Multiple sequence alignment - TraesCS5D01G469900

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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 TraesCS5D01G469900 chr5D 100.000 3167 0 0 1 3167 510903552 510906718 0.000000e+00 5849.0
1 TraesCS5D01G469900 chr5D 86.925 1675 177 17 610 2254 510600051 510598389 0.000000e+00 1842.0
2 TraesCS5D01G469900 chr5D 86.130 1752 182 32 610 2335 510647916 510646200 0.000000e+00 1832.0
3 TraesCS5D01G469900 chr5D 76.871 1029 189 24 924 1911 510354052 510353032 1.290000e-148 536.0
4 TraesCS5D01G469900 chr5D 83.042 401 40 11 628 1001 510504173 510503774 3.910000e-89 339.0
5 TraesCS5D01G469900 chr5D 83.273 275 20 9 2473 2740 510632467 510632212 2.460000e-56 230.0
6 TraesCS5D01G469900 chr5D 91.270 126 10 1 164 288 510626596 510626471 1.510000e-38 171.0
7 TraesCS5D01G469900 chr5D 90.476 126 11 1 164 288 510389318 510389193 7.030000e-37 165.0
8 TraesCS5D01G469900 chr5D 89.600 125 12 1 165 288 510492725 510492601 1.180000e-34 158.0
9 TraesCS5D01G469900 chr5D 89.062 64 5 2 2366 2427 510632529 510632466 9.420000e-11 78.7
10 TraesCS5D01G469900 chr5B 94.762 2558 90 11 226 2760 641804553 641807089 0.000000e+00 3941.0
11 TraesCS5D01G469900 chr5B 87.737 1949 198 15 631 2539 641428678 641426731 0.000000e+00 2237.0
12 TraesCS5D01G469900 chr5B 87.251 1655 174 24 609 2243 641413385 641411748 0.000000e+00 1853.0
13 TraesCS5D01G469900 chr5B 80.611 1310 225 19 1037 2330 641247059 641245763 0.000000e+00 985.0
14 TraesCS5D01G469900 chr5B 92.163 319 17 7 2819 3129 641807848 641808166 8.060000e-121 444.0
15 TraesCS5D01G469900 chr5B 86.503 163 15 3 1 159 641804090 641804249 4.200000e-39 172.0
16 TraesCS5D01G469900 chr5B 98.000 50 1 0 160 209 641804506 641804555 1.560000e-13 87.9
17 TraesCS5D01G469900 chr5A 93.288 2354 92 27 160 2494 639097591 639099897 0.000000e+00 3411.0
18 TraesCS5D01G469900 chr5A 88.444 1722 168 16 608 2304 638812856 638811141 0.000000e+00 2049.0
19 TraesCS5D01G469900 chr5A 78.319 1273 238 25 1096 2346 639087094 639088350 0.000000e+00 787.0
20 TraesCS5D01G469900 chr5A 79.970 664 108 22 1037 1683 638641832 638641177 1.720000e-127 466.0
21 TraesCS5D01G469900 chr5A 89.674 368 22 7 2768 3119 639104841 639105208 3.720000e-124 455.0
22 TraesCS5D01G469900 chr5A 85.359 362 30 9 2374 2727 638811140 638810794 1.400000e-93 353.0
23 TraesCS5D01G469900 chr5A 91.011 267 14 3 2486 2750 639104451 639104709 5.030000e-93 351.0
24 TraesCS5D01G469900 chr5A 88.800 125 13 1 165 288 638763467 638763343 5.470000e-33 152.0


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 TraesCS5D01G469900 chr5D 510903552 510906718 3166 False 5849.000 5849 100.0000 1 3167 1 chr5D.!!$F1 3166
1 TraesCS5D01G469900 chr5D 510598389 510600051 1662 True 1842.000 1842 86.9250 610 2254 1 chr5D.!!$R5 1644
2 TraesCS5D01G469900 chr5D 510646200 510647916 1716 True 1832.000 1832 86.1300 610 2335 1 chr5D.!!$R7 1725
3 TraesCS5D01G469900 chr5D 510353032 510354052 1020 True 536.000 536 76.8710 924 1911 1 chr5D.!!$R1 987
4 TraesCS5D01G469900 chr5B 641426731 641428678 1947 True 2237.000 2237 87.7370 631 2539 1 chr5B.!!$R3 1908
5 TraesCS5D01G469900 chr5B 641411748 641413385 1637 True 1853.000 1853 87.2510 609 2243 1 chr5B.!!$R2 1634
6 TraesCS5D01G469900 chr5B 641804090 641808166 4076 False 1161.225 3941 92.8570 1 3129 4 chr5B.!!$F1 3128
7 TraesCS5D01G469900 chr5B 641245763 641247059 1296 True 985.000 985 80.6110 1037 2330 1 chr5B.!!$R1 1293
8 TraesCS5D01G469900 chr5A 639097591 639099897 2306 False 3411.000 3411 93.2880 160 2494 1 chr5A.!!$F2 2334
9 TraesCS5D01G469900 chr5A 638810794 638812856 2062 True 1201.000 2049 86.9015 608 2727 2 chr5A.!!$R3 2119
10 TraesCS5D01G469900 chr5A 639087094 639088350 1256 False 787.000 787 78.3190 1096 2346 1 chr5A.!!$F1 1250
11 TraesCS5D01G469900 chr5A 638641177 638641832 655 True 466.000 466 79.9700 1037 1683 1 chr5A.!!$R1 646
12 TraesCS5D01G469900 chr5A 639104451 639105208 757 False 403.000 455 90.3425 2486 3119 2 chr5A.!!$F3 633

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
85 86 0.695803 CCCCCTAGCTGGTGATTCCT 60.696 60.0 0.00 0.0 37.07 3.36 F
122 123 0.946700 TCGTCTTCATGCCGCGAAAA 60.947 50.0 8.23 0.0 0.00 2.29 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1993 2354 0.867746 TCAGCAATCGTGTCAGCAAC 59.132 50.000 0.0 0.0 0.00 4.17 R
2219 2597 2.717390 TGCATAACAGCCGTTTGGTAT 58.283 42.857 0.0 0.0 36.52 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
31 32 3.280920 GATGCGACCTGGATCTCAC 57.719 57.895 0.00 0.00 41.82 3.51
57 58 3.948719 GTTCCGCCACCCTGGACA 61.949 66.667 0.00 0.00 40.96 4.02
58 59 3.948719 TTCCGCCACCCTGGACAC 61.949 66.667 0.00 0.00 40.96 3.67
85 86 0.695803 CCCCCTAGCTGGTGATTCCT 60.696 60.000 0.00 0.00 37.07 3.36
91 92 4.195416 CCTAGCTGGTGATTCCTCTTTTC 58.805 47.826 0.00 0.00 37.07 2.29
92 93 4.080638 CCTAGCTGGTGATTCCTCTTTTCT 60.081 45.833 0.00 0.00 37.07 2.52
105 106 3.430098 CCTCTTTTCTCCTCATCCTGTCG 60.430 52.174 0.00 0.00 0.00 4.35
112 113 2.692557 CTCCTCATCCTGTCGTCTTCAT 59.307 50.000 0.00 0.00 0.00 2.57
122 123 0.946700 TCGTCTTCATGCCGCGAAAA 60.947 50.000 8.23 0.00 0.00 2.29
126 127 1.196808 TCTTCATGCCGCGAAAAGAAC 59.803 47.619 8.23 0.00 0.00 3.01
168 429 3.639561 TCAGCCGCACTAAAGTATCCATA 59.360 43.478 0.00 0.00 0.00 2.74
211 491 4.740741 CACAACCGTGTCATTGTCATAA 57.259 40.909 0.00 0.00 36.92 1.90
212 492 4.711721 CACAACCGTGTCATTGTCATAAG 58.288 43.478 0.00 0.00 36.92 1.73
213 493 3.751175 ACAACCGTGTCATTGTCATAAGG 59.249 43.478 0.00 0.00 33.80 2.69
214 494 2.356135 ACCGTGTCATTGTCATAAGGC 58.644 47.619 4.10 0.00 0.00 4.35
215 495 2.290008 ACCGTGTCATTGTCATAAGGCA 60.290 45.455 0.00 0.00 0.00 4.75
216 496 2.945008 CCGTGTCATTGTCATAAGGCAT 59.055 45.455 0.00 0.00 0.00 4.40
217 497 3.242837 CCGTGTCATTGTCATAAGGCATG 60.243 47.826 0.00 0.00 35.81 4.06
218 498 3.622612 CGTGTCATTGTCATAAGGCATGA 59.377 43.478 0.00 0.00 41.52 3.07
219 499 4.094739 CGTGTCATTGTCATAAGGCATGAA 59.905 41.667 0.00 0.00 45.28 2.57
220 500 5.335127 GTGTCATTGTCATAAGGCATGAAC 58.665 41.667 0.00 0.00 45.28 3.18
221 501 5.008980 TGTCATTGTCATAAGGCATGAACA 58.991 37.500 0.00 0.00 45.28 3.18
222 502 5.653330 TGTCATTGTCATAAGGCATGAACAT 59.347 36.000 0.00 0.00 45.28 2.71
223 503 5.975344 GTCATTGTCATAAGGCATGAACATG 59.025 40.000 10.04 10.04 45.28 3.21
224 504 5.887035 TCATTGTCATAAGGCATGAACATGA 59.113 36.000 17.40 0.00 45.28 3.07
225 505 6.548251 TCATTGTCATAAGGCATGAACATGAT 59.452 34.615 17.40 6.28 45.28 2.45
226 506 6.381481 TTGTCATAAGGCATGAACATGATC 57.619 37.500 17.40 0.00 45.28 2.92
227 507 5.438833 TGTCATAAGGCATGAACATGATCA 58.561 37.500 17.40 8.23 45.28 2.92
244 524 4.598022 TGATCACATATGTTTCAAGGGCA 58.402 39.130 5.37 0.00 0.00 5.36
275 555 1.597742 AATTCAAGCATCGATCGGGG 58.402 50.000 16.41 8.90 0.00 5.73
382 666 3.484407 AGCACTTGTCTCAGCTTTTCAT 58.516 40.909 0.00 0.00 32.52 2.57
401 685 8.731275 TTTTCATGGTGTCTAATAGGTACATG 57.269 34.615 0.00 0.00 36.66 3.21
544 828 6.035975 GGATGGCGAAATTGGAAAAACTTATG 59.964 38.462 0.00 0.00 0.00 1.90
836 1147 2.290641 ACCATTTATCAAGTGCCGGTCA 60.291 45.455 1.90 0.00 0.00 4.02
1611 1970 7.563556 TCAGATATACTTGGTGGTGATTCACTA 59.436 37.037 16.02 7.78 37.75 2.74
1921 2280 1.541233 GGAGGGACATAATGCTCCGTG 60.541 57.143 0.00 0.00 0.00 4.94
1993 2354 4.082463 ACTTGGAGAGAGAGCTAGTTTTCG 60.082 45.833 0.00 0.00 0.00 3.46
2004 2365 2.659291 GCTAGTTTTCGTTGCTGACACG 60.659 50.000 0.00 0.00 0.00 4.49
2219 2597 8.063200 TCTAGTTATCTTTTGTGCACTAGCTA 57.937 34.615 19.41 10.92 42.74 3.32
2308 2689 4.320057 GCACTTGTCATTTCTCCTGTCAAG 60.320 45.833 8.16 8.16 42.02 3.02
2311 2692 4.008074 TGTCATTTCTCCTGTCAAGTCC 57.992 45.455 0.00 0.00 0.00 3.85
2381 2777 8.682936 ATGTTATGAAGCTTTCTATACAAGGG 57.317 34.615 0.00 0.00 0.00 3.95
2471 2871 6.272396 GTCTCTTGACATAGCAGCTAGCGA 62.272 50.000 9.55 0.00 44.77 4.93
2591 2995 1.428448 TCATTGCCGACGAGTTCTTG 58.572 50.000 0.00 0.00 0.00 3.02
2612 3016 3.260884 TGAGGTACATCCAGTTCCAGTTC 59.739 47.826 4.87 0.00 39.94 3.01
2660 3064 3.265995 TGGTATCCTCCTTCAAAGTTCCC 59.734 47.826 0.00 0.00 0.00 3.97
2701 3105 2.921435 GGATGCCCTCCTCATGCA 59.079 61.111 0.00 0.00 41.29 3.96
2702 3106 1.228184 GGATGCCCTCCTCATGCAG 60.228 63.158 0.00 0.00 41.29 4.41
2703 3107 1.530771 GATGCCCTCCTCATGCAGT 59.469 57.895 0.00 0.00 38.58 4.40
2704 3108 0.534652 GATGCCCTCCTCATGCAGTC 60.535 60.000 0.00 0.00 38.58 3.51
2705 3109 1.276859 ATGCCCTCCTCATGCAGTCA 61.277 55.000 0.00 0.00 38.58 3.41
2760 3206 1.954146 GCAGCGTGGACGAAGAACA 60.954 57.895 2.73 0.00 43.02 3.18
2763 3209 1.654105 CAGCGTGGACGAAGAACATAC 59.346 52.381 2.73 0.00 43.02 2.39
2764 3210 1.544691 AGCGTGGACGAAGAACATACT 59.455 47.619 2.73 0.00 43.02 2.12
2766 3212 2.670229 GCGTGGACGAAGAACATACTGA 60.670 50.000 2.73 0.00 43.02 3.41
2782 3674 8.635765 AACATACTGACAATTTAACCACTGAT 57.364 30.769 0.00 0.00 0.00 2.90
2831 3977 0.999406 CGTCTATGCCAACGTGAAGG 59.001 55.000 0.00 0.00 34.30 3.46
2871 4017 4.668837 CGTGTAACAAGAATTTCACCAACG 59.331 41.667 0.00 0.00 35.74 4.10
2935 4083 6.459670 TGATGCAATGTATTTCATCTTGCT 57.540 33.333 14.96 0.00 40.56 3.91
3033 4188 4.753610 CCACACGATAATGCTCATTGAGAT 59.246 41.667 17.87 1.61 32.50 2.75
3044 4206 3.814283 GCTCATTGAGATGAATGACCTCC 59.186 47.826 17.87 0.00 41.55 4.30
3058 4220 4.826274 TGACCTCCTAATCTCAAACCTG 57.174 45.455 0.00 0.00 0.00 4.00
3077 4239 1.416401 TGAAGTTTCTCCCGCTCTGTT 59.584 47.619 0.00 0.00 0.00 3.16
3089 4251 3.242870 CCCGCTCTGTTTTGAATCTATGC 60.243 47.826 0.00 0.00 0.00 3.14
3142 4305 6.280855 AGGCCATCCTTTTGTGTTTTATAC 57.719 37.500 5.01 0.00 40.66 1.47
3143 4306 5.186992 AGGCCATCCTTTTGTGTTTTATACC 59.813 40.000 5.01 0.00 40.66 2.73
3144 4307 5.416083 GCCATCCTTTTGTGTTTTATACCC 58.584 41.667 0.00 0.00 0.00 3.69
3145 4308 5.186992 GCCATCCTTTTGTGTTTTATACCCT 59.813 40.000 0.00 0.00 0.00 4.34
3146 4309 6.630071 CCATCCTTTTGTGTTTTATACCCTG 58.370 40.000 0.00 0.00 0.00 4.45
3147 4310 6.350949 CCATCCTTTTGTGTTTTATACCCTGG 60.351 42.308 0.00 0.00 0.00 4.45
3148 4311 5.954757 TCCTTTTGTGTTTTATACCCTGGA 58.045 37.500 0.00 0.00 0.00 3.86
3149 4312 6.557568 TCCTTTTGTGTTTTATACCCTGGAT 58.442 36.000 0.00 0.00 0.00 3.41
3150 4313 6.435904 TCCTTTTGTGTTTTATACCCTGGATG 59.564 38.462 0.00 0.00 0.00 3.51
3151 4314 6.210584 CCTTTTGTGTTTTATACCCTGGATGT 59.789 38.462 0.00 0.00 0.00 3.06
3152 4315 6.582677 TTTGTGTTTTATACCCTGGATGTG 57.417 37.500 0.00 0.00 0.00 3.21
3153 4316 4.013728 TGTGTTTTATACCCTGGATGTGC 58.986 43.478 0.00 0.00 0.00 4.57
3154 4317 3.064820 GTGTTTTATACCCTGGATGTGCG 59.935 47.826 0.00 0.00 0.00 5.34
3155 4318 1.961793 TTTATACCCTGGATGTGCGC 58.038 50.000 0.00 0.00 0.00 6.09
3156 4319 0.833949 TTATACCCTGGATGTGCGCA 59.166 50.000 5.66 5.66 0.00 6.09
3157 4320 0.833949 TATACCCTGGATGTGCGCAA 59.166 50.000 14.00 2.60 0.00 4.85
3158 4321 0.464373 ATACCCTGGATGTGCGCAAG 60.464 55.000 14.00 5.11 43.44 4.01
3159 4322 1.549243 TACCCTGGATGTGCGCAAGA 61.549 55.000 14.00 1.01 43.02 3.02
3160 4323 1.452651 CCCTGGATGTGCGCAAGAT 60.453 57.895 14.00 7.39 43.02 2.40
3161 4324 1.033746 CCCTGGATGTGCGCAAGATT 61.034 55.000 14.00 0.00 43.02 2.40
3162 4325 0.099968 CCTGGATGTGCGCAAGATTG 59.900 55.000 14.00 0.61 43.02 2.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 2.501610 GGCGGTGAGATCCAGGTC 59.498 66.667 0.00 0.00 0.00 3.85
76 77 4.559862 TGAGGAGAAAAGAGGAATCACC 57.440 45.455 0.00 0.00 39.35 4.02
81 82 4.171234 ACAGGATGAGGAGAAAAGAGGAA 58.829 43.478 0.00 0.00 39.69 3.36
85 86 3.165875 ACGACAGGATGAGGAGAAAAGA 58.834 45.455 0.00 0.00 39.69 2.52
91 92 2.095461 TGAAGACGACAGGATGAGGAG 58.905 52.381 0.00 0.00 39.69 3.69
92 93 2.215942 TGAAGACGACAGGATGAGGA 57.784 50.000 0.00 0.00 39.69 3.71
105 106 0.796312 TCTTTTCGCGGCATGAAGAC 59.204 50.000 6.13 0.00 0.00 3.01
112 113 1.282248 CTCGAGTTCTTTTCGCGGCA 61.282 55.000 6.13 0.00 37.94 5.69
126 127 3.985279 TGACCAACATAAACGAACTCGAG 59.015 43.478 11.84 11.84 43.02 4.04
168 429 8.862325 TGTGTATATGAAAGAACAGATTTGGT 57.138 30.769 0.00 0.00 0.00 3.67
209 489 6.999871 ACATATGTGATCATGTTCATGCCTTA 59.000 34.615 7.78 1.65 35.70 2.69
210 490 5.831525 ACATATGTGATCATGTTCATGCCTT 59.168 36.000 7.78 0.00 35.70 4.35
211 491 5.382616 ACATATGTGATCATGTTCATGCCT 58.617 37.500 7.78 0.00 35.70 4.75
212 492 5.700722 ACATATGTGATCATGTTCATGCC 57.299 39.130 7.78 0.00 35.70 4.40
213 493 7.197703 TGAAACATATGTGATCATGTTCATGC 58.802 34.615 9.63 0.00 42.93 4.06
214 494 9.233232 CTTGAAACATATGTGATCATGTTCATG 57.767 33.333 19.62 15.62 42.93 3.07
215 495 8.410912 CCTTGAAACATATGTGATCATGTTCAT 58.589 33.333 19.62 7.20 42.93 2.57
216 496 7.148035 CCCTTGAAACATATGTGATCATGTTCA 60.148 37.037 19.62 15.52 42.93 3.18
217 497 7.198390 CCCTTGAAACATATGTGATCATGTTC 58.802 38.462 19.62 13.60 42.93 3.18
218 498 6.406177 GCCCTTGAAACATATGTGATCATGTT 60.406 38.462 19.62 6.60 45.03 2.71
219 499 5.068198 GCCCTTGAAACATATGTGATCATGT 59.932 40.000 19.62 0.00 36.96 3.21
220 500 5.068067 TGCCCTTGAAACATATGTGATCATG 59.932 40.000 19.62 19.91 35.70 3.07
221 501 5.202765 TGCCCTTGAAACATATGTGATCAT 58.797 37.500 19.62 0.00 38.00 2.45
222 502 4.598022 TGCCCTTGAAACATATGTGATCA 58.402 39.130 9.63 13.98 0.00 2.92
223 503 5.126061 AGTTGCCCTTGAAACATATGTGATC 59.874 40.000 9.63 11.54 0.00 2.92
224 504 5.018809 AGTTGCCCTTGAAACATATGTGAT 58.981 37.500 9.63 1.21 0.00 3.06
225 505 4.406456 AGTTGCCCTTGAAACATATGTGA 58.594 39.130 9.63 0.00 0.00 3.58
226 506 4.789012 AGTTGCCCTTGAAACATATGTG 57.211 40.909 9.63 0.00 0.00 3.21
244 524 8.094798 TCGATGCTTGAATTAGTAAACAAGTT 57.905 30.769 22.38 15.53 40.88 2.66
288 568 2.069273 GTGCGACTGACAAGTGCTAAT 58.931 47.619 0.00 0.00 36.52 1.73
289 569 1.497991 GTGCGACTGACAAGTGCTAA 58.502 50.000 0.00 0.00 36.52 3.09
323 607 4.282703 GCCAGGGCAAATCAAGAATATCAT 59.717 41.667 5.20 0.00 41.49 2.45
382 666 7.914427 AATCTCATGTACCTATTAGACACCA 57.086 36.000 0.00 0.00 0.00 4.17
401 685 9.323985 GAATGCACCTTCAGGATATATAATCTC 57.676 37.037 0.00 0.00 38.94 2.75
836 1147 6.127647 TGAGCGAATTAATGGATTGAAGCTTT 60.128 34.615 0.00 0.00 0.00 3.51
1321 1655 4.780815 CCTGTACCACCATGATAACACAT 58.219 43.478 0.00 0.00 0.00 3.21
1611 1970 6.154363 CCACATACAACACCCCATTTAAGAAT 59.846 38.462 0.00 0.00 0.00 2.40
1821 2180 2.947652 ACTCCAAATTCGGATGATGCAG 59.052 45.455 0.00 0.00 33.56 4.41
1993 2354 0.867746 TCAGCAATCGTGTCAGCAAC 59.132 50.000 0.00 0.00 0.00 4.17
2219 2597 2.717390 TGCATAACAGCCGTTTGGTAT 58.283 42.857 0.00 0.00 36.52 2.73
2308 2689 2.474816 CTAGCATAAGCAAGACCGGAC 58.525 52.381 9.46 0.10 45.49 4.79
2311 2692 1.202580 AGGCTAGCATAAGCAAGACCG 60.203 52.381 18.24 0.00 44.64 4.79
2381 2777 2.280119 TCACACTGCCTCACACGC 60.280 61.111 0.00 0.00 0.00 5.34
2499 2901 6.458751 CGACTTTGCTATGGCTGAAACATTAT 60.459 38.462 1.68 0.00 39.59 1.28
2591 2995 3.676324 CGAACTGGAACTGGATGTACCTC 60.676 52.174 0.00 0.00 39.86 3.85
2700 3104 2.286831 GCGAATGGATGAAGCATGACTG 60.287 50.000 0.00 0.00 0.00 3.51
2701 3105 1.945394 GCGAATGGATGAAGCATGACT 59.055 47.619 0.00 0.00 0.00 3.41
2702 3106 1.945394 AGCGAATGGATGAAGCATGAC 59.055 47.619 0.00 0.00 0.00 3.06
2703 3107 1.944709 CAGCGAATGGATGAAGCATGA 59.055 47.619 0.00 0.00 32.47 3.07
2704 3108 2.401017 CAGCGAATGGATGAAGCATG 57.599 50.000 0.00 0.00 32.47 4.06
2741 3145 2.357034 TTCTTCGTCCACGCTGCC 60.357 61.111 0.00 0.00 39.60 4.85
2751 3155 7.442969 TGGTTAAATTGTCAGTATGTTCTTCGT 59.557 33.333 0.00 0.00 37.40 3.85
2752 3198 7.744715 GTGGTTAAATTGTCAGTATGTTCTTCG 59.255 37.037 0.00 0.00 37.40 3.79
2760 3206 7.402054 TGGATCAGTGGTTAAATTGTCAGTAT 58.598 34.615 0.00 0.00 0.00 2.12
2763 3209 6.375174 TGATGGATCAGTGGTTAAATTGTCAG 59.625 38.462 0.00 0.00 32.11 3.51
2764 3210 6.244654 TGATGGATCAGTGGTTAAATTGTCA 58.755 36.000 0.00 0.00 32.11 3.58
2766 3212 6.891361 TGATGATGGATCAGTGGTTAAATTGT 59.109 34.615 0.00 0.00 40.64 2.71
2782 3674 4.040095 CAGTGGAATAGCTCTGATGATGGA 59.960 45.833 0.00 0.00 0.00 3.41
2831 3977 2.493713 ACGAATGTAGCGTGGAGATC 57.506 50.000 0.00 0.00 40.94 2.75
2871 4017 2.360475 GGTGGCAGCACTTCCCTC 60.360 66.667 12.58 0.00 0.00 4.30
2935 4083 6.885918 TGCCTCATGATTGATCAGTTTAAGAA 59.114 34.615 0.00 0.00 40.64 2.52
2977 4126 1.328680 CAGACGAATATGTGTGGCAGC 59.671 52.381 0.00 0.00 30.03 5.25
3033 4188 5.488919 AGGTTTGAGATTAGGAGGTCATTCA 59.511 40.000 0.00 0.00 0.00 2.57
3044 4206 6.372937 GGGAGAAACTTCAGGTTTGAGATTAG 59.627 42.308 0.00 0.00 46.77 1.73
3058 4220 2.171341 AACAGAGCGGGAGAAACTTC 57.829 50.000 0.00 0.00 0.00 3.01
3077 4239 0.550914 AGCCCCGGCATAGATTCAAA 59.449 50.000 8.74 0.00 44.88 2.69
3089 4251 2.623416 GAGGATTAATTTTGAGCCCCGG 59.377 50.000 0.00 0.00 0.00 5.73
3121 4284 5.186992 AGGGTATAAAACACAAAAGGATGGC 59.813 40.000 0.00 0.00 31.97 4.40
3129 4292 5.047660 GCACATCCAGGGTATAAAACACAAA 60.048 40.000 0.00 0.00 31.97 2.83
3130 4293 4.461081 GCACATCCAGGGTATAAAACACAA 59.539 41.667 0.00 0.00 31.97 3.33
3131 4294 4.013728 GCACATCCAGGGTATAAAACACA 58.986 43.478 0.00 0.00 31.97 3.72
3132 4295 3.064820 CGCACATCCAGGGTATAAAACAC 59.935 47.826 0.00 0.00 0.00 3.32
3133 4296 3.275143 CGCACATCCAGGGTATAAAACA 58.725 45.455 0.00 0.00 0.00 2.83
3134 4297 2.032924 GCGCACATCCAGGGTATAAAAC 59.967 50.000 0.30 0.00 0.00 2.43
3135 4298 2.294074 GCGCACATCCAGGGTATAAAA 58.706 47.619 0.30 0.00 0.00 1.52
3136 4299 1.210722 TGCGCACATCCAGGGTATAAA 59.789 47.619 5.66 0.00 0.00 1.40
3137 4300 0.833949 TGCGCACATCCAGGGTATAA 59.166 50.000 5.66 0.00 0.00 0.98
3138 4301 0.833949 TTGCGCACATCCAGGGTATA 59.166 50.000 11.12 0.00 0.00 1.47
3139 4302 0.464373 CTTGCGCACATCCAGGGTAT 60.464 55.000 11.12 0.00 0.00 2.73
3140 4303 1.078497 CTTGCGCACATCCAGGGTA 60.078 57.895 11.12 0.00 0.00 3.69
3141 4304 2.202236 ATCTTGCGCACATCCAGGGT 62.202 55.000 11.12 0.00 0.00 4.34
3142 4305 1.033746 AATCTTGCGCACATCCAGGG 61.034 55.000 11.12 0.00 0.00 4.45
3143 4306 0.099968 CAATCTTGCGCACATCCAGG 59.900 55.000 11.12 0.00 0.00 4.45
3144 4307 0.524816 GCAATCTTGCGCACATCCAG 60.525 55.000 11.12 4.19 45.11 3.86
3145 4308 1.507630 GCAATCTTGCGCACATCCA 59.492 52.632 11.12 0.00 45.11 3.41
3146 4309 4.389772 GCAATCTTGCGCACATCC 57.610 55.556 11.12 0.00 45.11 3.51


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

AutoCloner maintained by Alex Coulton.