Multiple sequence alignment - TraesCS1A01G007000

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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 TraesCS1A01G007000 chr1A 100.000 3649 0 0 1 3649 3680612 3676964 0.000000e+00 6739
1 TraesCS1A01G007000 chr1A 89.334 3319 285 31 366 3649 2975203 2978487 0.000000e+00 4104
2 TraesCS1A01G007000 chr1A 89.095 3347 288 34 341 3649 3453560 3450253 0.000000e+00 4087
3 TraesCS1A01G007000 chr1A 86.006 343 46 2 2 343 3656613 3656272 2.070000e-97 366
4 TraesCS1A01G007000 chr1A 84.868 304 41 5 2 302 3581761 3581460 5.920000e-78 302
5 TraesCS1A01G007000 chr1B 88.432 3354 318 35 341 3649 4560483 4557155 0.000000e+00 3980
6 TraesCS1A01G007000 chr1B 89.618 2803 240 23 329 3102 4115681 4118461 0.000000e+00 3517
7 TraesCS1A01G007000 chr1B 88.614 2793 249 30 341 3102 4482512 4479758 0.000000e+00 3332
8 TraesCS1A01G007000 chr1B 85.774 3100 360 54 2 3064 687786248 687789303 0.000000e+00 3206
9 TraesCS1A01G007000 chr1B 84.759 748 112 2 2 748 4579774 4579028 0.000000e+00 749
10 TraesCS1A01G007000 chr1B 91.732 508 32 4 3139 3639 4118461 4118965 0.000000e+00 697
11 TraesCS1A01G007000 chr1B 90.076 524 33 9 3139 3649 4479758 4479241 0.000000e+00 662
12 TraesCS1A01G007000 chr1D 88.200 3373 295 37 341 3649 619982 616649 0.000000e+00 3928
13 TraesCS1A01G007000 chr1D 84.082 3229 407 60 119 3283 448119 451304 0.000000e+00 3016
14 TraesCS1A01G007000 chr1D 85.261 2802 370 29 189 2973 696994 694219 0.000000e+00 2846
15 TraesCS1A01G007000 chr1D 85.847 2685 354 18 82 2751 460073 462746 0.000000e+00 2830
16 TraesCS1A01G007000 chr1D 85.754 358 47 4 2 357 648166 648521 3.440000e-100 375
17 TraesCS1A01G007000 chr1D 87.018 285 35 2 2 285 459489 459772 1.630000e-83 320
18 TraesCS1A01G007000 chr1D 83.871 155 21 4 3432 3584 396394 396546 1.060000e-30 145
19 TraesCS1A01G007000 chr3D 81.337 359 57 9 4 357 560057363 560057010 2.140000e-72 283


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 TraesCS1A01G007000 chr1A 3676964 3680612 3648 True 6739 6739 100.0000 1 3649 1 chr1A.!!$R4 3648
1 TraesCS1A01G007000 chr1A 2975203 2978487 3284 False 4104 4104 89.3340 366 3649 1 chr1A.!!$F1 3283
2 TraesCS1A01G007000 chr1A 3450253 3453560 3307 True 4087 4087 89.0950 341 3649 1 chr1A.!!$R1 3308
3 TraesCS1A01G007000 chr1B 4557155 4560483 3328 True 3980 3980 88.4320 341 3649 1 chr1B.!!$R1 3308
4 TraesCS1A01G007000 chr1B 687786248 687789303 3055 False 3206 3206 85.7740 2 3064 1 chr1B.!!$F1 3062
5 TraesCS1A01G007000 chr1B 4115681 4118965 3284 False 2107 3517 90.6750 329 3639 2 chr1B.!!$F2 3310
6 TraesCS1A01G007000 chr1B 4479241 4482512 3271 True 1997 3332 89.3450 341 3649 2 chr1B.!!$R3 3308
7 TraesCS1A01G007000 chr1B 4579028 4579774 746 True 749 749 84.7590 2 748 1 chr1B.!!$R2 746
8 TraesCS1A01G007000 chr1D 616649 619982 3333 True 3928 3928 88.2000 341 3649 1 chr1D.!!$R1 3308
9 TraesCS1A01G007000 chr1D 448119 451304 3185 False 3016 3016 84.0820 119 3283 1 chr1D.!!$F2 3164
10 TraesCS1A01G007000 chr1D 694219 696994 2775 True 2846 2846 85.2610 189 2973 1 chr1D.!!$R2 2784
11 TraesCS1A01G007000 chr1D 459489 462746 3257 False 1575 2830 86.4325 2 2751 2 chr1D.!!$F4 2749

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
40 41 0.588252 TTTGCAGCGTCTTCAGCTTC 59.412 50.0 0.00 0.00 44.06 3.86 F
1317 1828 0.314935 CCGTCTTTGCAAGCATGGTT 59.685 50.0 3.82 3.82 0.00 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1601 2112 0.809241 CTCCCTTGCTTCAGCGCTAG 60.809 60.000 10.99 6.13 45.83 3.42 R
3304 3919 1.078143 CTGCCCTACAACCCTCTGC 60.078 63.158 0.00 0.00 0.00 4.26 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
27 28 0.737219 GCAGGCTAGTCCATTTGCAG 59.263 55.000 1.72 0.00 34.63 4.41
28 29 0.737219 CAGGCTAGTCCATTTGCAGC 59.263 55.000 6.07 0.00 37.29 5.25
40 41 0.588252 TTTGCAGCGTCTTCAGCTTC 59.412 50.000 0.00 0.00 44.06 3.86
42 43 0.947660 TGCAGCGTCTTCAGCTTCAG 60.948 55.000 0.00 0.00 44.06 3.02
66 67 7.330208 CAGTCAAATGATTTTTCAGGTCCAATC 59.670 37.037 0.00 0.00 0.00 2.67
146 147 3.508048 GGGTTCCATCCCACAGGT 58.492 61.111 0.00 0.00 46.30 4.00
178 395 7.538678 GCAGTCTCAATATGTTAAACCAACTTG 59.461 37.037 0.00 0.00 38.05 3.16
179 396 8.023128 CAGTCTCAATATGTTAAACCAACTTGG 58.977 37.037 6.24 6.24 45.02 3.61
277 782 9.739276 TTCTCTATACAAATCAAATCACAGGTT 57.261 29.630 0.00 0.00 0.00 3.50
309 814 2.494870 AGAATTGGGCATCTTGCTGAAC 59.505 45.455 0.00 0.00 44.28 3.18
315 820 1.093159 GCATCTTGCTGAACCTCCAG 58.907 55.000 0.00 0.00 40.96 3.86
333 838 3.447586 TCCAGGAATTAGACTTGTCCGAG 59.552 47.826 0.00 0.00 35.19 4.63
403 909 6.726490 ACCTCGAATATTTAGGCTTGTCTA 57.274 37.500 14.63 0.00 33.42 2.59
416 922 6.670695 AGGCTTGTCTATGAACCAAATTTT 57.329 33.333 0.00 0.00 0.00 1.82
463 969 3.102052 AGTTGCAAAGCATCCAAACAG 57.898 42.857 0.00 0.00 38.76 3.16
466 972 1.068895 TGCAAAGCATCCAAACAGTGG 59.931 47.619 0.00 0.00 40.67 4.00
515 1021 5.171339 TCTCTTCCTCAAGAATTTGGAGG 57.829 43.478 12.39 12.39 38.23 4.30
594 1100 4.338118 CCCGCAAATATATGTTCAAGTGGT 59.662 41.667 9.41 0.00 0.00 4.16
600 1106 8.552034 GCAAATATATGTTCAAGTGGTAGACTC 58.448 37.037 0.00 0.00 31.73 3.36
604 1110 4.067972 TGTTCAAGTGGTAGACTCCAAC 57.932 45.455 0.00 0.00 39.34 3.77
648 1154 0.977108 TCAATGGCCCCATTCCAAGC 60.977 55.000 9.52 0.00 43.92 4.01
656 1162 2.094026 GCCCCATTCCAAGCAGTTTAAG 60.094 50.000 0.00 0.00 0.00 1.85
700 1206 5.008613 CGAATTGACCTTCAGAGAAACCAAA 59.991 40.000 0.00 0.00 0.00 3.28
708 1214 5.770162 CCTTCAGAGAAACCAAATAACAGGT 59.230 40.000 0.00 0.00 40.61 4.00
715 1221 9.614792 AGAGAAACCAAATAACAGGTGATATAC 57.385 33.333 0.00 0.00 38.37 1.47
800 1306 2.615912 GGCACATCTCACCAAATCTAGC 59.384 50.000 0.00 0.00 0.00 3.42
805 1311 3.701205 TCTCACCAAATCTAGCTGCAA 57.299 42.857 1.02 0.00 0.00 4.08
842 1352 7.549839 ACGGTACTACATCTAGCACAAAATAA 58.450 34.615 0.00 0.00 0.00 1.40
843 1353 7.490402 ACGGTACTACATCTAGCACAAAATAAC 59.510 37.037 0.00 0.00 0.00 1.89
870 1380 3.323775 GGGTTCCATACCTCCAATCCTA 58.676 50.000 0.00 0.00 46.86 2.94
922 1433 5.181009 CACTTGATTCTAACCATCTCAGCA 58.819 41.667 0.00 0.00 0.00 4.41
927 1438 3.876274 TCTAACCATCTCAGCAGTGAC 57.124 47.619 0.00 0.00 0.00 3.67
949 1460 2.479566 TCCACCAGAAATCTGCACTC 57.520 50.000 4.87 0.00 42.47 3.51
1002 1513 4.083110 GCGAACCAATTATCTGGATCCATG 60.083 45.833 16.63 9.42 38.96 3.66
1017 1528 6.135454 TGGATCCATGCCTACACAAATAAAT 58.865 36.000 11.44 0.00 0.00 1.40
1018 1529 6.040729 TGGATCCATGCCTACACAAATAAATG 59.959 38.462 11.44 0.00 0.00 2.32
1074 1585 6.274515 TGGGAACAGATTGAGTGCATCAATT 61.275 40.000 18.94 9.16 46.93 2.32
1140 1651 7.989826 AGATCAACAATAATAACTTCAGTGGC 58.010 34.615 0.00 0.00 0.00 5.01
1300 1811 3.499737 GTGGCAGCATTCCGTCCG 61.500 66.667 0.00 0.00 0.00 4.79
1301 1812 4.015406 TGGCAGCATTCCGTCCGT 62.015 61.111 0.00 0.00 0.00 4.69
1317 1828 0.314935 CCGTCTTTGCAAGCATGGTT 59.685 50.000 3.82 3.82 0.00 3.67
1469 1980 2.166254 CACCATGTTATTCAACCCCAGC 59.834 50.000 0.00 0.00 33.41 4.85
1471 1982 2.830923 CCATGTTATTCAACCCCAGCAA 59.169 45.455 0.00 0.00 33.41 3.91
1479 1990 3.164610 AACCCCAGCAACTGCCCAT 62.165 57.895 0.00 0.00 43.38 4.00
1484 1995 1.205417 CCCAGCAACTGCCCATAAAAG 59.795 52.381 0.00 0.00 43.38 2.27
1509 2020 5.926542 GGGAAAGATACTTGGTTTGCTTTTC 59.073 40.000 0.00 0.00 0.00 2.29
1601 2112 4.639135 AGAGAAAACCACAAGAAAGTGC 57.361 40.909 0.00 0.00 38.18 4.40
1604 2115 5.529060 AGAGAAAACCACAAGAAAGTGCTAG 59.471 40.000 0.00 0.00 38.18 3.42
1620 2131 0.809241 CTAGCGCTGAAGCAAGGGAG 60.809 60.000 22.90 0.23 42.21 4.30
1621 2132 1.257750 TAGCGCTGAAGCAAGGGAGA 61.258 55.000 22.90 0.00 42.21 3.71
1623 2134 1.712977 GCGCTGAAGCAAGGGAGATG 61.713 60.000 0.00 0.00 42.21 2.90
1647 2158 6.098124 TGTTCTCTGTTTGGAATTTTGATGGT 59.902 34.615 0.00 0.00 0.00 3.55
1736 2247 3.069729 GGAGGATACGGCAAAGTCTACAT 59.930 47.826 0.00 0.00 46.39 2.29
1759 2270 1.371183 CAACTCCAAGACGGGCAGA 59.629 57.895 0.00 0.00 34.36 4.26
2148 2659 1.816224 GGCACGGCAAGGATTCTTAAA 59.184 47.619 0.00 0.00 0.00 1.52
2223 2735 5.773680 TCCTGGTATGTACTAGCATAACCTC 59.226 44.000 0.00 0.00 38.04 3.85
2348 2861 8.579850 AGAAATGTGATGTTTATAGCTTTGGA 57.420 30.769 0.00 0.00 0.00 3.53
2470 2984 0.108615 CAACGGCCAACAACACCAAA 60.109 50.000 2.24 0.00 0.00 3.28
2500 3014 4.403752 TGAAGAGAATAGCTTAGCTCTGCA 59.596 41.667 11.09 13.24 39.98 4.41
2713 3233 5.046014 AGCAGAGGCCGATTCAGATTTATAT 60.046 40.000 0.00 0.00 42.56 0.86
2759 3289 9.475620 CATACACCACCTATATATACCTCTTGA 57.524 37.037 0.00 0.00 0.00 3.02
2886 3446 3.562141 TCCCACGTAAAAATGTGTGTCTG 59.438 43.478 0.00 0.00 34.28 3.51
2900 3460 2.238646 TGTGTCTGGTCCTGTGTTCTTT 59.761 45.455 0.00 0.00 0.00 2.52
2937 3497 4.083855 TGTTCGCTTGCTGATTTCTAACAG 60.084 41.667 0.00 0.00 37.22 3.16
2945 3505 6.426980 TGCTGATTTCTAACAGTGCATAAG 57.573 37.500 0.00 0.00 36.62 1.73
2982 3542 7.569639 TGCGGGTTGCTTATATTTGTTATAA 57.430 32.000 0.00 0.00 46.63 0.98
2984 3544 7.499563 TGCGGGTTGCTTATATTTGTTATAAGA 59.500 33.333 13.81 0.00 46.99 2.10
2985 3545 7.801783 GCGGGTTGCTTATATTTGTTATAAGAC 59.198 37.037 13.81 6.27 46.99 3.01
2986 3546 9.052759 CGGGTTGCTTATATTTGTTATAAGACT 57.947 33.333 13.81 0.00 46.99 3.24
3045 3627 0.250727 GGCTGTTGTCTGCAGGGTAA 60.251 55.000 15.13 3.99 39.69 2.85
3167 3770 7.118723 AGTCCTGCTTTATTTGTTCCATATGA 58.881 34.615 3.65 0.00 0.00 2.15
3168 3771 7.615365 AGTCCTGCTTTATTTGTTCCATATGAA 59.385 33.333 3.65 0.00 0.00 2.57
3173 3776 9.299963 TGCTTTATTTGTTCCATATGAAAATCG 57.700 29.630 3.65 0.00 33.94 3.34
3207 3810 3.297134 TGGACCAAGCAGGAATAATCC 57.703 47.619 1.83 0.00 46.98 3.01
3345 3978 9.209175 GCAGAAGTATGTAGTCCTTATTATTGG 57.791 37.037 0.00 0.00 0.00 3.16
3371 4005 7.122650 GTCCCATGAATCTGAAGGTGAAAAATA 59.877 37.037 0.00 0.00 0.00 1.40
3443 4077 7.338449 TCTGGGTATCAAAGTAAAATACCTTGC 59.662 37.037 9.85 0.00 42.94 4.01
3481 4115 5.784750 TCACAATGATCAAGTGTTCGATC 57.215 39.130 23.09 0.00 38.81 3.69
3612 4255 3.451178 TGTAGTCCTTGTCCTTAGGATGC 59.549 47.826 3.52 0.00 43.39 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 1.502231 TTGACTGAAGCTGAAGACGC 58.498 50.000 3.03 0.00 0.00 5.19
28 29 3.742882 TCATTTGACTGAAGCTGAAGACG 59.257 43.478 3.03 0.00 0.00 4.18
40 41 6.088016 TGGACCTGAAAAATCATTTGACTG 57.912 37.500 0.00 0.00 0.00 3.51
42 43 6.591448 GGATTGGACCTGAAAAATCATTTGAC 59.409 38.462 0.00 0.00 31.92 3.18
66 67 4.823989 GTGAGATTGGTTATGGAGATTGGG 59.176 45.833 0.00 0.00 0.00 4.12
121 122 1.847328 GGGATGGAACCCGTGATTTT 58.153 50.000 0.00 0.00 40.49 1.82
141 142 6.327626 ACATATTGAGACTGCCTATTACCTGT 59.672 38.462 0.00 0.00 0.00 4.00
143 144 7.380423 AACATATTGAGACTGCCTATTACCT 57.620 36.000 0.00 0.00 0.00 3.08
144 145 9.555727 TTTAACATATTGAGACTGCCTATTACC 57.444 33.333 0.00 0.00 0.00 2.85
146 147 9.555727 GGTTTAACATATTGAGACTGCCTATTA 57.444 33.333 0.00 0.00 0.00 0.98
171 388 6.588719 TGATTTTTATGGAGACCAAGTTGG 57.411 37.500 20.76 20.76 45.02 3.77
178 395 8.749354 ACCTGTTATTTGATTTTTATGGAGACC 58.251 33.333 0.00 0.00 0.00 3.85
214 431 4.082136 CACAGTGAGGTTCCCTAGTTCTAC 60.082 50.000 0.00 0.00 31.76 2.59
215 432 4.087182 CACAGTGAGGTTCCCTAGTTCTA 58.913 47.826 0.00 0.00 31.76 2.10
235 524 8.721478 TGTATAGAGAAAAAGTTCATTGAGCAC 58.279 33.333 3.25 0.00 36.09 4.40
277 782 4.314522 TGCCCAATTCTGAAGGTATTGA 57.685 40.909 3.65 0.00 32.36 2.57
309 814 3.430929 CGGACAAGTCTAATTCCTGGAGG 60.431 52.174 0.00 0.00 0.00 4.30
315 820 4.182339 GGTTCTCGGACAAGTCTAATTCC 58.818 47.826 0.00 0.00 0.00 3.01
489 995 4.460731 CCAAATTCTTGAGGAAGAGAACCC 59.539 45.833 0.00 0.00 39.44 4.11
515 1021 3.944087 AGGTCAACAAGGCTTATGAGAC 58.056 45.455 13.39 12.02 0.00 3.36
594 1100 5.716703 TGAGACAATGAGATGTTGGAGTCTA 59.283 40.000 0.00 0.00 35.45 2.59
600 1106 9.722184 ATATTAGATGAGACAATGAGATGTTGG 57.278 33.333 0.00 0.00 32.57 3.77
648 1154 3.067106 ACTCGTGCATGTCCTTAAACTG 58.933 45.455 5.68 0.00 0.00 3.16
656 1162 0.951558 AACCAAACTCGTGCATGTCC 59.048 50.000 5.68 0.00 0.00 4.02
708 1214 5.589855 CACACCAAAATGCTGAGGTATATCA 59.410 40.000 0.00 0.00 32.01 2.15
715 1221 3.129287 GGATACACACCAAAATGCTGAGG 59.871 47.826 0.00 0.00 0.00 3.86
800 1306 1.359848 CGTTAGCTGGGTACTTGCAG 58.640 55.000 0.00 0.00 0.00 4.41
870 1380 9.047947 AGTTCTACTAGGTTGGACAATTTAGAT 57.952 33.333 0.00 2.25 0.00 1.98
912 1423 2.286872 GGAATGTCACTGCTGAGATGG 58.713 52.381 0.00 0.00 30.84 3.51
922 1433 4.330250 CAGATTTCTGGTGGAATGTCACT 58.670 43.478 0.00 0.00 40.20 3.41
927 1438 3.087031 AGTGCAGATTTCTGGTGGAATG 58.913 45.455 9.49 0.00 43.94 2.67
967 1478 5.957842 AATTGGTTCGCTGATAAGTTCAA 57.042 34.783 0.00 0.00 32.78 2.69
979 1490 3.476552 TGGATCCAGATAATTGGTTCGC 58.523 45.455 11.44 0.00 37.67 4.70
1002 1513 6.183360 TGCTTAGCTCATTTATTTGTGTAGGC 60.183 38.462 5.60 0.00 0.00 3.93
1017 1528 6.985653 AGGTATTCTAGATTGCTTAGCTCA 57.014 37.500 5.60 0.00 0.00 4.26
1018 1529 7.437748 TCAAGGTATTCTAGATTGCTTAGCTC 58.562 38.462 5.60 0.00 0.00 4.09
1067 1578 4.445448 CCCCTAGTTCCTCTGGAATTGATG 60.445 50.000 2.17 0.00 44.04 3.07
1074 1585 1.003051 GGCCCCTAGTTCCTCTGGA 59.997 63.158 0.00 0.00 0.00 3.86
1077 1588 1.690985 GCAGGCCCCTAGTTCCTCT 60.691 63.158 0.00 0.00 0.00 3.69
1140 1651 1.468565 CCAATCGCATCTGGCAAACTG 60.469 52.381 0.00 0.00 45.17 3.16
1300 1811 2.672195 GGCTAACCATGCTTGCAAAGAC 60.672 50.000 0.00 0.00 40.83 3.01
1301 1812 1.545582 GGCTAACCATGCTTGCAAAGA 59.454 47.619 0.00 0.00 40.83 2.52
1469 1980 2.230130 TCCCCTTTTATGGGCAGTTG 57.770 50.000 0.00 0.00 45.78 3.16
1471 1982 2.381961 TCTTTCCCCTTTTATGGGCAGT 59.618 45.455 0.00 0.00 45.78 4.40
1479 1990 6.014925 GCAAACCAAGTATCTTTCCCCTTTTA 60.015 38.462 0.00 0.00 0.00 1.52
1484 1995 3.431415 AGCAAACCAAGTATCTTTCCCC 58.569 45.455 0.00 0.00 0.00 4.81
1509 2020 2.899256 ACCCATCACAAGAACAATTGGG 59.101 45.455 10.83 3.58 42.39 4.12
1601 2112 0.809241 CTCCCTTGCTTCAGCGCTAG 60.809 60.000 10.99 6.13 45.83 3.42
1604 2115 1.451028 ATCTCCCTTGCTTCAGCGC 60.451 57.895 0.00 0.00 45.83 5.92
1620 2131 7.330208 CCATCAAAATTCCAAACAGAGAACATC 59.670 37.037 0.00 0.00 0.00 3.06
1621 2132 7.156673 CCATCAAAATTCCAAACAGAGAACAT 58.843 34.615 0.00 0.00 0.00 2.71
1623 2134 6.515832 ACCATCAAAATTCCAAACAGAGAAC 58.484 36.000 0.00 0.00 0.00 3.01
1736 2247 1.227823 CCGTCTTGGAGTTGTGCCA 60.228 57.895 0.00 0.00 42.00 4.92
1759 2270 2.283145 AGCTTCTTCACAGCAACCAT 57.717 45.000 0.00 0.00 39.99 3.55
1953 2464 3.550437 TCCTTTGCTAGCTCCTCATTC 57.450 47.619 17.23 0.00 0.00 2.67
2111 2622 1.533731 TGCCGAAATCCGAGACAAAAC 59.466 47.619 0.00 0.00 41.76 2.43
2148 2659 4.330250 CACTCCAGTTTGATGAATCAGGT 58.670 43.478 0.00 0.00 38.19 4.00
2223 2735 2.775911 TGCTTCTGATGTGAGAAGGG 57.224 50.000 10.50 0.00 46.27 3.95
2290 2803 2.134201 TGTGTACGACAGTTCTGCAG 57.866 50.000 7.63 7.63 0.00 4.41
2348 2861 3.895656 TCACTAGCTCTAACACAACCACT 59.104 43.478 0.00 0.00 0.00 4.00
2470 2984 7.563906 AGCTAAGCTATTCTCTTCAGTTGATT 58.436 34.615 0.00 0.00 36.99 2.57
2500 3014 3.285484 CAAGATAAGGCCAGCTTGATGT 58.715 45.455 14.27 0.00 43.08 3.06
2759 3289 3.389329 AGTCTTCAACTCATCCTGTGTGT 59.611 43.478 0.00 0.00 36.16 3.72
2886 3446 7.824779 ACAGAGAAATATAAAGAACACAGGACC 59.175 37.037 0.00 0.00 0.00 4.46
2900 3460 6.371548 AGCAAGCGAACAAACAGAGAAATATA 59.628 34.615 0.00 0.00 0.00 0.86
2937 3497 6.198216 CCGCAAACCAAATTATACTTATGCAC 59.802 38.462 0.00 0.00 0.00 4.57
2945 3505 3.615056 GCAACCCGCAAACCAAATTATAC 59.385 43.478 0.00 0.00 41.79 1.47
2982 3542 6.890268 TGGATACTATGTGTACAGTTCAGTCT 59.110 38.462 0.00 0.00 33.45 3.24
2984 3544 6.436218 TGTGGATACTATGTGTACAGTTCAGT 59.564 38.462 0.00 0.14 33.45 3.41
2985 3545 6.863275 TGTGGATACTATGTGTACAGTTCAG 58.137 40.000 0.00 0.00 33.45 3.02
2986 3546 6.844097 TGTGGATACTATGTGTACAGTTCA 57.156 37.500 0.00 0.00 33.45 3.18
2987 3547 7.265673 ACATGTGGATACTATGTGTACAGTTC 58.734 38.462 0.00 0.00 41.38 3.01
2988 3548 7.182817 ACATGTGGATACTATGTGTACAGTT 57.817 36.000 0.00 0.00 41.38 3.16
3167 3770 7.775093 TGGTCCAAGATATTTCATCTCGATTTT 59.225 33.333 0.00 0.00 0.00 1.82
3168 3771 7.282585 TGGTCCAAGATATTTCATCTCGATTT 58.717 34.615 0.00 0.00 0.00 2.17
3173 3776 5.824624 TGCTTGGTCCAAGATATTTCATCTC 59.175 40.000 31.94 12.07 43.42 2.75
3178 3781 4.526970 TCCTGCTTGGTCCAAGATATTTC 58.473 43.478 31.94 15.17 43.42 2.17
3207 3810 4.448537 TTTCTTCCCGTTTATGCATTGG 57.551 40.909 3.54 2.05 0.00 3.16
3304 3919 1.078143 CTGCCCTACAACCCTCTGC 60.078 63.158 0.00 0.00 0.00 4.26
3345 3978 3.634397 TCACCTTCAGATTCATGGGAC 57.366 47.619 0.00 0.00 0.00 4.46
3371 4005 5.238432 TGATAACGTGTCAGTTTTGCATTCT 59.762 36.000 0.00 0.00 35.70 2.40
3376 4010 4.783242 ACATGATAACGTGTCAGTTTTGC 58.217 39.130 0.00 0.00 41.73 3.68
3443 4077 2.439409 TGTGATCATTCCTGCTTGGTG 58.561 47.619 0.00 0.00 37.07 4.17
3612 4255 2.027745 AGGACAAGGACTACACATGCTG 60.028 50.000 0.00 0.00 0.00 4.41


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

AutoCloner maintained by Alex Coulton.