Multiple sequence alignment - TraesCS2B01G477100

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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 TraesCS2B01G477100 chr2B 100.000 4358 0 0 1 4358 674025853 674030210 0.000000e+00 8048.0
1 TraesCS2B01G477100 chr2A 94.383 3258 138 26 767 4009 703865517 703868744 0.000000e+00 4961.0
2 TraesCS2B01G477100 chr2A 93.135 539 32 4 1 535 703720626 703721163 0.000000e+00 785.0
3 TraesCS2B01G477100 chr2A 87.651 332 16 10 4051 4358 703868740 703869070 3.200000e-96 363.0
4 TraesCS2B01G477100 chr2A 91.235 251 20 2 530 780 703861521 703861769 1.500000e-89 340.0
5 TraesCS2B01G477100 chr2D 93.210 3358 128 35 708 4007 563783163 563786478 0.000000e+00 4846.0
6 TraesCS2B01G477100 chr2D 88.358 335 12 12 4051 4358 563786475 563786809 1.140000e-100 377.0
7 TraesCS2B01G477100 chr2D 89.695 262 23 4 466 727 563759780 563760037 9.030000e-87 331.0
8 TraesCS2B01G477100 chr2D 86.084 309 29 4 189 485 563758794 563759100 1.960000e-83 320.0
9 TraesCS2B01G477100 chr2D 100.000 29 0 0 965 993 153801628 153801600 2.000000e-03 54.7
10 TraesCS2B01G477100 chr6D 79.845 387 75 3 2187 2572 344308466 344308082 3.320000e-71 279.0
11 TraesCS2B01G477100 chr6B 79.275 386 77 3 2187 2571 519851972 519851589 2.580000e-67 267.0
12 TraesCS2B01G477100 chr1A 85.909 220 20 3 1709 1927 524117645 524117854 1.580000e-54 224.0
13 TraesCS2B01G477100 chr1A 85.455 220 21 5 1709 1927 525912083 525912292 7.340000e-53 219.0


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 TraesCS2B01G477100 chr2B 674025853 674030210 4357 False 8048.0 8048 100.000000 1 4358 1 chr2B.!!$F1 4357
1 TraesCS2B01G477100 chr2A 703861521 703869070 7549 False 1888.0 4961 91.089667 530 4358 3 chr2A.!!$F2 3828
2 TraesCS2B01G477100 chr2A 703720626 703721163 537 False 785.0 785 93.135000 1 535 1 chr2A.!!$F1 534
3 TraesCS2B01G477100 chr2D 563783163 563786809 3646 False 2611.5 4846 90.784000 708 4358 2 chr2D.!!$F2 3650
4 TraesCS2B01G477100 chr2D 563758794 563760037 1243 False 325.5 331 87.889500 189 727 2 chr2D.!!$F1 538

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
864 5338 0.031994 CTTTCACAAAACCAGCCCGG 59.968 55.000 0.00 0.00 42.5 5.73 F
896 5370 0.518355 CAACATCGGCGCACTTTACG 60.518 55.000 10.83 1.64 0.0 3.18 F
917 5391 0.609957 TTACGCCTTCCAGTCTCCGA 60.610 55.000 0.00 0.00 0.0 4.55 F
1806 6306 1.798813 GCGCTGTAATTTGGACATGCC 60.799 52.381 0.00 0.00 37.1 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1975 6498 0.602638 AACATCGCGGTTGCTTCTCA 60.603 50.000 6.13 0.0 39.65 3.27 R
2381 6907 1.670811 CTGTACGCATCCCCATCAAAC 59.329 52.381 0.00 0.0 0.00 2.93 R
2914 7440 3.464907 AGCATTGAAGACATCCTGATCG 58.535 45.455 0.00 0.0 0.00 3.69 R
3738 8272 0.606604 TGAGGGTCGCCAGAAAGTAC 59.393 55.000 0.00 0.0 0.00 2.73 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
22 23 2.080286 TGTTTCTCCTAGTGCTTCGC 57.920 50.000 0.00 0.00 0.00 4.70
35 36 0.663153 GCTTCGCAGTCCAAACTTGT 59.337 50.000 0.00 0.00 31.71 3.16
39 40 1.673920 TCGCAGTCCAAACTTGTTTCC 59.326 47.619 0.00 0.00 31.71 3.13
43 44 3.865164 GCAGTCCAAACTTGTTTCCAAAG 59.135 43.478 0.00 0.00 31.71 2.77
44 45 4.620567 GCAGTCCAAACTTGTTTCCAAAGT 60.621 41.667 0.00 0.00 31.71 2.66
70 73 2.495155 TTGCAATTAGAGGCTGCTCA 57.505 45.000 0.00 0.00 37.00 4.26
91 94 5.288804 TCAAGCTTTTCAAAATAGTGTGGC 58.711 37.500 0.00 0.00 0.00 5.01
94 97 4.584325 AGCTTTTCAAAATAGTGTGGCTGA 59.416 37.500 0.00 0.00 0.00 4.26
160 163 5.678583 ACAGAGCATGTTCTAGCACATAAT 58.321 37.500 12.11 0.00 39.96 1.28
169 172 7.701539 TGTTCTAGCACATAATTTCCAACAT 57.298 32.000 0.00 0.00 0.00 2.71
171 174 8.673711 TGTTCTAGCACATAATTTCCAACATAC 58.326 33.333 0.00 0.00 0.00 2.39
180 183 5.813080 AATTTCCAACATACGGAGTTAGC 57.187 39.130 0.00 0.00 37.78 3.09
205 208 1.686052 TCCAAACAAAGCATGACCCAC 59.314 47.619 0.00 0.00 0.00 4.61
207 210 2.288395 CCAAACAAAGCATGACCCACTC 60.288 50.000 0.00 0.00 0.00 3.51
210 213 0.798776 CAAAGCATGACCCACTCGAC 59.201 55.000 0.00 0.00 0.00 4.20
266 269 5.048083 TGGTTGATGTGCCTATTGAAGAAAC 60.048 40.000 0.00 0.00 0.00 2.78
500 1212 9.931210 GTGCTTACATTGTAATATTGAACTACC 57.069 33.333 9.59 0.00 0.00 3.18
525 1237 2.223363 TGCAATTTTCTCGCAACGTGAA 60.223 40.909 0.00 0.83 37.53 3.18
542 1254 5.408356 ACGTGAAAGAAGTCGCATAGTAAT 58.592 37.500 0.00 0.00 0.00 1.89
545 1257 8.347771 ACGTGAAAGAAGTCGCATAGTAATATA 58.652 33.333 0.00 0.00 0.00 0.86
601 1313 7.254692 CCATGCTAATCATCAAGTTACAGTGAG 60.255 40.741 0.00 0.00 31.79 3.51
639 1351 8.538856 ACGAAAATGTGTCATTTGTGTATTTTG 58.461 29.630 8.20 0.00 0.00 2.44
649 1361 6.636447 TCATTTGTGTATTTTGAAGAGCAACG 59.364 34.615 0.00 0.00 35.91 4.10
686 1398 3.117701 TGTGGTTTTGAGAAGTGGGATCA 60.118 43.478 0.00 0.00 0.00 2.92
692 1404 1.911357 TGAGAAGTGGGATCACATGCT 59.089 47.619 0.00 0.00 45.91 3.79
694 1406 3.519107 TGAGAAGTGGGATCACATGCTAA 59.481 43.478 0.00 0.00 45.91 3.09
698 1410 3.110705 AGTGGGATCACATGCTAAGACT 58.889 45.455 0.00 0.00 45.91 3.24
843 5317 2.890945 CCAAATTTTGGTCCGGTTCTCT 59.109 45.455 18.34 0.00 45.93 3.10
852 5326 2.224209 GGTCCGGTTCTCTTCTTTCACA 60.224 50.000 0.00 0.00 0.00 3.58
859 5333 5.582550 GGTTCTCTTCTTTCACAAAACCAG 58.417 41.667 0.00 0.00 35.95 4.00
861 5335 3.632145 TCTCTTCTTTCACAAAACCAGCC 59.368 43.478 0.00 0.00 0.00 4.85
862 5336 2.693074 TCTTCTTTCACAAAACCAGCCC 59.307 45.455 0.00 0.00 0.00 5.19
864 5338 0.031994 CTTTCACAAAACCAGCCCGG 59.968 55.000 0.00 0.00 42.50 5.73
878 5352 1.894756 CCCGGTCCGCTTTCAAACA 60.895 57.895 5.50 0.00 0.00 2.83
888 5362 1.052287 CTTTCAAACAACATCGGCGC 58.948 50.000 0.00 0.00 0.00 6.53
894 5368 1.231221 AACAACATCGGCGCACTTTA 58.769 45.000 10.83 0.00 0.00 1.85
896 5370 0.518355 CAACATCGGCGCACTTTACG 60.518 55.000 10.83 1.64 0.00 3.18
908 5382 2.411935 GCACTTTACGTTTACGCCTTCC 60.412 50.000 0.00 0.00 44.43 3.46
911 5385 2.818130 TTACGTTTACGCCTTCCAGT 57.182 45.000 0.00 0.00 44.43 4.00
917 5391 0.609957 TTACGCCTTCCAGTCTCCGA 60.610 55.000 0.00 0.00 0.00 4.55
928 5402 3.429141 TCTCCGACTCGTCCGTGC 61.429 66.667 0.00 0.00 0.00 5.34
965 5439 3.118454 CTGCGGCAACTACCCACG 61.118 66.667 3.44 0.00 0.00 4.94
968 5442 4.690719 CGGCAACTACCCACGCCA 62.691 66.667 0.00 0.00 45.14 5.69
969 5443 3.053896 GGCAACTACCCACGCCAC 61.054 66.667 0.00 0.00 44.25 5.01
970 5444 3.053896 GCAACTACCCACGCCACC 61.054 66.667 0.00 0.00 0.00 4.61
971 5445 2.740826 CAACTACCCACGCCACCG 60.741 66.667 0.00 0.00 41.14 4.94
972 5446 4.692475 AACTACCCACGCCACCGC 62.692 66.667 0.00 0.00 38.22 5.68
1464 5941 7.706607 CGAGAGTTGTCAGTCCATAATGAAATA 59.293 37.037 0.00 0.00 0.00 1.40
1522 5999 2.476051 CGGTTGCGTCATCTGTGC 59.524 61.111 0.00 0.00 0.00 4.57
1540 6019 2.293399 GTGCGTGGTCTTGGAGAATTTT 59.707 45.455 0.00 0.00 0.00 1.82
1548 6027 4.152647 GTCTTGGAGAATTTTCCTTGGGT 58.847 43.478 15.55 0.00 38.12 4.51
1591 6078 4.705023 TGGACGTCTTAGATGTGATGAGAA 59.295 41.667 16.46 0.00 31.35 2.87
1592 6079 5.360999 TGGACGTCTTAGATGTGATGAGAAT 59.639 40.000 16.46 0.00 31.35 2.40
1593 6080 6.546034 TGGACGTCTTAGATGTGATGAGAATA 59.454 38.462 16.46 0.00 31.35 1.75
1594 6081 7.068226 TGGACGTCTTAGATGTGATGAGAATAA 59.932 37.037 16.46 0.00 31.35 1.40
1595 6082 7.593273 GGACGTCTTAGATGTGATGAGAATAAG 59.407 40.741 16.46 0.00 31.35 1.73
1596 6083 8.226819 ACGTCTTAGATGTGATGAGAATAAGA 57.773 34.615 6.26 0.00 29.89 2.10
1597 6084 8.855110 ACGTCTTAGATGTGATGAGAATAAGAT 58.145 33.333 6.26 0.00 32.29 2.40
1643 6138 7.522374 CACTGCAGTCTATTTCTTTAACTTCC 58.478 38.462 18.64 0.00 0.00 3.46
1722 6222 3.686726 AGATAGCTTTTGGAACTTCGCTG 59.313 43.478 0.00 0.00 0.00 5.18
1786 6286 3.902218 TCCTTCTTAGCAATTGGGATGG 58.098 45.455 7.72 0.00 0.00 3.51
1806 6306 1.798813 GCGCTGTAATTTGGACATGCC 60.799 52.381 0.00 0.00 37.10 4.40
1829 6352 5.277058 CCAGAAAGTTCAGACTTCAGAAACG 60.277 44.000 0.00 0.00 45.18 3.60
1975 6498 9.804977 ACGTAATAGGAGTATAGGAATACTTGT 57.195 33.333 0.00 0.00 46.71 3.16
1986 6509 4.327680 AGGAATACTTGTGAGAAGCAACC 58.672 43.478 0.00 0.00 0.00 3.77
2036 6559 6.819397 AACAATCAAGGCTACCTTAAGTTC 57.181 37.500 0.97 0.00 42.67 3.01
2214 6740 3.201353 TCTAGGACAGTGAGGATCTCG 57.799 52.381 0.00 0.00 34.92 4.04
2248 6774 4.099881 AGTTTTGCAGAAGGCTTCAATGAA 59.900 37.500 27.70 11.28 45.15 2.57
2381 6907 7.371159 TCTTGAACCATCTAGTCATTATAGCG 58.629 38.462 0.00 0.00 31.39 4.26
2914 7440 4.619394 CGATTGAGATATCCTGGCTACCAC 60.619 50.000 0.00 0.00 0.00 4.16
3004 7530 8.459911 AGTTTTTAAGTACAGCATACTTTGGT 57.540 30.769 16.00 0.00 38.55 3.67
3221 7747 2.209838 ACAGTGACGTGAAGACTGTG 57.790 50.000 14.95 0.00 46.66 3.66
3363 7889 8.789762 AGCCTTTCTTCGCTAAACTAATAAAAA 58.210 29.630 0.00 0.00 32.26 1.94
3556 8083 2.388735 TCGGATATGTGCTGACCTCTT 58.611 47.619 0.00 0.00 0.00 2.85
3611 8142 9.626045 ATCATGTTTATCTTTCGAAAAAGGAAC 57.374 29.630 12.41 13.89 41.88 3.62
3686 8217 6.231951 TCTGTGTATTGTCATCGGGTTTTTA 58.768 36.000 0.00 0.00 0.00 1.52
3729 8263 7.706159 TGTATGCGCTTCTCAATATTTTGATT 58.294 30.769 9.73 0.00 40.95 2.57
3738 8272 9.784680 CTTCTCAATATTTTGATTGACTTCAGG 57.215 33.333 0.00 0.00 40.18 3.86
3746 8280 8.697507 ATTTTGATTGACTTCAGGTACTTTCT 57.302 30.769 0.00 0.00 34.60 2.52
3796 8330 4.730949 ATTTTGAACTCATGATGCTGGG 57.269 40.909 0.00 0.00 0.00 4.45
3838 8372 0.319900 AGACGGCAGCTGTAGTTGTG 60.320 55.000 16.64 0.29 0.00 3.33
3841 8375 3.267974 GCAGCTGTAGTTGTGCCC 58.732 61.111 16.64 0.00 0.00 5.36
3865 8406 4.126437 GGGTTTGTGTTGGAAAAAGGATG 58.874 43.478 0.00 0.00 0.00 3.51
3988 8531 7.865706 AAGTTAACATTCTGCCTATACTTGG 57.134 36.000 8.61 0.00 0.00 3.61
3989 8532 7.195374 AGTTAACATTCTGCCTATACTTGGA 57.805 36.000 8.61 0.00 0.00 3.53
3990 8533 7.806180 AGTTAACATTCTGCCTATACTTGGAT 58.194 34.615 8.61 0.00 0.00 3.41
3991 8534 7.934120 AGTTAACATTCTGCCTATACTTGGATC 59.066 37.037 8.61 0.00 0.00 3.36
3992 8535 5.894298 ACATTCTGCCTATACTTGGATCA 57.106 39.130 0.00 0.00 0.00 2.92
3993 8536 5.862845 ACATTCTGCCTATACTTGGATCAG 58.137 41.667 0.00 0.00 0.00 2.90
3998 8541 7.432148 TCTGCCTATACTTGGATCAGTTTTA 57.568 36.000 0.00 0.00 0.00 1.52
3999 8542 7.500992 TCTGCCTATACTTGGATCAGTTTTAG 58.499 38.462 0.00 0.00 0.00 1.85
4001 8544 7.630082 TGCCTATACTTGGATCAGTTTTAGTT 58.370 34.615 0.00 0.00 0.00 2.24
4002 8545 8.107095 TGCCTATACTTGGATCAGTTTTAGTTT 58.893 33.333 0.00 0.00 0.00 2.66
4003 8546 8.957466 GCCTATACTTGGATCAGTTTTAGTTTT 58.043 33.333 0.00 0.00 0.00 2.43
4028 8571 8.584063 TTTTTAGGACAAGAACCAGTTTTAGT 57.416 30.769 0.00 0.00 0.00 2.24
4029 8572 8.584063 TTTTAGGACAAGAACCAGTTTTAGTT 57.416 30.769 0.00 0.00 0.00 2.24
4030 8573 8.584063 TTTAGGACAAGAACCAGTTTTAGTTT 57.416 30.769 0.00 0.00 0.00 2.66
4031 8574 8.584063 TTAGGACAAGAACCAGTTTTAGTTTT 57.416 30.769 0.00 0.00 0.00 2.43
4032 8575 7.476540 AGGACAAGAACCAGTTTTAGTTTTT 57.523 32.000 0.00 0.00 0.00 1.94
4144 8687 0.600557 CACGGGCCATACAGCAAAAA 59.399 50.000 4.39 0.00 0.00 1.94
4206 8767 0.394565 ACTGACAAGTGAGACCAGCC 59.605 55.000 0.00 0.00 34.48 4.85
4216 8777 1.835927 GAGACCAGCCTGCCAGTCTT 61.836 60.000 11.56 0.00 39.62 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
64 67 6.143438 CACACTATTTTGAAAAGCTTGAGCAG 59.857 38.462 0.00 0.00 45.16 4.24
70 73 5.068987 TCAGCCACACTATTTTGAAAAGCTT 59.931 36.000 0.00 0.00 0.00 3.74
91 94 3.947834 GGGGTTGTGTCAATATCCTTCAG 59.052 47.826 0.00 0.00 0.00 3.02
94 97 4.788617 ACTAGGGGTTGTGTCAATATCCTT 59.211 41.667 0.00 0.00 0.00 3.36
160 163 4.250464 CTGCTAACTCCGTATGTTGGAAA 58.750 43.478 0.00 0.00 34.44 3.13
180 183 3.304928 GGTCATGCTTTGTTTGGAGACTG 60.305 47.826 0.00 0.00 0.00 3.51
207 210 2.888594 TCTCCCTTTTATCGCAAGTCG 58.111 47.619 0.00 0.00 40.15 4.18
210 213 4.938226 AGTTCTTCTCCCTTTTATCGCAAG 59.062 41.667 0.00 0.00 0.00 4.01
266 269 9.299963 GAATATTCTTACCATCGATGAGATCAG 57.700 37.037 26.86 13.80 37.52 2.90
509 1221 3.372822 ACTTCTTTCACGTTGCGAGAAAA 59.627 39.130 13.12 2.20 43.15 2.29
525 1237 8.847196 TGTCAGTATATTACTATGCGACTTCTT 58.153 33.333 0.00 0.00 37.23 2.52
542 1254 9.755122 AATGTAGGATGTAGCTATGTCAGTATA 57.245 33.333 0.00 0.00 0.00 1.47
545 1257 6.985653 AATGTAGGATGTAGCTATGTCAGT 57.014 37.500 0.00 0.00 0.00 3.41
601 1313 4.502645 ACACATTTTCGTGCTTAGTTTTGC 59.497 37.500 0.00 0.00 40.73 3.68
639 1351 5.066764 ACCTTATCTCTCTACGTTGCTCTTC 59.933 44.000 0.00 0.00 0.00 2.87
649 1361 7.159372 TCAAAACCACAACCTTATCTCTCTAC 58.841 38.462 0.00 0.00 0.00 2.59
686 1398 7.117379 GGTTTAACGACTAAAGTCTTAGCATGT 59.883 37.037 8.41 0.00 42.66 3.21
692 1404 8.947055 AGTTTGGTTTAACGACTAAAGTCTTA 57.053 30.769 8.41 3.97 42.66 2.10
694 1406 9.551734 AATAGTTTGGTTTAACGACTAAAGTCT 57.448 29.630 8.41 0.00 42.66 3.24
840 5314 3.243535 GGGCTGGTTTTGTGAAAGAAGAG 60.244 47.826 0.00 0.00 0.00 2.85
841 5315 2.693074 GGGCTGGTTTTGTGAAAGAAGA 59.307 45.455 0.00 0.00 0.00 2.87
843 5317 1.407258 CGGGCTGGTTTTGTGAAAGAA 59.593 47.619 0.00 0.00 0.00 2.52
859 5333 2.981350 TTTGAAAGCGGACCGGGC 60.981 61.111 17.22 0.21 0.00 6.13
861 5335 0.317519 GTTGTTTGAAAGCGGACCGG 60.318 55.000 17.22 0.00 0.00 5.28
862 5336 0.378962 TGTTGTTTGAAAGCGGACCG 59.621 50.000 10.29 10.29 0.00 4.79
864 5338 2.307049 CGATGTTGTTTGAAAGCGGAC 58.693 47.619 0.00 0.00 0.00 4.79
878 5352 0.947180 ACGTAAAGTGCGCCGATGTT 60.947 50.000 4.18 0.00 0.00 2.71
888 5362 2.801679 TGGAAGGCGTAAACGTAAAGTG 59.198 45.455 4.24 0.00 42.22 3.16
894 5368 3.206090 GACTGGAAGGCGTAAACGT 57.794 52.632 4.24 0.00 39.30 3.99
911 5385 3.429141 GCACGGACGAGTCGGAGA 61.429 66.667 18.30 0.00 34.51 3.71
917 5391 3.224324 ACTGGTGCACGGACGAGT 61.224 61.111 11.45 0.59 30.75 4.18
928 5402 1.300971 CGGCAGAATGGACACTGGTG 61.301 60.000 0.00 0.00 35.86 4.17
1277 5754 0.458669 ACTACCGCACCGAATACTGG 59.541 55.000 0.00 0.00 0.00 4.00
1278 5755 1.924524 CAACTACCGCACCGAATACTG 59.075 52.381 0.00 0.00 0.00 2.74
1285 5762 1.717194 ACAATACAACTACCGCACCG 58.283 50.000 0.00 0.00 0.00 4.94
1324 5801 2.699846 TGCCCAAATTATCCAGCATTCC 59.300 45.455 0.00 0.00 0.00 3.01
1355 5832 0.033504 AATCCCGTAGCTACATGGCG 59.966 55.000 23.21 9.05 37.29 5.69
1464 5941 3.319122 GCACTTGAAGGATTCCACAAAGT 59.681 43.478 5.29 8.08 46.93 2.66
1522 5999 3.412386 AGGAAAATTCTCCAAGACCACG 58.588 45.455 0.00 0.00 38.02 4.94
1540 6019 0.110486 GAACTGCTCCAACCCAAGGA 59.890 55.000 0.00 0.00 0.00 3.36
1548 6027 0.108585 GGTGGACAGAACTGCTCCAA 59.891 55.000 19.39 8.38 40.10 3.53
1591 6078 7.981789 CACCAACTGATGTGTACTGTATCTTAT 59.018 37.037 0.00 0.00 0.00 1.73
1592 6079 7.320399 CACCAACTGATGTGTACTGTATCTTA 58.680 38.462 0.00 0.00 0.00 2.10
1593 6080 6.166279 CACCAACTGATGTGTACTGTATCTT 58.834 40.000 0.00 0.00 0.00 2.40
1594 6081 5.724328 CACCAACTGATGTGTACTGTATCT 58.276 41.667 0.00 0.00 0.00 1.98
1595 6082 4.330074 GCACCAACTGATGTGTACTGTATC 59.670 45.833 0.00 0.00 34.94 2.24
1596 6083 4.253685 GCACCAACTGATGTGTACTGTAT 58.746 43.478 0.00 0.00 34.94 2.29
1597 6084 3.070302 TGCACCAACTGATGTGTACTGTA 59.930 43.478 0.00 0.00 34.94 2.74
1598 6085 2.158827 TGCACCAACTGATGTGTACTGT 60.159 45.455 0.00 0.00 34.94 3.55
1599 6086 2.224079 GTGCACCAACTGATGTGTACTG 59.776 50.000 5.22 0.00 42.49 2.74
1600 6087 2.494059 GTGCACCAACTGATGTGTACT 58.506 47.619 5.22 0.00 42.49 2.73
1601 6088 2.494059 AGTGCACCAACTGATGTGTAC 58.506 47.619 14.63 3.18 44.99 2.90
1695 6195 6.348213 GCGAAGTTCCAAAAGCTATCTACAAA 60.348 38.462 0.00 0.00 0.00 2.83
1758 6258 8.066612 TCCCAATTGCTAAGAAGGAAAATAAG 57.933 34.615 0.00 0.00 36.56 1.73
1786 6286 1.548986 GCATGTCCAAATTACAGCGC 58.451 50.000 0.00 0.00 0.00 5.92
1806 6306 5.520288 TCGTTTCTGAAGTCTGAACTTTCTG 59.480 40.000 0.59 0.00 45.80 3.02
1829 6352 6.565234 AGTGTGTAAGATGCACTACTATGTC 58.435 40.000 0.00 0.00 41.12 3.06
1975 6498 0.602638 AACATCGCGGTTGCTTCTCA 60.603 50.000 6.13 0.00 39.65 3.27
2036 6559 6.441093 TGATGAAACAGGCAGCTAAAATAG 57.559 37.500 0.00 0.00 0.00 1.73
2100 6623 6.029346 ACCCAGCAGATTAAACATGAAAAG 57.971 37.500 0.00 0.00 0.00 2.27
2214 6740 2.612212 TCTGCAAAACTCGGTCAAGTTC 59.388 45.455 0.00 0.00 38.52 3.01
2248 6774 7.817962 GTGTAGTCAATATAACTGTGTTGTCCT 59.182 37.037 1.82 0.00 0.00 3.85
2381 6907 1.670811 CTGTACGCATCCCCATCAAAC 59.329 52.381 0.00 0.00 0.00 2.93
2914 7440 3.464907 AGCATTGAAGACATCCTGATCG 58.535 45.455 0.00 0.00 0.00 3.69
3004 7530 2.106338 TCTGCTTGGTTCACAGAATCCA 59.894 45.455 0.00 0.00 37.49 3.41
3052 7578 1.890876 AACCGATGCAACAGTTAGCA 58.109 45.000 11.32 11.32 45.92 3.49
3484 8011 9.912634 ACATCAAATTGAAGTTGGTAAAGTATG 57.087 29.630 5.49 3.03 0.00 2.39
3513 8040 9.027129 CCGATTAACTACGACATCAAATTCTAA 57.973 33.333 0.00 0.00 0.00 2.10
3531 8058 4.632153 AGGTCAGCACATATCCGATTAAC 58.368 43.478 0.00 0.00 0.00 2.01
3556 8083 9.527157 TTCAAGGAAGTTATGTTTCATCCATAA 57.473 29.630 0.00 0.00 33.54 1.90
3686 8217 8.393366 GCGCATACATCATTTCATGTCTAATAT 58.607 33.333 0.30 0.00 38.07 1.28
3701 8232 6.866010 AAATATTGAGAAGCGCATACATCA 57.134 33.333 11.47 3.22 0.00 3.07
3729 8263 2.288825 CGCCAGAAAGTACCTGAAGTCA 60.289 50.000 0.00 0.00 33.65 3.41
3738 8272 0.606604 TGAGGGTCGCCAGAAAGTAC 59.393 55.000 0.00 0.00 0.00 2.73
3744 8278 1.377202 GCATTTGAGGGTCGCCAGA 60.377 57.895 0.00 0.00 0.00 3.86
3746 8280 1.675310 CTGCATTTGAGGGTCGCCA 60.675 57.895 0.00 0.00 0.00 5.69
3796 8330 8.071368 GTCTACTACTAACACTACTGATGATGC 58.929 40.741 0.00 0.00 0.00 3.91
3838 8372 3.611674 CCAACACAAACCCCGGGC 61.612 66.667 17.73 0.00 0.00 6.13
3841 8375 2.545731 CTTTTTCCAACACAAACCCCG 58.454 47.619 0.00 0.00 0.00 5.73
3966 8509 7.715249 TGATCCAAGTATAGGCAGAATGTTAAC 59.285 37.037 0.00 0.00 39.31 2.01
3967 8510 7.801104 TGATCCAAGTATAGGCAGAATGTTAA 58.199 34.615 0.00 0.00 39.31 2.01
3968 8511 7.071196 ACTGATCCAAGTATAGGCAGAATGTTA 59.929 37.037 0.00 0.00 39.31 2.41
3969 8512 6.126652 ACTGATCCAAGTATAGGCAGAATGTT 60.127 38.462 0.00 0.00 39.31 2.71
3970 8513 5.367937 ACTGATCCAAGTATAGGCAGAATGT 59.632 40.000 0.00 0.00 39.31 2.71
4003 8546 8.584063 ACTAAAACTGGTTCTTGTCCTAAAAA 57.416 30.769 0.00 0.00 0.00 1.94
4004 8547 8.584063 AACTAAAACTGGTTCTTGTCCTAAAA 57.416 30.769 0.00 0.00 0.00 1.52
4005 8548 8.584063 AAACTAAAACTGGTTCTTGTCCTAAA 57.416 30.769 0.00 0.00 0.00 1.85
4006 8549 8.584063 AAAACTAAAACTGGTTCTTGTCCTAA 57.416 30.769 0.00 0.00 0.00 2.69
4007 8550 8.584063 AAAAACTAAAACTGGTTCTTGTCCTA 57.416 30.769 0.00 0.00 0.00 2.94
4008 8551 7.476540 AAAAACTAAAACTGGTTCTTGTCCT 57.523 32.000 0.00 0.00 0.00 3.85
4031 8574 8.990163 ACTAAAACTGATCCTTGTCCTAAAAA 57.010 30.769 0.00 0.00 0.00 1.94
4032 8575 8.990163 AACTAAAACTGATCCTTGTCCTAAAA 57.010 30.769 0.00 0.00 0.00 1.52
4033 8576 8.990163 AAACTAAAACTGATCCTTGTCCTAAA 57.010 30.769 0.00 0.00 0.00 1.85
4034 8577 8.990163 AAAACTAAAACTGATCCTTGTCCTAA 57.010 30.769 0.00 0.00 0.00 2.69
4035 8578 8.990163 AAAAACTAAAACTGATCCTTGTCCTA 57.010 30.769 0.00 0.00 0.00 2.94
4036 8579 7.898014 AAAAACTAAAACTGATCCTTGTCCT 57.102 32.000 0.00 0.00 0.00 3.85
4061 8604 6.328148 TCTCTAAAACTGGTCCTTGTCCTAAA 59.672 38.462 0.00 0.00 0.00 1.85
4063 8606 5.399991 TCTCTAAAACTGGTCCTTGTCCTA 58.600 41.667 0.00 0.00 0.00 2.94
4074 8617 7.445402 TCTCCAACAATTTCTCTCTAAAACTGG 59.555 37.037 0.00 0.00 0.00 4.00
4076 8619 7.174080 GCTCTCCAACAATTTCTCTCTAAAACT 59.826 37.037 0.00 0.00 0.00 2.66
4130 8673 2.477863 CCTACGCTTTTTGCTGTATGGC 60.478 50.000 0.00 0.00 40.11 4.40
4144 8687 2.832201 GGACCTACCGCCTACGCT 60.832 66.667 0.00 0.00 38.22 5.07
4159 8702 0.391228 TACACAACAAGCTGAGCGGA 59.609 50.000 0.00 0.00 0.00 5.54
4164 8707 1.533625 GCCCATACACAACAAGCTGA 58.466 50.000 0.00 0.00 0.00 4.26
4166 8709 0.960364 CGGCCCATACACAACAAGCT 60.960 55.000 0.00 0.00 0.00 3.74
4216 8777 1.643286 TCTGGGGTTTATTGATGGGCA 59.357 47.619 0.00 0.00 0.00 5.36


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

AutoCloner maintained by Alex Coulton.