141053 1.690000e-24 124.0
11 TraesCS7D01G537600 chr7D 88.406 69 7 1 1055 1123 628220533 628220466 1.030000e-11 82.4
12 TraesCS7D01G537600 chr7A 90.505 3307 223 36 1 3286 725138807 725135571 0.000000e+00 4283.0
13 TraesCS7D01G537600 chr7A 79.173 1282 181 49 1211 2451 724919344 724920580 0.000000e+00 809.0
14 TraesCS7D01G537600 chr7A 77.597 1290 184 69 1178 2410 724950699 724951940 0.000000e+00 684.0
15 TraesCS7D01G537600 chr7A 92.157 306 20 4 3267 3570 725135534 725135231 3.190000e-116 429.0
16 TraesCS7D01G537600 chr7A 85.037 401 47 8 2018 2410 724947508 724947903 3.240000e-106 396.0
17 TraesCS7D01G537600 chr7A 80.430 419 49 12 2667 3078 725151711 725151319 5.650000e-74 289.0
18 TraesCS7D01G537600 chr7A 89.394 132 14 0 1835 1966 724947195 724947326 2.760000e-37 167.0
19 TraesCS7D01G537600 chr7A 85.714 133 17 2 991 1123 724950484 724950614 6.030000e-29 139.0
20 TraesCS7D01G537600 chr7A 100.000 73 0 0 2673 2745 94291350 94291422 7.800000e-28 135.0
21 TraesCS7D01G537600 chr7A 86.885 122 15 1 999 1120 724946345 724946465 7.800000e-28 135.0
22 TraesCS7D01G537600 chr7A 98.630 73 1 0 2673 2745 94321265 94321337 3.630000e-26 130.0
23 TraesCS7D01G537600 chr7A 98.630 73 1 0 2673 2745 94323901 94323973 3.630000e-26 130.0
24 TraesCS7D01G537600 chr7B 91.807 1782 97 24 1797 3570 731036035 731034295 0.000000e+00 2436.0
25 TraesCS7D01G537600 chr7B 90.676 1523 98 13 268 1752 731037619 731036103 0.000000e+00 1986.0
26 TraesCS7D01G537600 chr7B 79.223 1468 188 59 1211 2606 730808943 730810365 0.000000e+00 913.0
27 TraesCS7D01G537600 chr7B 86.047 430 51 8 2667 3095 731042792 731042371 1.890000e-123 453.0
28 TraesCS7D01G537600 chr7B 88.477 243 21 4 1 236 731039601 731039359 2.030000e-73 287.0
29 TraesCS7D01G537600 chr7B 75.935 428 61 25 2667 3066 730810371 730810784 9.870000e-42 182.0
30 TraesCS7D01G537600 chr7B 87.821 156 14 2 1816 1966 731045694 731045539 1.280000e-40 178.0
31 TraesCS7D01G537600 chr7B 88.785 107 12 0 2058 2164 44236183 44236289 1.010000e-26 132.0
32 TraesCS7D01G537600 chr7B 98.630 73 1 0 2673 2745 44236716 44236788 3.630000e-26 130.0
33 TraesCS7D01G537600 chr1A 98.000 900 17 1 3569 4468 548283427 548282529 0.000000e+00 1561.0
34 TraesCS7D01G537600 chr2A 97.773 898 19 1 3571 4468 62612941 62613837 0.000000e+00 1546.0
35 TraesCS7D01G537600 chr1D 95.934 910 22 2 3571 4468 385623741 385622835 0.000000e+00 1461.0
36 TraesCS7D01G537600 chr4D 98.998 499 5 0 3970 4468 10476295 10475797 0.000000e+00 894.0
37 TraesCS7D01G537600 chr4D 99.259 405 3 0 3571 3975 10483111 10482707 0.000000e+00 732.0
38 TraesCS7D01G537600 chr4A 91.908 173 14 0 3571 3743 545768082 545768254 4.470000e-60 243.0


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 TraesCS7D01G537600 chr7D 629115424 629119891 4467 False 8251.00 8251 100.0000 1 4468 1 chr7D.!!$F1 4467
1 TraesCS7D01G537600 chr7D 629108776 629110515 1739 False 303.50 435 86.3465 1816 3089 2 chr7D.!!$F4 1273
2 TraesCS7D01G537600 chr7D 628219040 628224855 5815 True 289.48 558 83.6964 999 2606 5 chr7D.!!$R1 1607
3 TraesCS7D01G537600 chr7A 725135231 725138807 3576 True 2356.00 4283 91.3310 1 3570 2 chr7A.!!$R2 3569
4 TraesCS7D01G537600 chr7A 724919344 724920580 1236 False 809.00 809 79.1730 1211 2451 1 chr7A.!!$F2 1240
5 TraesCS7D01G537600 chr7A 724946345 724951940 5595 False 304.20 684 84.9254 991 2410 5 chr7A.!!$F4 1419
6 TraesCS7D01G537600 chr7B 731034295 731045694 11399 True 1068.00 2436 88.9656 1 3570 5 chr7B.!!$R1 3569
7 TraesCS7D01G537600 chr7B 730808943 730810784 1841 False 547.50 913 77.5790 1211 3066 2 chr7B.!!$F2 1855
8 TraesCS7D01G537600 chr1A 548282529 548283427 898 True 1561.00 1561 98.0000 3569 4468 1 chr1A.!!$R1 899
9 TraesCS7D01G537600 chr2A 62612941 62613837 896 False 1546.00 1546 97.7730 3571 4468 1 chr2A.!!$F1 897
10 TraesCS7D01G537600 chr1D 385622835 385623741 906 True 1461.00 1461 95.9340 3571 4468 1 chr1D.!!$R1 897

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
943 8806 0.105964 TTCTTCTCCACACACACCCG 59.894 55.0 0.0 0.0 0.00 5.28 F
1367 9320 0.107703 CGTCCCAGCTAAATGCCTGA 60.108 55.0 0.0 0.0 44.23 3.86 F
1471 9427 0.613260 CAGGGATTGTGGTCTCGGAA 59.387 55.0 0.0 0.0 0.00 4.30 F
2033 10395 0.807496 GCACTGACAATCTTCAGGCC 59.193 55.0 0.0 0.0 46.38 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2261 10652 1.323271 GCCTCCTCACGATGTCCAGA 61.323 60.000 0.0 0.0 0.0 3.86 R
3295 12256 0.581529 TTCAAGCTGCTCAAACGACG 59.418 50.000 1.0 0.0 0.0 5.12 R
3301 12262 5.010314 AGACATTCAAATTCAAGCTGCTCAA 59.990 36.000 1.0 0.0 0.0 3.02 R
3731 12744 4.919754 GCTACAGACAAAGAAAAATGCCTG 59.080 41.667 0.0 0.0 33.8 4.85 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
21 6115 2.967201 TGACTCGTTCAACCCTCCTAAA 59.033 45.455 0.00 0.00 0.00 1.85
23 6117 3.995048 GACTCGTTCAACCCTCCTAAAAG 59.005 47.826 0.00 0.00 0.00 2.27
41 6135 1.589414 AGCAACTCCAATAGCTCCCT 58.411 50.000 0.00 0.00 30.05 4.20
100 6194 5.279456 GCAAAAATATCCCTCCAACAGTTGT 60.279 40.000 12.42 0.00 0.00 3.32
105 6199 2.253610 TCCCTCCAACAGTTGTCGTAT 58.746 47.619 12.42 0.00 0.00 3.06
177 6277 6.551227 AGATGACCTTCCCTTATAATTTTGGC 59.449 38.462 0.00 0.00 0.00 4.52
187 6287 5.453198 CCTTATAATTTTGGCGGGCTGAATT 60.453 40.000 15.62 15.62 0.00 2.17
194 6294 0.179468 GGCGGGCTGAATTACACCTA 59.821 55.000 0.00 0.00 0.00 3.08
199 6299 4.322801 GCGGGCTGAATTACACCTAGATAT 60.323 45.833 0.00 0.00 0.00 1.63
209 6309 0.251209 ACCTAGATATCCTCGCGCCA 60.251 55.000 0.00 0.00 0.00 5.69
212 6312 1.583495 TAGATATCCTCGCGCCACCG 61.583 60.000 0.00 0.00 37.57 4.94
229 6329 4.250305 GCCACTGTCCCACACCGT 62.250 66.667 0.00 0.00 0.00 4.83
252 8074 4.927782 TGCCACACCACCACGCTC 62.928 66.667 0.00 0.00 0.00 5.03
308 8130 3.964875 CCGTGCCAGCACCAACAC 61.965 66.667 16.69 0.00 43.49 3.32
330 8152 0.866061 CCGACCATCGCTACAACGAG 60.866 60.000 0.00 0.00 46.69 4.18
338 8160 1.279527 CGCTACAACGAGTTTCGCCA 61.280 55.000 0.00 0.00 45.12 5.69
357 8179 3.588906 CATGCCGACATGCGCCAT 61.589 61.111 4.18 0.00 46.75 4.40
385 8207 1.716050 CACGTGTCACTGATCGACTTG 59.284 52.381 7.58 0.00 34.37 3.16
390 8212 1.079819 CACTGATCGACTTGCGGGT 60.080 57.895 0.00 0.00 41.33 5.28
391 8213 0.670546 CACTGATCGACTTGCGGGTT 60.671 55.000 0.00 0.00 41.33 4.11
433 8255 9.858247 GGCTTTTTAACGGAAAATAAAGAAAAG 57.142 29.630 0.00 0.00 36.89 2.27
490 8312 2.715763 TAGGGGTCAGACAACTTCCT 57.284 50.000 2.17 3.79 0.00 3.36
501 8323 9.614792 GGTCAGACAACTTCCTGTAAATTATAT 57.385 33.333 2.17 0.00 0.00 0.86
694 8520 5.474876 AGCAAACTTCTCGATTCCTTCATTT 59.525 36.000 0.00 0.00 0.00 2.32
737 8563 3.388676 TCGTTTTAGTTGGGTGGAAGAGA 59.611 43.478 0.00 0.00 0.00 3.10
746 8572 4.722526 TGGGTGGAAGAGATTTTCAGAA 57.277 40.909 0.00 0.00 0.00 3.02
750 8576 5.124617 GGGTGGAAGAGATTTTCAGAATCAC 59.875 44.000 2.07 0.00 0.00 3.06
792 8618 1.773525 GTTGCTCGAACGAAACAAAGC 59.226 47.619 11.76 5.70 0.00 3.51
793 8619 1.295792 TGCTCGAACGAAACAAAGCT 58.704 45.000 0.00 0.00 0.00 3.74
794 8620 2.475818 TGCTCGAACGAAACAAAGCTA 58.524 42.857 0.00 0.00 0.00 3.32
932 8795 6.425417 CCTAAACAAGTCAAGTCTTCTTCTCC 59.575 42.308 0.00 0.00 0.00 3.71
933 8796 5.359194 AACAAGTCAAGTCTTCTTCTCCA 57.641 39.130 0.00 0.00 0.00 3.86
939 8802 3.450817 TCAAGTCTTCTTCTCCACACACA 59.549 43.478 0.00 0.00 0.00 3.72
943 8806 0.105964 TTCTTCTCCACACACACCCG 59.894 55.000 0.00 0.00 0.00 5.28
966 8829 6.437928 CGACAAATCAAATCAGGTTCTTTCA 58.562 36.000 0.00 0.00 0.00 2.69
1036 8899 0.788391 CCTGGTTCTAACGACGTTGC 59.212 55.000 23.00 10.04 0.00 4.17
1107 8970 4.749976 TCACACCAAAGGTAAACAAAAGC 58.250 39.130 0.00 0.00 32.11 3.51
1134 8997 4.745649 ACTAGTTCTTTAACGGCTAGCTG 58.254 43.478 22.26 22.26 40.73 4.24
1136 8999 3.586892 AGTTCTTTAACGGCTAGCTGTC 58.413 45.455 28.87 14.61 40.73 3.51
1156 9019 1.066929 CCAGCTTTGCCACCATTAACC 60.067 52.381 0.00 0.00 0.00 2.85
1225 9167 2.610694 GCAGCAGCTTCAGTCGCAA 61.611 57.895 0.00 0.00 37.91 4.85
1338 9289 7.362747 GCATTTCTGAAGTTTCTGAATGATCCT 60.363 37.037 12.85 0.00 42.24 3.24
1367 9320 0.107703 CGTCCCAGCTAAATGCCTGA 60.108 55.000 0.00 0.00 44.23 3.86
1394 9347 6.855836 TCTTGATCAATCAATGGTTTGTAGC 58.144 36.000 8.96 0.00 44.92 3.58
1425 9381 0.746659 GCAACAGCAAGAAACCCTGT 59.253 50.000 0.00 0.00 41.26 4.00
1471 9427 0.613260 CAGGGATTGTGGTCTCGGAA 59.387 55.000 0.00 0.00 0.00 4.30
1490 9446 1.960040 ATCCGATCTTCACCTGCGCA 61.960 55.000 10.98 10.98 0.00 6.09
1535 9508 4.035208 AGGTCTTTCTTGCGTGTTTAGTTG 59.965 41.667 0.00 0.00 0.00 3.16
1539 9516 4.364415 TTCTTGCGTGTTTAGTTGCTTT 57.636 36.364 0.00 0.00 0.00 3.51
1584 9565 2.916640 TGACATTGACTGCACTTCACA 58.083 42.857 0.00 0.00 0.00 3.58
1624 9622 9.129532 GAGGGATCATGTTTCATTTCTTCTTAT 57.870 33.333 0.00 0.00 0.00 1.73
1625 9623 9.484806 AGGGATCATGTTTCATTTCTTCTTATT 57.515 29.630 0.00 0.00 0.00 1.40
1781 9814 6.791867 TCCTCAAGCTAGCACTAGATTTTA 57.208 37.500 18.83 0.00 39.48 1.52
1809 9886 7.712204 TGTACAACTCTATGGTCATCAGTTA 57.288 36.000 0.00 0.00 0.00 2.24
1883 9969 1.485124 TCCACTATGATGGACGCACT 58.515 50.000 0.00 0.00 44.14 4.40
2033 10395 0.807496 GCACTGACAATCTTCAGGCC 59.193 55.000 0.00 0.00 46.38 5.19
2207 10591 7.042791 GCTTTTCTCTGAGCTCTGAATATGTAC 60.043 40.741 21.88 7.73 36.01 2.90
2211 10595 7.283329 TCTCTGAGCTCTGAATATGTACTGTA 58.717 38.462 21.88 0.00 0.00 2.74
2237 10624 8.497745 AGATGATGATGATTAACAGGTAGGTTT 58.502 33.333 0.00 0.00 32.29 3.27
2238 10625 8.682936 ATGATGATGATTAACAGGTAGGTTTC 57.317 34.615 0.00 0.00 32.29 2.78
2240 10627 6.288941 TGATGATTAACAGGTAGGTTTCGA 57.711 37.500 0.00 0.00 32.29 3.71
2242 10629 7.335627 TGATGATTAACAGGTAGGTTTCGAAT 58.664 34.615 0.00 0.00 32.29 3.34
2243 10630 6.978343 TGATTAACAGGTAGGTTTCGAATG 57.022 37.500 0.00 0.00 32.29 2.67
2251 10642 3.438781 GGTAGGTTTCGAATGTGCATTGA 59.561 43.478 0.00 0.00 0.00 2.57
2327 10718 4.717313 GACGTGACCAAGGGGCCC 62.717 72.222 17.12 17.12 37.90 5.80
2486 11053 3.264193 TCATAAACAGGACAGATGCAGGT 59.736 43.478 0.00 0.00 0.00 4.00
2508 11075 4.291047 AGCATTGCTCAGACGTGG 57.709 55.556 5.03 0.00 30.62 4.94
2509 11076 1.376424 AGCATTGCTCAGACGTGGG 60.376 57.895 5.03 0.00 30.62 4.61
2763 11603 5.221224 CCAGGTGCACTTGTCAAGAAAATAA 60.221 40.000 25.26 0.00 0.00 1.40
2776 11616 9.158233 TGTCAAGAAAATAAGTTATTCCTACGG 57.842 33.333 8.56 4.23 0.00 4.02
2783 11623 9.457436 AAAATAAGTTATTCCTACGGTTGACAT 57.543 29.630 8.56 0.00 0.00 3.06
3080 11948 6.147985 GCCAGGTAATTCTCGAATTATTCTCC 59.852 42.308 13.43 10.41 42.93 3.71
3093 11961 7.437267 TCGAATTATTCTCCACGGATTAAACTC 59.563 37.037 3.34 0.00 0.00 3.01
3136 12037 4.683129 GCTCTCCTCCATCTTCTTTTCTCC 60.683 50.000 0.00 0.00 0.00 3.71
3301 12262 7.482428 GGCATTATTGTGTTTAATAACGTCGTT 59.518 33.333 15.97 15.97 35.88 3.85
3321 12282 4.682860 CGTTTGAGCAGCTTGAATTTGAAT 59.317 37.500 0.00 0.00 0.00 2.57
3331 12339 6.145048 CAGCTTGAATTTGAATGTCTTTCCAC 59.855 38.462 0.00 0.00 33.04 4.02
3338 12346 9.490663 GAATTTGAATGTCTTTCCACTTATACG 57.509 33.333 0.00 0.00 33.04 3.06
3474 12485 5.351465 ACATCAATACAGAACTAGTTTGCGG 59.649 40.000 10.02 1.29 0.00 5.69
3486 12497 2.446435 AGTTTGCGGGATTAGTTGCAT 58.554 42.857 0.00 0.00 37.17 3.96
3488 12499 3.377172 AGTTTGCGGGATTAGTTGCATAC 59.623 43.478 0.00 0.00 38.85 2.39
3489 12500 2.700722 TGCGGGATTAGTTGCATACA 57.299 45.000 0.00 0.00 31.31 2.29
3490 12501 2.992593 TGCGGGATTAGTTGCATACAA 58.007 42.857 0.00 0.00 31.31 2.41
3491 12502 3.550820 TGCGGGATTAGTTGCATACAAT 58.449 40.909 0.00 0.00 38.27 2.71
3492 12503 4.709250 TGCGGGATTAGTTGCATACAATA 58.291 39.130 0.00 0.00 38.27 1.90
3493 12504 5.312895 TGCGGGATTAGTTGCATACAATAT 58.687 37.500 0.00 0.00 38.27 1.28
3731 12744 7.546358 TGTCAATTGATTCCCACATGATTTAC 58.454 34.615 12.12 0.00 0.00 2.01
3831 12844 8.302515 AGAAAAATACACTCGGACCTATCTTA 57.697 34.615 0.00 0.00 0.00 2.10
4092 13105 0.740737 GCTGTTGCTTGGTCTGTTGT 59.259 50.000 0.00 0.00 36.03 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 6115 1.918957 AGGGAGCTATTGGAGTTGCTT 59.081 47.619 0.00 0.00 35.76 3.91
23 6117 2.426842 AAGGGAGCTATTGGAGTTGC 57.573 50.000 0.00 0.00 0.00 4.17
165 6265 5.606348 AATTCAGCCCGCCAAAATTATAA 57.394 34.783 0.00 0.00 0.00 0.98
177 6277 3.753294 ATCTAGGTGTAATTCAGCCCG 57.247 47.619 0.00 0.00 44.62 6.13
187 6287 2.082231 GCGCGAGGATATCTAGGTGTA 58.918 52.381 12.10 0.00 0.00 2.90
194 6294 2.920645 CGGTGGCGCGAGGATATCT 61.921 63.158 12.10 0.00 0.00 1.98
209 6309 4.250305 GTGTGGGACAGTGGCGGT 62.250 66.667 0.00 0.00 41.80 5.68
212 6312 4.250305 ACGGTGTGGGACAGTGGC 62.250 66.667 0.00 0.00 41.80 5.01
229 6329 0.608856 GTGGTGGTGTGGCATCATGA 60.609 55.000 0.00 0.00 0.00 3.07
308 8130 3.709880 TTGTAGCGATGGTCGGCGG 62.710 63.158 7.21 0.00 40.84 6.13
313 8135 1.992170 AACTCGTTGTAGCGATGGTC 58.008 50.000 0.00 0.00 40.29 4.02
385 8207 1.070289 AGCTAATAGCCTACAACCCGC 59.930 52.381 8.88 0.00 43.77 6.13
390 8212 5.888982 AAAGCCTAGCTAATAGCCTACAA 57.111 39.130 8.88 0.00 43.77 2.41
391 8213 5.888982 AAAAGCCTAGCTAATAGCCTACA 57.111 39.130 8.88 0.00 43.77 2.74
417 8239 8.856247 CCGTAAAATCCTTTTCTTTATTTTCCG 58.144 33.333 0.00 0.00 34.37 4.30
433 8255 7.442062 TCCCGTAAATATCTTTCCGTAAAATCC 59.558 37.037 0.00 0.00 0.00 3.01
441 8263 3.492011 CGGTTCCCGTAAATATCTTTCCG 59.508 47.826 0.00 0.00 42.73 4.30
469 8291 4.030913 CAGGAAGTTGTCTGACCCCTATA 58.969 47.826 5.17 0.00 33.11 1.31
470 8292 2.840651 CAGGAAGTTGTCTGACCCCTAT 59.159 50.000 5.17 0.00 33.11 2.57
737 8563 1.818674 GTGCCCCGTGATTCTGAAAAT 59.181 47.619 0.00 0.00 0.00 1.82
759 8585 1.523154 GAGCAACGGAAATGTGGGCA 61.523 55.000 0.00 0.00 0.00 5.36
792 8618 4.463186 ACTGACCCAAGTGCTTACTAGTAG 59.537 45.833 2.23 0.00 0.00 2.57
793 8619 4.219944 CACTGACCCAAGTGCTTACTAGTA 59.780 45.833 0.00 0.00 41.05 1.82
794 8620 3.006967 CACTGACCCAAGTGCTTACTAGT 59.993 47.826 0.00 0.00 41.05 2.57
932 8795 1.304254 TGATTTGTCGGGTGTGTGTG 58.696 50.000 0.00 0.00 0.00 3.82
933 8796 2.045561 TTGATTTGTCGGGTGTGTGT 57.954 45.000 0.00 0.00 0.00 3.72
939 8802 3.154827 ACCTGATTTGATTTGTCGGGT 57.845 42.857 0.00 0.00 44.69 5.28
943 8806 7.869429 ACATGAAAGAACCTGATTTGATTTGTC 59.131 33.333 0.00 0.00 0.00 3.18
966 8829 6.348540 GCGAACCAAGATACAAGAAAGAACAT 60.349 38.462 0.00 0.00 0.00 2.71
1107 8970 6.200475 GCTAGCCGTTAAAGAACTAGTAATGG 59.800 42.308 2.29 8.63 37.09 3.16
1134 8997 1.544724 TAATGGTGGCAAAGCTGGAC 58.455 50.000 0.00 0.00 0.00 4.02
1136 8999 1.066929 GGTTAATGGTGGCAAAGCTGG 60.067 52.381 0.00 0.00 0.00 4.85
1148 9011 2.009774 CCGTTCAGAGCTGGTTAATGG 58.990 52.381 0.00 0.00 0.00 3.16
1156 9019 1.565305 GCATAGTCCGTTCAGAGCTG 58.435 55.000 0.00 0.00 0.00 4.24
1225 9167 2.897271 TAATCTGCCCAACATGGTGT 57.103 45.000 10.47 0.00 35.17 4.16
1338 9289 2.851263 AGCTGGGACGAAATACAACA 57.149 45.000 0.00 0.00 0.00 3.33
1394 9347 2.977405 GCTGTTGCAACCTCTACAAG 57.023 50.000 26.14 15.58 39.41 3.16
1425 9381 2.444140 GCCTCTCCGCCCCTTCTA 60.444 66.667 0.00 0.00 0.00 2.10
1453 9409 1.486726 GATTCCGAGACCACAATCCCT 59.513 52.381 0.00 0.00 0.00 4.20
1471 9427 1.227380 GCGCAGGTGAAGATCGGAT 60.227 57.895 0.30 0.00 0.00 4.18
1509 9465 2.038387 ACACGCAAGAAAGACCTGTT 57.962 45.000 0.00 0.00 43.62 3.16
1584 9565 2.685106 TCCCTCAGACAGAGTGAAGT 57.315 50.000 0.00 0.00 43.12 3.01
1624 9622 4.940654 TCGCATGATCAAACCATGAAGTAA 59.059 37.500 0.00 0.00 42.89 2.24
1625 9623 4.512484 TCGCATGATCAAACCATGAAGTA 58.488 39.130 0.00 0.00 42.89 2.24
1781 9814 7.124901 ACTGATGACCATAGAGTTGTACATCTT 59.875 37.037 7.85 1.97 35.45 2.40
1809 9886 6.602278 ACTCATTTGATGATCATGGTCAGAT 58.398 36.000 14.30 3.98 38.85 2.90
1883 9969 2.696526 ACTCTTGGTCCCACTCTGTA 57.303 50.000 0.00 0.00 0.00 2.74
1913 9999 3.367395 CGCTGACATGAGTGACCTTCTTA 60.367 47.826 0.00 0.00 0.00 2.10
1971 10057 7.716612 ACTGAAATTAGGAAAGTTTTGACAGG 58.283 34.615 0.00 0.00 0.00 4.00
2096 10470 1.657487 CACGTAGTCATAGGGCGCG 60.657 63.158 0.00 0.00 41.61 6.86
2207 10591 9.636879 CTACCTGTTAATCATCATCATCTACAG 57.363 37.037 0.00 0.00 0.00 2.74
2211 10595 7.623999 ACCTACCTGTTAATCATCATCATCT 57.376 36.000 0.00 0.00 0.00 2.90
2251 10642 2.435805 ACGATGTCCAGATACCTGCAAT 59.564 45.455 0.00 0.00 39.07 3.56
2261 10652 1.323271 GCCTCCTCACGATGTCCAGA 61.323 60.000 0.00 0.00 0.00 3.86
2327 10718 2.182825 GTGATGTAGTAAGTCGGTGCG 58.817 52.381 0.00 0.00 0.00 5.34
2896 11736 5.449588 CCAAACGCTGCTCAAATAATCTGAT 60.450 40.000 0.00 0.00 0.00 2.90
2950 11812 5.947228 TTCAGATGAGTAAAGGTGCAAAG 57.053 39.130 0.00 0.00 0.00 2.77
3093 11961 2.799412 GCTCTTAAGTGATCGAGCATGG 59.201 50.000 6.66 0.00 46.06 3.66
3136 12037 4.226427 TCTTTCTCACCCTGAATGATGG 57.774 45.455 0.00 0.00 0.00 3.51
3205 12109 9.687210 CATTGTTAGCATGCTTTATTGACATAT 57.313 29.630 28.02 12.89 0.00 1.78
3212 12116 6.038356 GCACTCATTGTTAGCATGCTTTATT 58.962 36.000 28.02 3.06 0.00 1.40
3295 12256 0.581529 TTCAAGCTGCTCAAACGACG 59.418 50.000 1.00 0.00 0.00 5.12
3301 12262 5.010314 AGACATTCAAATTCAAGCTGCTCAA 59.990 36.000 1.00 0.00 0.00 3.02
3545 12558 5.386958 TGTATTATCACCTACCGCATCTC 57.613 43.478 0.00 0.00 0.00 2.75
3731 12744 4.919754 GCTACAGACAAAGAAAAATGCCTG 59.080 41.667 0.00 0.00 33.80 4.85
4240 13459 4.325972 TGTCTGCTTGTATTGCATCTCAA 58.674 39.130 0.00 0.00 39.86 3.02


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

AutoCloner maintained by Alex Coulton.