Multiple sequence alignment - TraesCS3B01G317800

Loading Multiple Alignment...

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 TraesCS3B01G317800 chr3B 100.000 4110 0 0 1 4110 512102759 512098650 0.000000e+00 7590
1 TraesCS3B01G317800 chr3B 96.291 2750 79 9 632 3372 434345383 434342648 0.000000e+00 4492
2 TraesCS3B01G317800 chr3B 92.912 2455 154 10 762 3215 306886724 306889159 0.000000e+00 3552
3 TraesCS3B01G317800 chr3B 93.548 620 17 8 3406 4003 434342652 434342034 0.000000e+00 902
4 TraesCS3B01G317800 chr3B 91.786 560 24 10 3235 3792 306889145 306889684 0.000000e+00 760
5 TraesCS3B01G317800 chr3B 88.567 621 39 12 24 629 434346145 434345542 0.000000e+00 725
6 TraesCS3B01G317800 chr3B 83.333 630 44 27 24 639 306886081 306886663 3.640000e-145 525
7 TraesCS3B01G317800 chr5B 97.116 4022 96 9 1 4004 23257312 23261331 0.000000e+00 6767
8 TraesCS3B01G317800 chr5B 94.318 4013 153 24 24 4004 675602772 675598803 0.000000e+00 6078
9 TraesCS3B01G317800 chr5B 94.728 569 15 1 3451 4004 627486138 627486706 0.000000e+00 870
10 TraesCS3B01G317800 chr5B 94.552 569 16 1 3451 4004 623881859 623882427 0.000000e+00 865
11 TraesCS3B01G317800 chr5B 90.519 559 30 13 3243 3792 691909987 691910531 0.000000e+00 717
12 TraesCS3B01G317800 chr5B 87.923 621 37 16 24 629 623880609 623881206 0.000000e+00 697
13 TraesCS3B01G317800 chr5B 88.026 618 36 16 24 629 627484894 627485485 0.000000e+00 697
14 TraesCS3B01G317800 chr5B 92.486 173 5 1 632 804 623881365 623881529 1.480000e-59 241
15 TraesCS3B01G317800 chr5B 92.486 173 5 1 632 804 627485644 627485808 1.480000e-59 241
16 TraesCS3B01G317800 chr1B 94.378 4020 149 22 24 4003 570770174 570766192 0.000000e+00 6100
17 TraesCS3B01G317800 chr5A 94.063 4009 156 22 24 4003 437838086 437842041 0.000000e+00 6010
18 TraesCS3B01G317800 chr2D 94.181 3076 140 10 24 3098 261786530 261783493 0.000000e+00 4652
19 TraesCS3B01G317800 chr7A 96.436 2750 75 9 632 3372 642149776 642152511 0.000000e+00 4514
20 TraesCS3B01G317800 chr7A 93.387 620 18 8 3406 4003 642152507 642153125 0.000000e+00 896
21 TraesCS3B01G317800 chr7A 89.159 618 38 12 24 629 642149017 642149617 0.000000e+00 743
22 TraesCS3B01G317800 chr6A 96.999 1466 29 6 1916 3372 189534830 189536289 0.000000e+00 2449
23 TraesCS3B01G317800 chr6A 93.226 620 19 8 3406 4003 189536285 189536903 0.000000e+00 891
24 TraesCS3B01G317800 chr4A 91.342 1721 85 19 24 1713 667659782 667658095 0.000000e+00 2294
25 TraesCS3B01G317800 chr4A 94.399 857 25 8 3163 4003 667651453 667650604 0.000000e+00 1295
26 TraesCS3B01G317800 chr1D 94.977 1294 47 4 24 1314 117407593 117408871 0.000000e+00 2013
27 TraesCS3B01G317800 chr1D 96.296 108 4 0 4002 4109 381800574 381800681 1.170000e-40 178
28 TraesCS3B01G317800 chr7B 90.074 816 43 21 2981 3788 237468363 237469148 0.000000e+00 1024
29 TraesCS3B01G317800 chr7B 96.330 109 4 0 4002 4110 699030699 699030807 3.260000e-41 180
30 TraesCS3B01G317800 chr7B 96.296 108 4 0 4002 4109 41414620 41414513 1.170000e-40 178
31 TraesCS3B01G317800 chr7B 96.296 108 4 0 4002 4109 219266839 219266732 1.170000e-40 178
32 TraesCS3B01G317800 chr1A 96.330 109 4 0 4002 4110 429812317 429812425 3.260000e-41 180
33 TraesCS3B01G317800 chr1A 96.296 108 4 0 4002 4109 105667152 105667259 1.170000e-40 178
34 TraesCS3B01G317800 chr4B 96.296 108 4 0 4002 4109 128114327 128114220 1.170000e-40 178
35 TraesCS3B01G317800 chr4B 96.296 108 4 0 4002 4109 297689036 297688929 1.170000e-40 178
36 TraesCS3B01G317800 chr4B 96.296 108 4 0 4002 4109 533565188 533565295 1.170000e-40 178


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 TraesCS3B01G317800 chr3B 512098650 512102759 4109 True 7590.000000 7590 100.000000 1 4110 1 chr3B.!!$R1 4109
1 TraesCS3B01G317800 chr3B 434342034 434346145 4111 True 2039.666667 4492 92.802000 24 4003 3 chr3B.!!$R2 3979
2 TraesCS3B01G317800 chr3B 306886081 306889684 3603 False 1612.333333 3552 89.343667 24 3792 3 chr3B.!!$F1 3768
3 TraesCS3B01G317800 chr5B 23257312 23261331 4019 False 6767.000000 6767 97.116000 1 4004 1 chr5B.!!$F1 4003
4 TraesCS3B01G317800 chr5B 675598803 675602772 3969 True 6078.000000 6078 94.318000 24 4004 1 chr5B.!!$R1 3980
5 TraesCS3B01G317800 chr5B 691909987 691910531 544 False 717.000000 717 90.519000 3243 3792 1 chr5B.!!$F2 549
6 TraesCS3B01G317800 chr5B 627484894 627486706 1812 False 602.666667 870 91.746667 24 4004 3 chr5B.!!$F4 3980
7 TraesCS3B01G317800 chr5B 623880609 623882427 1818 False 601.000000 865 91.653667 24 4004 3 chr5B.!!$F3 3980
8 TraesCS3B01G317800 chr1B 570766192 570770174 3982 True 6100.000000 6100 94.378000 24 4003 1 chr1B.!!$R1 3979
9 TraesCS3B01G317800 chr5A 437838086 437842041 3955 False 6010.000000 6010 94.063000 24 4003 1 chr5A.!!$F1 3979
10 TraesCS3B01G317800 chr2D 261783493 261786530 3037 True 4652.000000 4652 94.181000 24 3098 1 chr2D.!!$R1 3074
11 TraesCS3B01G317800 chr7A 642149017 642153125 4108 False 2051.000000 4514 92.994000 24 4003 3 chr7A.!!$F1 3979
12 TraesCS3B01G317800 chr6A 189534830 189536903 2073 False 1670.000000 2449 95.112500 1916 4003 2 chr6A.!!$F1 2087
13 TraesCS3B01G317800 chr4A 667658095 667659782 1687 True 2294.000000 2294 91.342000 24 1713 1 chr4A.!!$R2 1689
14 TraesCS3B01G317800 chr4A 667650604 667651453 849 True 1295.000000 1295 94.399000 3163 4003 1 chr4A.!!$R1 840
15 TraesCS3B01G317800 chr1D 117407593 117408871 1278 False 2013.000000 2013 94.977000 24 1314 1 chr1D.!!$F1 1290
16 TraesCS3B01G317800 chr7B 237468363 237469148 785 False 1024.000000 1024 90.074000 2981 3788 1 chr7B.!!$F1 807

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
255 318 1.153369 GAGCCGCAGTTGCTGGATA 60.153 57.895 15.68 0.0 39.69 2.59 F
446 511 3.054166 CGTTGACTTGTTGGTGTATCGA 58.946 45.455 0.00 0.0 0.00 3.59 F
830 1118 7.221450 AGGCTAACTAGTTGTGTCATTTGTTA 58.779 34.615 18.56 0.0 0.00 2.41 F
2076 2386 0.598065 GCGACAAAATGCCAGGAGTT 59.402 50.000 0.00 0.0 0.00 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1125 1413 1.317613 TGCAGGTCGTCAAATGCTTT 58.682 45.000 0.00 0.0 39.42 3.51 R
1347 1635 1.531149 ACATTGAAACGAGGACAAGCG 59.469 47.619 0.00 0.0 0.00 4.68 R
2759 3069 0.894141 AGCTGACTCTGATGCGACTT 59.106 50.000 0.00 0.0 0.00 3.01 R
4018 4430 0.599060 TGAGTGTGCCATGCATGTTG 59.401 50.000 24.58 11.9 41.91 3.33 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
108 123 3.070987 GCTCGACCCCTCCTCCCTA 62.071 68.421 0.00 0.00 0.00 3.53
255 318 1.153369 GAGCCGCAGTTGCTGGATA 60.153 57.895 15.68 0.00 39.69 2.59
446 511 3.054166 CGTTGACTTGTTGGTGTATCGA 58.946 45.455 0.00 0.00 0.00 3.59
830 1118 7.221450 AGGCTAACTAGTTGTGTCATTTGTTA 58.779 34.615 18.56 0.00 0.00 2.41
1041 1329 7.486407 AGTTTGGAATCATTTTAGCAAGGAT 57.514 32.000 0.00 0.00 0.00 3.24
1347 1635 4.988540 GGATTTAGAAGGTTTGTGGCAAAC 59.011 41.667 14.28 14.28 0.00 2.93
1519 1807 6.073657 CCAAAAGCAGAATTTTATGTGTGTGG 60.074 38.462 0.00 0.00 31.29 4.17
1634 1943 2.025321 ACCTGGAGAAGTGTTTGGTTGT 60.025 45.455 0.00 0.00 0.00 3.32
1706 2016 1.754803 TGATGGACCGGTAAGCTACAG 59.245 52.381 7.34 0.00 0.00 2.74
1800 2110 9.757227 GCTCATATTCTGAACTTGATAGTTACT 57.243 33.333 0.00 0.00 44.51 2.24
1827 2137 5.428457 TGGGCTAAAAGAGTTGGATATCTCA 59.572 40.000 2.05 0.00 33.63 3.27
2076 2386 0.598065 GCGACAAAATGCCAGGAGTT 59.402 50.000 0.00 0.00 0.00 3.01
2184 2494 6.038936 CCTCAAATCATTGCACATCTCACATA 59.961 38.462 0.00 0.00 36.45 2.29
2275 2585 3.966665 GAGAGAGATGGGAGAAAGGATGT 59.033 47.826 0.00 0.00 0.00 3.06
2433 2743 1.002544 GGAGAGGAGGTGTGGACAAAG 59.997 57.143 0.00 0.00 0.00 2.77
2618 2928 2.027192 TCAGCATTAGCCCTTCGAAGTT 60.027 45.455 23.03 11.13 43.56 2.66
2709 3019 6.098409 GGTGGAAGGTCAACTCATCTAGATTA 59.902 42.308 1.33 0.00 0.00 1.75
2713 3023 7.147637 GGAAGGTCAACTCATCTAGATTACCTT 60.148 40.741 19.35 19.35 41.84 3.50
2759 3069 7.292356 TGATGTCCTAGCTTTCCCAATATCTAA 59.708 37.037 0.00 0.00 0.00 2.10
2859 3169 5.163622 GGTGCATGCACTAATTTGTACTCAT 60.164 40.000 40.86 0.00 45.52 2.90
2871 3181 1.737236 TGTACTCATGATTGGTTGCGC 59.263 47.619 0.00 0.00 0.00 6.09
2912 3222 6.705302 ACAATGAAGAGAATGAAGAGCTACA 58.295 36.000 0.00 0.00 0.00 2.74
2915 3225 6.535963 TGAAGAGAATGAAGAGCTACATGA 57.464 37.500 0.00 0.00 0.00 3.07
2946 3256 7.961326 AGAGGAAGGTAATTATGCAAACAAT 57.039 32.000 0.00 0.00 0.00 2.71
3485 3847 5.086104 TCAGCTTGGACCTATTACTTGTC 57.914 43.478 0.00 0.00 0.00 3.18
3816 4228 6.153340 AGGCTATGTTGCACTGAATTTTGTAT 59.847 34.615 0.00 0.00 34.04 2.29
3848 4260 3.437049 GTCTGAATATTTCGGGCTATGGC 59.563 47.826 0.00 0.00 37.67 4.40
3859 4271 1.523758 GGCTATGGCTACCCGAATTG 58.476 55.000 0.00 0.00 38.73 2.32
4004 4416 4.680237 CGAACGCCCAGGCTGACA 62.680 66.667 17.94 0.00 39.32 3.58
4005 4417 2.045926 GAACGCCCAGGCTGACAT 60.046 61.111 17.94 0.00 39.32 3.06
4006 4418 1.220749 GAACGCCCAGGCTGACATA 59.779 57.895 17.94 0.00 39.32 2.29
4007 4419 0.179045 GAACGCCCAGGCTGACATAT 60.179 55.000 17.94 0.00 39.32 1.78
4008 4420 0.464373 AACGCCCAGGCTGACATATG 60.464 55.000 17.94 0.00 39.32 1.78
4009 4421 1.337384 ACGCCCAGGCTGACATATGA 61.337 55.000 17.94 0.00 39.32 2.15
4010 4422 0.035881 CGCCCAGGCTGACATATGAT 59.964 55.000 17.94 0.00 39.32 2.45
4011 4423 1.276138 CGCCCAGGCTGACATATGATA 59.724 52.381 17.94 0.00 39.32 2.15
4012 4424 2.676176 CGCCCAGGCTGACATATGATAG 60.676 54.545 17.94 8.05 39.32 2.08
4013 4425 2.938756 GCCCAGGCTGACATATGATAGC 60.939 54.545 17.94 20.31 38.26 2.97
4014 4426 2.570752 CCCAGGCTGACATATGATAGCT 59.429 50.000 24.42 14.11 36.45 3.32
4015 4427 3.369261 CCCAGGCTGACATATGATAGCTC 60.369 52.174 24.42 17.95 36.45 4.09
4016 4428 3.514706 CCAGGCTGACATATGATAGCTCT 59.485 47.826 24.42 19.20 36.45 4.09
4017 4429 4.708909 CCAGGCTGACATATGATAGCTCTA 59.291 45.833 24.42 1.38 36.45 2.43
4018 4430 5.394005 CCAGGCTGACATATGATAGCTCTAC 60.394 48.000 24.42 14.16 36.45 2.59
4019 4431 5.184671 CAGGCTGACATATGATAGCTCTACA 59.815 44.000 24.42 0.00 36.45 2.74
4020 4432 5.777223 AGGCTGACATATGATAGCTCTACAA 59.223 40.000 24.42 0.00 36.45 2.41
4021 4433 5.866633 GGCTGACATATGATAGCTCTACAAC 59.133 44.000 24.42 10.72 36.45 3.32
4022 4434 6.450545 GCTGACATATGATAGCTCTACAACA 58.549 40.000 20.84 0.00 33.53 3.33
4023 4435 7.095910 GCTGACATATGATAGCTCTACAACAT 58.904 38.462 20.84 0.00 33.53 2.71
4024 4436 7.063191 GCTGACATATGATAGCTCTACAACATG 59.937 40.741 20.84 0.00 33.53 3.21
4025 4437 6.870439 TGACATATGATAGCTCTACAACATGC 59.130 38.462 10.38 0.00 0.00 4.06
4026 4438 6.762333 ACATATGATAGCTCTACAACATGCA 58.238 36.000 10.38 0.00 0.00 3.96
4027 4439 7.392418 ACATATGATAGCTCTACAACATGCAT 58.608 34.615 10.38 0.00 0.00 3.96
4028 4440 7.333672 ACATATGATAGCTCTACAACATGCATG 59.666 37.037 25.09 25.09 0.00 4.06
4029 4441 4.383173 TGATAGCTCTACAACATGCATGG 58.617 43.478 29.41 15.68 0.00 3.66
4030 4442 1.386533 AGCTCTACAACATGCATGGC 58.613 50.000 29.41 20.24 0.00 4.40
4031 4443 1.097232 GCTCTACAACATGCATGGCA 58.903 50.000 29.41 10.98 44.86 4.92
4032 4444 1.202222 GCTCTACAACATGCATGGCAC 60.202 52.381 29.41 7.21 43.04 5.01
4033 4445 2.086094 CTCTACAACATGCATGGCACA 58.914 47.619 29.41 11.66 43.04 4.57
4048 4460 3.937814 TGGCACACTCAATTACTACAGG 58.062 45.455 0.00 0.00 0.00 4.00
4049 4461 3.580895 TGGCACACTCAATTACTACAGGA 59.419 43.478 0.00 0.00 0.00 3.86
4050 4462 4.225042 TGGCACACTCAATTACTACAGGAT 59.775 41.667 0.00 0.00 0.00 3.24
4051 4463 5.186198 GGCACACTCAATTACTACAGGATT 58.814 41.667 0.00 0.00 0.00 3.01
4052 4464 5.294552 GGCACACTCAATTACTACAGGATTC 59.705 44.000 0.00 0.00 0.00 2.52
4053 4465 6.109359 GCACACTCAATTACTACAGGATTCT 58.891 40.000 0.00 0.00 0.00 2.40
4054 4466 7.265673 GCACACTCAATTACTACAGGATTCTA 58.734 38.462 0.00 0.00 0.00 2.10
4055 4467 7.928706 GCACACTCAATTACTACAGGATTCTAT 59.071 37.037 0.00 0.00 0.00 1.98
4056 4468 9.254133 CACACTCAATTACTACAGGATTCTATG 57.746 37.037 0.00 0.00 0.00 2.23
4057 4469 9.201989 ACACTCAATTACTACAGGATTCTATGA 57.798 33.333 0.00 0.00 0.00 2.15
4067 4479 9.331282 ACTACAGGATTCTATGAAAATAACAGC 57.669 33.333 0.00 0.00 0.00 4.40
4068 4480 7.573968 ACAGGATTCTATGAAAATAACAGCC 57.426 36.000 0.00 0.00 0.00 4.85
4069 4481 6.260936 ACAGGATTCTATGAAAATAACAGCCG 59.739 38.462 0.00 0.00 0.00 5.52
4070 4482 6.483307 CAGGATTCTATGAAAATAACAGCCGA 59.517 38.462 0.00 0.00 0.00 5.54
4071 4483 6.483640 AGGATTCTATGAAAATAACAGCCGAC 59.516 38.462 0.00 0.00 0.00 4.79
4072 4484 6.483640 GGATTCTATGAAAATAACAGCCGACT 59.516 38.462 0.00 0.00 0.00 4.18
4084 4496 2.997485 AGCCGACTGAAAGAAAATGC 57.003 45.000 0.00 0.00 37.43 3.56
4085 4497 1.197721 AGCCGACTGAAAGAAAATGCG 59.802 47.619 0.00 0.00 37.43 4.73
4086 4498 1.069227 GCCGACTGAAAGAAAATGCGT 60.069 47.619 0.00 0.00 37.43 5.24
4087 4499 2.839474 CCGACTGAAAGAAAATGCGTC 58.161 47.619 0.00 0.00 37.43 5.19
4088 4500 2.223144 CCGACTGAAAGAAAATGCGTCA 59.777 45.455 0.00 0.00 37.43 4.35
4089 4501 3.473367 CGACTGAAAGAAAATGCGTCAG 58.527 45.455 0.00 0.00 41.21 3.51
4091 4503 4.474226 ACTGAAAGAAAATGCGTCAGTC 57.526 40.909 0.00 0.00 44.23 3.51
4092 4504 3.251004 ACTGAAAGAAAATGCGTCAGTCC 59.749 43.478 0.00 0.00 44.23 3.85
4093 4505 3.210227 TGAAAGAAAATGCGTCAGTCCA 58.790 40.909 0.00 0.00 0.00 4.02
4094 4506 3.820467 TGAAAGAAAATGCGTCAGTCCAT 59.180 39.130 0.00 0.00 0.00 3.41
4095 4507 4.278170 TGAAAGAAAATGCGTCAGTCCATT 59.722 37.500 0.00 0.00 33.35 3.16
4096 4508 4.853924 AAGAAAATGCGTCAGTCCATTT 57.146 36.364 0.00 0.00 41.86 2.32
4098 4510 5.200368 AGAAAATGCGTCAGTCCATTTTT 57.800 34.783 11.26 0.60 46.09 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
108 123 1.133231 GGGGACTAGGGTTAGGACGAT 60.133 57.143 0.00 0.00 0.00 3.73
137 155 3.687102 CCCGTGTCACTACCGCCA 61.687 66.667 0.65 0.00 0.00 5.69
255 318 3.374402 CGGCTCCGTCTCCACTGT 61.374 66.667 0.00 0.00 34.35 3.55
287 350 1.300931 GCTCAGTGCGTTGACTCCA 60.301 57.895 0.00 0.00 0.00 3.86
446 511 3.947910 TTTTAGCTACACGCCTACAGT 57.052 42.857 0.00 0.00 40.39 3.55
530 603 6.136541 TCTGCTGTCTACATACACATACAG 57.863 41.667 0.00 0.00 37.87 2.74
624 697 8.229253 TCTACAACTAGTGAACTAACAAGTCA 57.771 34.615 0.00 0.00 0.00 3.41
775 1063 5.534207 TGGCAATGAGAAGTGACAATTTT 57.466 34.783 0.00 0.00 26.90 1.82
796 1084 8.718102 ACACAACTAGTTAGCCTAACATATTG 57.282 34.615 16.51 16.61 41.07 1.90
830 1118 4.151883 ACTTTGGTCTGCCATGTACAAAT 58.848 39.130 0.00 0.00 45.56 2.32
837 1125 2.507484 TGAGAACTTTGGTCTGCCATG 58.493 47.619 0.00 0.00 45.56 3.66
1041 1329 1.265635 GTTGCTGTCGTGGCATTTACA 59.734 47.619 0.00 0.00 39.54 2.41
1085 1373 6.041979 ACCATTCCTTTTAGAAACACAAGCAT 59.958 34.615 0.00 0.00 0.00 3.79
1125 1413 1.317613 TGCAGGTCGTCAAATGCTTT 58.682 45.000 0.00 0.00 39.42 3.51
1257 1545 4.558226 TTCAGCCAAAGCATCTCTAAGA 57.442 40.909 0.00 0.00 43.56 2.10
1347 1635 1.531149 ACATTGAAACGAGGACAAGCG 59.469 47.619 0.00 0.00 0.00 4.68
1519 1807 6.643770 CAGTCATTATCAATAAAATGGGCTGC 59.356 38.462 0.00 0.00 33.88 5.25
1552 1840 7.410120 AGAAAAACCCAATGATCCACTTATC 57.590 36.000 0.00 0.00 0.00 1.75
1634 1943 2.487775 ACACCTTATCTATGCCCCACA 58.512 47.619 0.00 0.00 0.00 4.17
1693 2003 2.758979 TCCTCTTTCTGTAGCTTACCGG 59.241 50.000 0.00 0.00 0.00 5.28
1706 2016 3.376546 GGCACTGTTCATGATCCTCTTTC 59.623 47.826 0.00 0.00 0.00 2.62
1800 2110 4.591321 ATCCAACTCTTTTAGCCCATCA 57.409 40.909 0.00 0.00 0.00 3.07
1842 2152 3.002246 TCTTAACAAACTTGACTGCAGCG 59.998 43.478 15.27 2.30 0.00 5.18
2076 2386 2.631384 TCCCAATCTTCTGGTTGAGGA 58.369 47.619 0.00 0.00 34.33 3.71
2184 2494 8.473358 TGATATCAGCAATTTGATGGAAGAAT 57.527 30.769 14.18 3.40 38.25 2.40
2275 2585 5.533154 CCCAATACTTGTTGTACTTGTCCAA 59.467 40.000 0.00 0.00 33.45 3.53
2506 2816 3.198417 TCAAAGCTAGGTGCATCATCAGA 59.802 43.478 0.00 0.00 45.94 3.27
2618 2928 9.273016 CCTCTGTAAGATACTTTTCAAGTTCAA 57.727 33.333 0.00 0.00 45.62 2.69
2709 3019 3.933332 GAGCTAAACGTGATAGCAAAGGT 59.067 43.478 26.29 12.05 46.49 3.50
2713 3023 3.226346 ACGAGCTAAACGTGATAGCAA 57.774 42.857 26.29 0.00 46.49 3.91
2759 3069 0.894141 AGCTGACTCTGATGCGACTT 59.106 50.000 0.00 0.00 0.00 3.01
2841 3151 6.658816 ACCAATCATGAGTACAAATTAGTGCA 59.341 34.615 0.09 0.00 0.00 4.57
2859 3169 1.603456 TTTCTCTGCGCAACCAATCA 58.397 45.000 13.05 0.00 0.00 2.57
2912 3222 6.893020 AATTACCTTCCTCTAGGTTGTCAT 57.107 37.500 0.00 0.00 46.39 3.06
2915 3225 6.157994 TGCATAATTACCTTCCTCTAGGTTGT 59.842 38.462 0.00 0.00 46.39 3.32
2946 3256 9.905713 AATGGAAAGCACATATCTAAGAGTAAA 57.094 29.630 0.00 0.00 0.00 2.01
3485 3847 3.436704 ACAGTCACAAACACACACAAGAG 59.563 43.478 0.00 0.00 0.00 2.85
3816 4228 5.506815 CCGAAATATTCAGACCAGCGTACTA 60.507 44.000 0.00 0.00 0.00 1.82
3848 4260 1.093496 GGTTCGGGCAATTCGGGTAG 61.093 60.000 0.00 0.00 0.00 3.18
3859 4271 1.424403 CCAAAAATTTCGGTTCGGGC 58.576 50.000 0.00 0.00 0.00 6.13
4004 4416 6.822170 CCATGCATGTTGTAGAGCTATCATAT 59.178 38.462 24.58 0.00 0.00 1.78
4005 4417 6.168389 CCATGCATGTTGTAGAGCTATCATA 58.832 40.000 24.58 0.00 0.00 2.15
4006 4418 5.001874 CCATGCATGTTGTAGAGCTATCAT 58.998 41.667 24.58 0.00 0.00 2.45
4007 4419 4.383173 CCATGCATGTTGTAGAGCTATCA 58.617 43.478 24.58 0.00 0.00 2.15
4008 4420 3.188048 GCCATGCATGTTGTAGAGCTATC 59.812 47.826 24.58 0.00 0.00 2.08
4009 4421 3.144506 GCCATGCATGTTGTAGAGCTAT 58.855 45.455 24.58 0.00 0.00 2.97
4010 4422 2.093021 TGCCATGCATGTTGTAGAGCTA 60.093 45.455 24.58 7.65 31.71 3.32
4011 4423 1.340308 TGCCATGCATGTTGTAGAGCT 60.340 47.619 24.58 0.00 31.71 4.09
4012 4424 1.097232 TGCCATGCATGTTGTAGAGC 58.903 50.000 24.58 18.26 31.71 4.09
4013 4425 2.086094 TGTGCCATGCATGTTGTAGAG 58.914 47.619 24.58 9.02 41.91 2.43
4014 4426 1.811965 GTGTGCCATGCATGTTGTAGA 59.188 47.619 24.58 6.38 41.91 2.59
4015 4427 1.814394 AGTGTGCCATGCATGTTGTAG 59.186 47.619 24.58 10.45 41.91 2.74
4016 4428 1.811965 GAGTGTGCCATGCATGTTGTA 59.188 47.619 24.58 7.74 41.91 2.41
4017 4429 0.599558 GAGTGTGCCATGCATGTTGT 59.400 50.000 24.58 3.64 41.91 3.32
4018 4430 0.599060 TGAGTGTGCCATGCATGTTG 59.401 50.000 24.58 11.90 41.91 3.33
4019 4431 1.330234 TTGAGTGTGCCATGCATGTT 58.670 45.000 24.58 3.65 41.91 2.71
4020 4432 1.552578 ATTGAGTGTGCCATGCATGT 58.447 45.000 24.58 5.40 41.91 3.21
4021 4433 2.665649 AATTGAGTGTGCCATGCATG 57.334 45.000 20.19 20.19 41.91 4.06
4022 4434 3.359033 AGTAATTGAGTGTGCCATGCAT 58.641 40.909 0.00 0.00 41.91 3.96
4023 4435 2.794103 AGTAATTGAGTGTGCCATGCA 58.206 42.857 0.00 0.00 35.60 3.96
4024 4436 3.689161 TGTAGTAATTGAGTGTGCCATGC 59.311 43.478 0.00 0.00 0.00 4.06
4025 4437 4.333649 CCTGTAGTAATTGAGTGTGCCATG 59.666 45.833 0.00 0.00 0.00 3.66
4026 4438 4.225042 TCCTGTAGTAATTGAGTGTGCCAT 59.775 41.667 0.00 0.00 0.00 4.40
4027 4439 3.580895 TCCTGTAGTAATTGAGTGTGCCA 59.419 43.478 0.00 0.00 0.00 4.92
4028 4440 4.202245 TCCTGTAGTAATTGAGTGTGCC 57.798 45.455 0.00 0.00 0.00 5.01
4029 4441 6.109359 AGAATCCTGTAGTAATTGAGTGTGC 58.891 40.000 0.00 0.00 0.00 4.57
4030 4442 9.254133 CATAGAATCCTGTAGTAATTGAGTGTG 57.746 37.037 0.00 0.00 0.00 3.82
4031 4443 9.201989 TCATAGAATCCTGTAGTAATTGAGTGT 57.798 33.333 0.00 0.00 0.00 3.55
4041 4453 9.331282 GCTGTTATTTTCATAGAATCCTGTAGT 57.669 33.333 0.00 0.00 0.00 2.73
4042 4454 8.778358 GGCTGTTATTTTCATAGAATCCTGTAG 58.222 37.037 0.00 0.00 0.00 2.74
4043 4455 7.441157 CGGCTGTTATTTTCATAGAATCCTGTA 59.559 37.037 0.00 0.00 0.00 2.74
4044 4456 6.260936 CGGCTGTTATTTTCATAGAATCCTGT 59.739 38.462 0.00 0.00 0.00 4.00
4045 4457 6.483307 TCGGCTGTTATTTTCATAGAATCCTG 59.517 38.462 0.00 0.00 0.00 3.86
4046 4458 6.483640 GTCGGCTGTTATTTTCATAGAATCCT 59.516 38.462 0.00 0.00 0.00 3.24
4047 4459 6.483640 AGTCGGCTGTTATTTTCATAGAATCC 59.516 38.462 0.00 0.00 0.00 3.01
4048 4460 7.224753 TCAGTCGGCTGTTATTTTCATAGAATC 59.775 37.037 18.04 0.00 43.05 2.52
4049 4461 7.047891 TCAGTCGGCTGTTATTTTCATAGAAT 58.952 34.615 18.04 0.00 43.05 2.40
4050 4462 6.403049 TCAGTCGGCTGTTATTTTCATAGAA 58.597 36.000 18.04 0.00 43.05 2.10
4051 4463 5.972935 TCAGTCGGCTGTTATTTTCATAGA 58.027 37.500 18.04 0.00 43.05 1.98
4052 4464 6.662414 TTCAGTCGGCTGTTATTTTCATAG 57.338 37.500 18.04 0.00 43.05 2.23
4053 4465 6.876789 TCTTTCAGTCGGCTGTTATTTTCATA 59.123 34.615 18.04 0.00 43.05 2.15
4054 4466 5.705441 TCTTTCAGTCGGCTGTTATTTTCAT 59.295 36.000 18.04 0.00 43.05 2.57
4055 4467 5.060506 TCTTTCAGTCGGCTGTTATTTTCA 58.939 37.500 18.04 0.00 43.05 2.69
4056 4468 5.607119 TCTTTCAGTCGGCTGTTATTTTC 57.393 39.130 18.04 0.00 43.05 2.29
4057 4469 6.385649 TTTCTTTCAGTCGGCTGTTATTTT 57.614 33.333 18.04 0.00 43.05 1.82
4058 4470 6.385649 TTTTCTTTCAGTCGGCTGTTATTT 57.614 33.333 18.04 0.00 43.05 1.40
4059 4471 6.381801 CATTTTCTTTCAGTCGGCTGTTATT 58.618 36.000 18.04 0.00 43.05 1.40
4060 4472 5.619981 GCATTTTCTTTCAGTCGGCTGTTAT 60.620 40.000 18.04 0.00 43.05 1.89
4061 4473 4.320202 GCATTTTCTTTCAGTCGGCTGTTA 60.320 41.667 18.04 3.56 43.05 2.41
4062 4474 3.550842 GCATTTTCTTTCAGTCGGCTGTT 60.551 43.478 18.04 0.00 43.05 3.16
4063 4475 2.030805 GCATTTTCTTTCAGTCGGCTGT 60.031 45.455 18.04 0.00 43.05 4.40
4064 4476 2.589014 GCATTTTCTTTCAGTCGGCTG 58.411 47.619 11.77 11.77 43.87 4.85
4065 4477 1.197721 CGCATTTTCTTTCAGTCGGCT 59.802 47.619 0.00 0.00 0.00 5.52
4066 4478 1.069227 ACGCATTTTCTTTCAGTCGGC 60.069 47.619 0.00 0.00 0.00 5.54
4067 4479 2.223144 TGACGCATTTTCTTTCAGTCGG 59.777 45.455 0.00 0.00 0.00 4.79
4068 4480 3.059597 ACTGACGCATTTTCTTTCAGTCG 60.060 43.478 0.00 0.00 42.57 4.18
4069 4481 4.474226 ACTGACGCATTTTCTTTCAGTC 57.526 40.909 0.00 0.00 42.57 3.51
4071 4483 3.250762 TGGACTGACGCATTTTCTTTCAG 59.749 43.478 0.00 0.00 39.72 3.02
4072 4484 3.210227 TGGACTGACGCATTTTCTTTCA 58.790 40.909 0.00 0.00 0.00 2.69
4073 4485 3.896648 TGGACTGACGCATTTTCTTTC 57.103 42.857 0.00 0.00 0.00 2.62
4074 4486 4.853924 AATGGACTGACGCATTTTCTTT 57.146 36.364 0.00 0.00 0.00 2.52
4075 4487 4.853924 AAATGGACTGACGCATTTTCTT 57.146 36.364 0.00 0.00 30.88 2.52
4076 4488 4.853924 AAAATGGACTGACGCATTTTCT 57.146 36.364 0.00 0.00 36.06 2.52


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

AutoCloner maintained by Alex Coulton.