Multiple sequence alignment - TraesCS6D01G255200

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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 TraesCS6D01G255200 chr6D 100.000 3672 0 0 1 3672 360679802 360683473 0.000000e+00 6782.0
1 TraesCS6D01G255200 chr6B 91.104 3035 134 59 683 3672 542223275 542226218 0.000000e+00 3984.0
2 TraesCS6D01G255200 chr6B 88.038 627 47 9 3 601 542222633 542223259 0.000000e+00 717.0
3 TraesCS6D01G255200 chr6A 92.407 2252 84 28 1478 3672 501792225 501794446 0.000000e+00 3131.0
4 TraesCS6D01G255200 chr6A 92.400 750 35 11 646 1381 501791421 501792162 0.000000e+00 1050.0
5 TraesCS6D01G255200 chr6A 86.733 603 68 11 3 602 501789082 501789675 0.000000e+00 660.0
6 TraesCS6D01G255200 chr5D 86.139 808 69 19 1478 2278 458777239 458778010 0.000000e+00 832.0
7 TraesCS6D01G255200 chr5D 82.812 512 48 21 2346 2835 458778025 458778518 4.380000e-114 422.0
8 TraesCS6D01G255200 chr5D 84.038 213 27 7 2969 3180 458778628 458778834 8.040000e-47 198.0
9 TraesCS6D01G255200 chr5D 93.333 105 7 0 188 292 491795301 491795405 4.910000e-34 156.0
10 TraesCS6D01G255200 chr5D 93.333 45 2 1 998 1041 458776872 458776916 8.510000e-07 65.8
11 TraesCS6D01G255200 chr5B 92.888 464 33 0 1478 1941 562452613 562453076 0.000000e+00 675.0
12 TraesCS6D01G255200 chr5B 90.184 163 15 1 2349 2511 562454526 562454687 1.030000e-50 211.0
13 TraesCS6D01G255200 chr5B 80.833 240 27 10 2598 2835 562456252 562456474 1.750000e-38 171.0
14 TraesCS6D01G255200 chr5B 95.312 64 3 0 1957 2020 562453068 562453131 6.490000e-18 102.0
15 TraesCS6D01G255200 chr1D 90.345 145 12 2 150 292 442685150 442685294 4.840000e-44 189.0
16 TraesCS6D01G255200 chr7A 84.756 164 25 0 1195 1358 203042071 203041908 8.160000e-37 165.0
17 TraesCS6D01G255200 chr7D 81.675 191 34 1 1189 1379 193587050 193586861 1.370000e-34 158.0
18 TraesCS6D01G255200 chr7B 83.537 164 27 0 1195 1358 157219380 157219217 1.770000e-33 154.0


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 TraesCS6D01G255200 chr6D 360679802 360683473 3671 False 6782.000000 6782 100.000000 1 3672 1 chr6D.!!$F1 3671
1 TraesCS6D01G255200 chr6B 542222633 542226218 3585 False 2350.500000 3984 89.571000 3 3672 2 chr6B.!!$F1 3669
2 TraesCS6D01G255200 chr6A 501789082 501794446 5364 False 1613.666667 3131 90.513333 3 3672 3 chr6A.!!$F1 3669
3 TraesCS6D01G255200 chr5D 458776872 458778834 1962 False 379.450000 832 86.580500 998 3180 4 chr5D.!!$F2 2182
4 TraesCS6D01G255200 chr5B 562452613 562456474 3861 False 289.750000 675 89.804250 1478 2835 4 chr5B.!!$F1 1357

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
443 467 0.099968 CCGCCACAGCAGATGAAATG 59.900 55.0 0.00 0.0 39.83 2.32 F
633 2003 0.179140 CACTCTCTCCTCGAGCAAGC 60.179 60.0 6.99 0.0 39.70 4.01 F
2015 3786 0.396435 ACATGCCACTCACCGAGAAA 59.604 50.0 0.00 0.0 33.32 2.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2351 5288 0.104120 CCGCCGTATCCTGATCACAA 59.896 55.000 0.00 0.00 0.00 3.33 R
2526 5463 5.711036 ACATAAATTGTTTACCGGTTAGCCA 59.289 36.000 15.04 1.02 33.74 4.75 R
2925 7354 1.534595 GAGCTGCACTCTTCAAGGTTG 59.465 52.381 1.02 0.00 42.62 3.77 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
82 83 0.397941 TAGCAGATGGTGGCCTATGC 59.602 55.000 3.32 2.10 0.00 3.14
133 134 1.280457 GTCCTGATGGTCCAGTCCTT 58.720 55.000 0.00 0.00 32.43 3.36
138 139 0.179081 GATGGTCCAGTCCTTACCGC 60.179 60.000 0.00 0.00 35.98 5.68
247 248 1.497991 CATGTAACTATGCGGACGGG 58.502 55.000 0.00 0.00 0.00 5.28
298 320 8.058276 TCAACAGATGATACACATACAGTGTGG 61.058 40.741 5.88 0.20 46.72 4.17
318 341 2.872858 GGCCATTTCTCGGACAAGTATC 59.127 50.000 0.00 0.00 0.00 2.24
321 344 5.511545 GGCCATTTCTCGGACAAGTATCTAT 60.512 44.000 0.00 0.00 0.00 1.98
338 361 5.607168 ATCTATGGACTGAGGGAGTATCA 57.393 43.478 0.00 0.00 36.25 2.15
348 371 3.384789 TGAGGGAGTATCATACAGTGTGC 59.615 47.826 5.88 0.00 36.25 4.57
350 373 2.434336 GGGAGTATCATACAGTGTGCCA 59.566 50.000 5.88 0.00 36.25 4.92
376 400 3.732892 CGCGGCGTTGGAAATGGT 61.733 61.111 15.36 0.00 32.13 3.55
379 403 0.241481 GCGGCGTTGGAAATGGTTAA 59.759 50.000 9.37 0.00 32.13 2.01
443 467 0.099968 CCGCCACAGCAGATGAAATG 59.900 55.000 0.00 0.00 39.83 2.32
452 476 2.532531 CAGATGAAATGTGCGACACC 57.467 50.000 7.38 0.00 27.88 4.16
453 477 1.078709 AGATGAAATGTGCGACACCG 58.921 50.000 7.38 0.00 39.16 4.94
458 482 2.668185 AAATGTGCGACACCGGTGGA 62.668 55.000 36.47 15.88 36.06 4.02
514 538 2.291217 GCCTTCCTCCCACATCTCTTTT 60.291 50.000 0.00 0.00 0.00 2.27
531 555 1.238625 TTTTTCACCCTTAGCCGCCG 61.239 55.000 0.00 0.00 0.00 6.46
619 1989 1.705873 AAGTCCGTCCAGTTCACTCT 58.294 50.000 0.00 0.00 0.00 3.24
621 1991 1.202952 AGTCCGTCCAGTTCACTCTCT 60.203 52.381 0.00 0.00 0.00 3.10
623 1993 0.528470 CCGTCCAGTTCACTCTCTCC 59.472 60.000 0.00 0.00 0.00 3.71
624 1994 1.540267 CGTCCAGTTCACTCTCTCCT 58.460 55.000 0.00 0.00 0.00 3.69
625 1995 1.470890 CGTCCAGTTCACTCTCTCCTC 59.529 57.143 0.00 0.00 0.00 3.71
626 1996 1.470890 GTCCAGTTCACTCTCTCCTCG 59.529 57.143 0.00 0.00 0.00 4.63
627 1997 1.351350 TCCAGTTCACTCTCTCCTCGA 59.649 52.381 0.00 0.00 0.00 4.04
628 1998 1.742831 CCAGTTCACTCTCTCCTCGAG 59.257 57.143 5.13 5.13 41.30 4.04
629 1999 1.132262 CAGTTCACTCTCTCCTCGAGC 59.868 57.143 6.99 0.00 39.70 5.03
631 2001 1.542030 GTTCACTCTCTCCTCGAGCAA 59.458 52.381 6.99 0.00 39.70 3.91
632 2002 1.458398 TCACTCTCTCCTCGAGCAAG 58.542 55.000 6.99 6.82 39.70 4.01
633 2003 0.179140 CACTCTCTCCTCGAGCAAGC 60.179 60.000 6.99 0.00 39.70 4.01
634 2004 0.610509 ACTCTCTCCTCGAGCAAGCA 60.611 55.000 6.99 0.00 39.70 3.91
635 2005 0.529833 CTCTCTCCTCGAGCAAGCAA 59.470 55.000 6.99 0.00 39.70 3.91
636 2006 0.529833 TCTCTCCTCGAGCAAGCAAG 59.470 55.000 6.99 1.64 39.70 4.01
637 2007 1.079543 TCTCCTCGAGCAAGCAAGC 60.080 57.895 6.99 0.00 0.00 4.01
638 2008 1.375140 CTCCTCGAGCAAGCAAGCA 60.375 57.895 6.99 0.00 36.85 3.91
639 2009 1.360194 CTCCTCGAGCAAGCAAGCAG 61.360 60.000 6.99 0.00 36.85 4.24
640 2010 2.479650 CTCGAGCAAGCAAGCAGC 59.520 61.111 0.00 0.00 46.19 5.25
662 2395 4.776953 CTCTTTTGCCGTCGCGCG 62.777 66.667 26.76 26.76 38.08 6.86
802 2545 4.447325 TGGAGAACCTACACTACAGTGAGT 60.447 45.833 16.05 7.36 41.64 3.41
846 2589 2.574929 CGCGGCGCCCCTATATAA 59.425 61.111 27.87 0.00 0.00 0.98
866 2609 2.594592 GCACCCGGCTCAGTGTTT 60.595 61.111 9.84 0.00 40.25 2.83
880 2623 2.813754 CAGTGTTTCGATTCCCACACAT 59.186 45.455 12.18 0.20 41.73 3.21
890 2633 2.665000 CCACACATCCCACTCGCT 59.335 61.111 0.00 0.00 0.00 4.93
892 2635 1.293179 CACACATCCCACTCGCTGA 59.707 57.895 0.00 0.00 0.00 4.26
893 2636 1.016130 CACACATCCCACTCGCTGAC 61.016 60.000 0.00 0.00 0.00 3.51
894 2637 1.188219 ACACATCCCACTCGCTGACT 61.188 55.000 0.00 0.00 0.00 3.41
913 2662 2.032528 GCAGCAGCACTACCACCA 59.967 61.111 0.00 0.00 41.58 4.17
914 2663 2.328099 GCAGCAGCACTACCACCAC 61.328 63.158 0.00 0.00 41.58 4.16
915 2664 1.672356 CAGCAGCACTACCACCACC 60.672 63.158 0.00 0.00 0.00 4.61
916 2665 2.146724 AGCAGCACTACCACCACCA 61.147 57.895 0.00 0.00 0.00 4.17
917 2666 1.672356 GCAGCACTACCACCACCAG 60.672 63.158 0.00 0.00 0.00 4.00
918 2667 1.672356 CAGCACTACCACCACCAGC 60.672 63.158 0.00 0.00 0.00 4.85
919 2668 2.146724 AGCACTACCACCACCAGCA 61.147 57.895 0.00 0.00 0.00 4.41
920 2669 1.672356 GCACTACCACCACCAGCAG 60.672 63.158 0.00 0.00 0.00 4.24
921 2670 1.754745 CACTACCACCACCAGCAGT 59.245 57.895 0.00 0.00 0.00 4.40
985 2734 2.717044 CCCATCAGCCACCGTCGTA 61.717 63.158 0.00 0.00 0.00 3.43
1076 2825 2.271800 CAGGAGCCTTCATGTAACGTC 58.728 52.381 0.00 0.00 30.72 4.34
1078 2827 0.645868 GAGCCTTCATGTAACGTCGC 59.354 55.000 0.00 0.00 0.00 5.19
1114 2869 3.175152 CTCTAGATGCGTCTTGACACAC 58.825 50.000 14.93 0.00 35.87 3.82
1134 2889 2.618241 ACTTGACAATGCACACGTGAAT 59.382 40.909 25.01 9.88 0.00 2.57
1140 2896 3.066621 ACAATGCACACGTGAATTTGTCT 59.933 39.130 25.01 0.00 36.72 3.41
1147 2903 5.562917 CACACGTGAATTTGTCTATCATGG 58.437 41.667 25.01 0.00 35.01 3.66
1167 2924 3.075884 GGTAAAATGTGTTAGCGGTGGA 58.924 45.455 0.00 0.00 0.00 4.02
1400 3157 5.134339 ACCACATATGATACCACCTCCAAAT 59.866 40.000 10.38 0.00 0.00 2.32
1402 3159 7.147213 ACCACATATGATACCACCTCCAAATTA 60.147 37.037 10.38 0.00 0.00 1.40
1404 3161 7.939039 CACATATGATACCACCTCCAAATTACT 59.061 37.037 10.38 0.00 0.00 2.24
1405 3162 9.166222 ACATATGATACCACCTCCAAATTACTA 57.834 33.333 10.38 0.00 0.00 1.82
1406 3163 9.436957 CATATGATACCACCTCCAAATTACTAC 57.563 37.037 0.00 0.00 0.00 2.73
1408 3165 8.792830 ATGATACCACCTCCAAATTACTACTA 57.207 34.615 0.00 0.00 0.00 1.82
1409 3166 8.015185 TGATACCACCTCCAAATTACTACTAC 57.985 38.462 0.00 0.00 0.00 2.73
1413 3170 7.187676 ACCACCTCCAAATTACTACTACTACT 58.812 38.462 0.00 0.00 0.00 2.57
1416 3173 9.406113 CACCTCCAAATTACTACTACTACTACT 57.594 37.037 0.00 0.00 0.00 2.57
1446 3203 4.442375 CCATTACGTTGGTAAATGCCAA 57.558 40.909 0.00 0.00 45.37 4.52
1468 3225 5.760484 AAAAATAACCAATCATGCACCCT 57.240 34.783 0.00 0.00 0.00 4.34
1470 3227 6.865834 AAAATAACCAATCATGCACCCTAA 57.134 33.333 0.00 0.00 0.00 2.69
1473 3230 2.575532 ACCAATCATGCACCCTAATCG 58.424 47.619 0.00 0.00 0.00 3.34
1474 3231 1.267806 CCAATCATGCACCCTAATCGC 59.732 52.381 0.00 0.00 0.00 4.58
1475 3232 2.224606 CAATCATGCACCCTAATCGCT 58.775 47.619 0.00 0.00 0.00 4.93
2003 3774 2.316867 CGTCGTGCTCAACATGCCA 61.317 57.895 0.00 0.00 35.07 4.92
2015 3786 0.396435 ACATGCCACTCACCGAGAAA 59.604 50.000 0.00 0.00 33.32 2.52
2025 3796 4.025145 CACTCACCGAGAAAACAAAGTACC 60.025 45.833 0.00 0.00 33.32 3.34
2027 3798 4.773013 TCACCGAGAAAACAAAGTACCTT 58.227 39.130 0.00 0.00 0.00 3.50
2054 4697 2.426738 CAAGAACTGACTTTGCCAACCA 59.573 45.455 0.00 0.00 0.00 3.67
2055 4698 2.301346 AGAACTGACTTTGCCAACCAG 58.699 47.619 0.00 0.00 0.00 4.00
2058 4701 2.233271 ACTGACTTTGCCAACCAGATG 58.767 47.619 7.42 0.00 0.00 2.90
2066 4709 1.079819 CCAACCAGATGCTCGACGT 60.080 57.895 0.00 0.00 0.00 4.34
2272 5182 1.205655 TGAATTCCGGTCTGCTCTCTG 59.794 52.381 0.00 0.00 0.00 3.35
2287 5222 3.867600 GCTCTCTGACATTCCTTCTGCAA 60.868 47.826 0.00 0.00 0.00 4.08
2288 5223 4.321718 CTCTCTGACATTCCTTCTGCAAA 58.678 43.478 0.00 0.00 0.00 3.68
2289 5224 4.321718 TCTCTGACATTCCTTCTGCAAAG 58.678 43.478 0.00 0.00 0.00 2.77
2314 5249 2.642996 TACACCCGCCATGCTCATCG 62.643 60.000 0.00 0.00 0.00 3.84
2318 5253 2.528743 CCGCCATGCTCATCGTCAC 61.529 63.158 0.00 0.00 0.00 3.67
2323 5258 2.613595 GCCATGCTCATCGTCACATAAA 59.386 45.455 0.00 0.00 0.00 1.40
2329 5266 4.506288 TGCTCATCGTCACATAAATAACCG 59.494 41.667 0.00 0.00 0.00 4.44
2334 5271 6.372103 TCATCGTCACATAAATAACCGGTTTT 59.628 34.615 27.64 17.25 0.00 2.43
2526 5463 1.336332 CGCTAGTCGCTATGCTCCATT 60.336 52.381 0.00 0.00 36.13 3.16
2835 7260 4.627611 TGCTTTCATTTGCTATCAGCTC 57.372 40.909 0.00 0.00 42.97 4.09
2925 7354 2.666022 GTGTTGTGCAAAGGTTGTGTTC 59.334 45.455 0.00 0.00 0.00 3.18
2990 7450 8.798153 CAAAAAGATTATTGTAATGGCGTCTTC 58.202 33.333 0.00 0.00 0.00 2.87
3094 7554 3.244700 ACCAATCAGGAACTCAACCTCTG 60.245 47.826 0.00 0.00 41.22 3.35
3336 7797 7.038048 CACATACTCAATAAGCTCTTCACTGA 58.962 38.462 0.00 0.00 0.00 3.41
3461 7922 2.777692 ACCCTTCAGTTCCTTCTTGTCA 59.222 45.455 0.00 0.00 0.00 3.58
3577 8039 7.929941 TCAATGGGCGTAAATTGCATATATA 57.070 32.000 0.00 0.00 34.44 0.86
3578 8040 8.518430 TCAATGGGCGTAAATTGCATATATAT 57.482 30.769 0.00 0.00 34.44 0.86
3608 8070 5.288015 AGTGTGAATAGCAATGATCTCGAG 58.712 41.667 5.93 5.93 0.00 4.04
3626 8088 3.258372 TCGAGCACAGATAACCCATATCC 59.742 47.826 0.00 0.00 41.23 2.59
3644 8106 1.420138 TCCCAGTTCCAGGTTCTCAAC 59.580 52.381 0.00 0.00 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
82 83 2.276732 TGCAACCAGGAGGAAGAAAG 57.723 50.000 0.00 0.00 38.69 2.62
138 139 1.260033 CGTCTACCTAACCGTCTAGCG 59.740 57.143 0.33 0.33 40.95 4.26
247 248 9.227777 GATAGAGAGAAGAGGGTAGAAGAATAC 57.772 40.741 0.00 0.00 0.00 1.89
286 287 3.347216 GAGAAATGGCCACACTGTATGT 58.653 45.455 8.16 0.00 44.81 2.29
292 293 0.321653 GTCCGAGAAATGGCCACACT 60.322 55.000 8.16 7.87 0.00 3.55
293 294 0.605319 TGTCCGAGAAATGGCCACAC 60.605 55.000 8.16 1.89 0.00 3.82
294 295 0.109532 TTGTCCGAGAAATGGCCACA 59.890 50.000 8.16 0.00 0.00 4.17
295 296 0.804989 CTTGTCCGAGAAATGGCCAC 59.195 55.000 8.16 0.00 0.00 5.01
298 320 3.798202 AGATACTTGTCCGAGAAATGGC 58.202 45.455 0.00 0.00 0.00 4.40
318 341 6.249192 TGTATGATACTCCCTCAGTCCATAG 58.751 44.000 4.03 0.00 34.21 2.23
321 344 4.079154 ACTGTATGATACTCCCTCAGTCCA 60.079 45.833 4.03 0.00 36.43 4.02
350 373 4.020378 AACGCCGCGTCGCAAAAT 62.020 55.556 20.46 0.00 39.99 1.82
376 400 3.366396 TCTGCCTGTTTGTTTGGGTTAA 58.634 40.909 0.00 0.00 0.00 2.01
379 403 1.402787 CTCTGCCTGTTTGTTTGGGT 58.597 50.000 0.00 0.00 0.00 4.51
401 425 1.066587 GCGTCTCTCCGATTCCCAG 59.933 63.158 0.00 0.00 0.00 4.45
404 428 2.655685 GCGCGTCTCTCCGATTCC 60.656 66.667 8.43 0.00 0.00 3.01
427 451 1.466866 CGCACATTTCATCTGCTGTGG 60.467 52.381 3.97 0.00 39.45 4.17
431 455 1.466167 GTGTCGCACATTTCATCTGCT 59.534 47.619 5.30 0.00 34.08 4.24
432 456 1.466360 GGTGTCGCACATTTCATCTGC 60.466 52.381 11.20 0.00 35.86 4.26
433 457 1.201954 CGGTGTCGCACATTTCATCTG 60.202 52.381 11.20 0.00 35.86 2.90
443 467 3.041940 CTTCCACCGGTGTCGCAC 61.042 66.667 31.80 1.92 34.56 5.34
453 477 2.100631 CACATCGGCGTCTTCCACC 61.101 63.158 6.85 0.00 0.00 4.61
458 482 2.809601 GCGTCACATCGGCGTCTT 60.810 61.111 6.85 0.00 0.00 3.01
514 538 2.046700 CGGCGGCTAAGGGTGAAA 60.047 61.111 7.61 0.00 0.00 2.69
602 633 1.200484 GAGAGAGTGAACTGGACGGAC 59.800 57.143 0.00 0.00 0.00 4.79
603 634 1.535833 GAGAGAGTGAACTGGACGGA 58.464 55.000 0.00 0.00 0.00 4.69
604 635 0.528470 GGAGAGAGTGAACTGGACGG 59.472 60.000 0.00 0.00 0.00 4.79
619 1989 1.079543 GCTTGCTTGCTCGAGGAGA 60.080 57.895 15.58 1.66 0.00 3.71
621 1991 1.375140 CTGCTTGCTTGCTCGAGGA 60.375 57.895 15.58 9.02 0.00 3.71
623 1993 2.479650 GCTGCTTGCTTGCTCGAG 59.520 61.111 8.45 8.45 38.95 4.04
624 1994 3.052082 GGCTGCTTGCTTGCTCGA 61.052 61.111 0.00 0.00 42.39 4.04
625 1995 3.054503 AGGCTGCTTGCTTGCTCG 61.055 61.111 0.00 0.00 42.39 5.03
626 1996 2.567049 CAGGCTGCTTGCTTGCTC 59.433 61.111 0.00 3.04 41.75 4.26
631 2001 2.710237 AAAGAGGCAGGCTGCTTGCT 62.710 55.000 35.73 25.45 44.28 3.91
632 2002 1.813728 AAAAGAGGCAGGCTGCTTGC 61.814 55.000 35.73 26.32 44.28 4.01
633 2003 0.038526 CAAAAGAGGCAGGCTGCTTG 60.039 55.000 35.73 27.00 44.28 4.01
634 2004 1.813728 GCAAAAGAGGCAGGCTGCTT 61.814 55.000 35.73 30.94 44.28 3.91
635 2005 2.273912 GCAAAAGAGGCAGGCTGCT 61.274 57.895 35.73 22.98 44.28 4.24
636 2006 2.260743 GCAAAAGAGGCAGGCTGC 59.739 61.111 30.93 30.93 44.08 5.25
637 2007 2.968206 GGCAAAAGAGGCAGGCTG 59.032 61.111 10.94 10.94 0.00 4.85
638 2008 2.674380 CGGCAAAAGAGGCAGGCT 60.674 61.111 0.00 0.00 0.00 4.58
639 2009 2.982744 GACGGCAAAAGAGGCAGGC 61.983 63.158 0.00 0.00 0.00 4.85
640 2010 2.680913 CGACGGCAAAAGAGGCAGG 61.681 63.158 0.00 0.00 0.00 4.85
642 2012 3.353836 GCGACGGCAAAAGAGGCA 61.354 61.111 0.00 0.00 39.62 4.75
643 2013 4.445545 CGCGACGGCAAAAGAGGC 62.446 66.667 0.00 0.00 39.92 4.70
662 2395 1.543941 CCGCGCGATTGAGATGTCTC 61.544 60.000 34.63 3.07 43.15 3.36
770 2513 0.619255 TAGGTTCTCCATTCCCGCCA 60.619 55.000 0.00 0.00 35.89 5.69
802 2545 0.736636 CGTGCAGTACCCATCGACTA 59.263 55.000 0.00 0.00 0.00 2.59
846 2589 4.320456 CACTGAGCCGGGTGCACT 62.320 66.667 12.94 0.00 44.83 4.40
866 2609 0.251916 GTGGGATGTGTGGGAATCGA 59.748 55.000 0.00 0.00 0.00 3.59
880 2623 2.343758 GCAAGTCAGCGAGTGGGA 59.656 61.111 0.00 0.00 0.00 4.37
900 2649 1.672356 GCTGGTGGTGGTAGTGCTG 60.672 63.158 0.00 0.00 0.00 4.41
902 2651 1.672356 CTGCTGGTGGTGGTAGTGC 60.672 63.158 0.00 0.00 0.00 4.40
910 2659 4.320456 CGCTGGACTGCTGGTGGT 62.320 66.667 0.00 0.00 0.00 4.16
912 2661 4.994471 TGCGCTGGACTGCTGGTG 62.994 66.667 9.73 0.00 0.00 4.17
913 2662 4.996434 GTGCGCTGGACTGCTGGT 62.996 66.667 9.73 0.00 0.00 4.00
914 2663 4.994471 TGTGCGCTGGACTGCTGG 62.994 66.667 9.73 0.00 0.00 4.85
915 2664 3.720193 GTGTGCGCTGGACTGCTG 61.720 66.667 9.73 0.00 0.00 4.41
916 2665 4.996434 GGTGTGCGCTGGACTGCT 62.996 66.667 9.73 0.00 0.00 4.24
918 2667 1.915614 GATTGGTGTGCGCTGGACTG 61.916 60.000 9.73 0.00 0.00 3.51
919 2668 1.672356 GATTGGTGTGCGCTGGACT 60.672 57.895 9.73 0.00 0.00 3.85
920 2669 2.690778 GGATTGGTGTGCGCTGGAC 61.691 63.158 9.73 0.00 0.00 4.02
921 2670 2.359850 GGATTGGTGTGCGCTGGA 60.360 61.111 9.73 0.00 0.00 3.86
985 2734 0.471617 GCCATGGATGACAGTAGCCT 59.528 55.000 18.40 0.00 0.00 4.58
1050 2799 0.617413 CATGAAGGCTCCTGGTGAGT 59.383 55.000 0.00 0.00 43.48 3.41
1076 2825 3.528597 AGAGGCTAAGTAAGGAAAGCG 57.471 47.619 0.00 0.00 35.79 4.68
1078 2827 6.220201 GCATCTAGAGGCTAAGTAAGGAAAG 58.780 44.000 21.65 0.00 34.92 2.62
1114 2869 2.753989 TTCACGTGTGCATTGTCAAG 57.246 45.000 16.51 0.00 0.00 3.02
1140 2896 6.037720 CACCGCTAACACATTTTACCATGATA 59.962 38.462 0.00 0.00 0.00 2.15
1147 2903 4.957759 ATCCACCGCTAACACATTTTAC 57.042 40.909 0.00 0.00 0.00 2.01
1167 2924 7.495055 AGAACAAAAACAAAGCAGAGATGAAT 58.505 30.769 0.00 0.00 0.00 2.57
1388 3145 7.187676 AGTAGTAGTAGTAATTTGGAGGTGGT 58.812 38.462 0.00 0.00 0.00 4.16
1389 3146 7.657023 AGTAGTAGTAGTAATTTGGAGGTGG 57.343 40.000 0.00 0.00 0.00 4.61
1400 3157 5.009710 TCGCCGCTAGTAGTAGTAGTAGTAA 59.990 44.000 17.20 1.46 35.37 2.24
1402 3159 3.319405 TCGCCGCTAGTAGTAGTAGTAGT 59.681 47.826 17.20 0.00 35.37 2.73
1404 3161 3.553096 GGTCGCCGCTAGTAGTAGTAGTA 60.553 52.174 12.61 0.00 0.00 1.82
1405 3162 2.478831 GTCGCCGCTAGTAGTAGTAGT 58.521 52.381 12.61 0.00 0.00 2.73
1406 3163 1.797635 GGTCGCCGCTAGTAGTAGTAG 59.202 57.143 7.56 7.56 0.00 2.57
1408 3165 0.107508 TGGTCGCCGCTAGTAGTAGT 60.108 55.000 6.47 0.00 0.00 2.73
1409 3166 1.236628 ATGGTCGCCGCTAGTAGTAG 58.763 55.000 0.00 0.00 0.00 2.57
1413 3170 0.308684 CGTAATGGTCGCCGCTAGTA 59.691 55.000 0.00 0.00 0.00 1.82
1416 3173 0.802994 CAACGTAATGGTCGCCGCTA 60.803 55.000 0.00 0.00 0.00 4.26
1446 3203 5.760484 AGGGTGCATGATTGGTTATTTTT 57.240 34.783 0.00 0.00 0.00 1.94
1449 3206 5.241506 CGATTAGGGTGCATGATTGGTTATT 59.758 40.000 0.00 0.00 0.00 1.40
1450 3207 4.761739 CGATTAGGGTGCATGATTGGTTAT 59.238 41.667 0.00 0.00 0.00 1.89
2003 3774 4.124970 GGTACTTTGTTTTCTCGGTGAGT 58.875 43.478 0.00 0.00 0.00 3.41
2025 3796 7.648142 TGGCAAAGTCAGTTCTTGTAATTAAG 58.352 34.615 0.00 0.00 0.00 1.85
2027 3798 7.422399 GTTGGCAAAGTCAGTTCTTGTAATTA 58.578 34.615 0.00 0.00 0.00 1.40
2040 4680 0.961019 GCATCTGGTTGGCAAAGTCA 59.039 50.000 0.00 0.03 0.00 3.41
2054 4697 1.402984 GGACAGAAACGTCGAGCATCT 60.403 52.381 0.00 0.00 36.73 2.90
2055 4698 0.992802 GGACAGAAACGTCGAGCATC 59.007 55.000 0.00 0.00 36.73 3.91
2058 4701 0.716108 CATGGACAGAAACGTCGAGC 59.284 55.000 0.00 0.00 36.73 5.03
2066 4709 3.890756 AGCAATCACAACATGGACAGAAA 59.109 39.130 0.00 0.00 0.00 2.52
2188 5098 1.002257 TGCCTGCGTGTCCATGATT 60.002 52.632 0.00 0.00 0.00 2.57
2272 5182 8.677300 TGTATATTTCTTTGCAGAAGGAATGTC 58.323 33.333 18.09 11.77 40.28 3.06
2287 5222 2.884639 GCATGGCGGGTGTATATTTCTT 59.115 45.455 0.00 0.00 0.00 2.52
2288 5223 2.106511 AGCATGGCGGGTGTATATTTCT 59.893 45.455 0.00 0.00 0.00 2.52
2289 5224 2.484264 GAGCATGGCGGGTGTATATTTC 59.516 50.000 0.00 0.00 0.00 2.17
2341 5278 2.568956 TCCTGATCACAACAGAAGGGAG 59.431 50.000 0.00 0.00 37.54 4.30
2342 5279 2.619931 TCCTGATCACAACAGAAGGGA 58.380 47.619 0.00 0.00 37.54 4.20
2343 5280 3.641434 ATCCTGATCACAACAGAAGGG 57.359 47.619 0.00 0.00 37.54 3.95
2344 5281 4.115516 CGTATCCTGATCACAACAGAAGG 58.884 47.826 0.00 0.00 37.54 3.46
2345 5282 4.115516 CCGTATCCTGATCACAACAGAAG 58.884 47.826 0.00 0.00 37.54 2.85
2346 5283 3.678806 GCCGTATCCTGATCACAACAGAA 60.679 47.826 0.00 0.00 37.54 3.02
2347 5284 2.159099 GCCGTATCCTGATCACAACAGA 60.159 50.000 0.00 0.00 37.54 3.41
2348 5285 2.205074 GCCGTATCCTGATCACAACAG 58.795 52.381 0.00 0.00 35.43 3.16
2349 5286 1.470805 CGCCGTATCCTGATCACAACA 60.471 52.381 0.00 0.00 0.00 3.33
2350 5287 1.209128 CGCCGTATCCTGATCACAAC 58.791 55.000 0.00 0.00 0.00 3.32
2351 5288 0.104120 CCGCCGTATCCTGATCACAA 59.896 55.000 0.00 0.00 0.00 3.33
2526 5463 5.711036 ACATAAATTGTTTACCGGTTAGCCA 59.289 36.000 15.04 1.02 33.74 4.75
2835 7260 8.973835 TTACGAAAAATAAATACAGCAAAGGG 57.026 30.769 0.00 0.00 0.00 3.95
2850 7275 6.317893 ACAGTGAAGGACAGTTTACGAAAAAT 59.682 34.615 0.00 0.00 0.00 1.82
2851 7276 5.644636 ACAGTGAAGGACAGTTTACGAAAAA 59.355 36.000 0.00 0.00 0.00 1.94
2925 7354 1.534595 GAGCTGCACTCTTCAAGGTTG 59.465 52.381 1.02 0.00 42.62 3.77
2976 7436 3.006940 GGTGAATGAAGACGCCATTACA 58.993 45.455 0.00 0.00 34.67 2.41
2990 7450 6.668541 AAGTCGAATGTTCTATGGTGAATG 57.331 37.500 0.00 0.00 0.00 2.67
3336 7797 6.795144 TGCCATGATTTACTTTGATGGAAT 57.205 33.333 0.00 0.00 36.45 3.01
3461 7922 1.620819 GGAGTGATGATCCGCCACTAT 59.379 52.381 10.47 0.00 40.80 2.12
3581 8043 7.763985 TCGAGATCATTGCTATTCACACTTAAA 59.236 33.333 0.00 0.00 0.00 1.52
3582 8044 7.264947 TCGAGATCATTGCTATTCACACTTAA 58.735 34.615 0.00 0.00 0.00 1.85
3583 8045 6.805713 TCGAGATCATTGCTATTCACACTTA 58.194 36.000 0.00 0.00 0.00 2.24
3608 8070 3.073062 ACTGGGATATGGGTTATCTGTGC 59.927 47.826 0.00 0.00 37.45 4.57
3626 8088 5.737063 CAAAATGTTGAGAACCTGGAACTGG 60.737 44.000 0.00 0.00 44.49 4.00


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

AutoCloner maintained by Alex Coulton.