Multiple sequence alignment - TraesCS7D01G113100

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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 TraesCS7D01G113100 chr7D 100.000 3319 0 0 1 3319 69264266 69267584 0.000000e+00 6130.0
1 TraesCS7D01G113100 chr7D 100.000 28 0 0 153 180 64983282 64983309 6.000000e-03 52.8
2 TraesCS7D01G113100 chr7D 100.000 28 0 0 153 180 633528332 633528359 6.000000e-03 52.8
3 TraesCS7D01G113100 chr7A 94.920 2362 93 18 646 2997 75034967 75037311 0.000000e+00 3672.0
4 TraesCS7D01G113100 chr7A 91.374 313 22 5 2 313 75034301 75034609 1.100000e-114 424.0
5 TraesCS7D01G113100 chr7A 93.191 235 13 3 341 575 75034605 75034836 3.170000e-90 342.0
6 TraesCS7D01G113100 chr7A 93.810 210 10 3 3113 3319 75038756 75038965 2.490000e-81 313.0
7 TraesCS7D01G113100 chr7B 93.206 2517 111 29 678 3153 11529509 11532006 0.000000e+00 3646.0
8 TraesCS7D01G113100 chr7B 88.782 312 22 9 266 568 11529209 11529516 1.450000e-98 370.0
9 TraesCS7D01G113100 chrUn 94.286 35 0 2 153 186 30246280 30246247 6.000000e-03 52.8
10 TraesCS7D01G113100 chr6D 94.286 35 0 2 153 186 19379468 19379435 6.000000e-03 52.8
11 TraesCS7D01G113100 chr5D 100.000 28 0 0 153 180 469437310 469437337 6.000000e-03 52.8
12 TraesCS7D01G113100 chr5D 100.000 28 0 0 153 180 542461103 542461130 6.000000e-03 52.8
13 TraesCS7D01G113100 chr3D 94.286 35 0 2 153 186 426066714 426066681 6.000000e-03 52.8
14 TraesCS7D01G113100 chr1D 94.286 35 0 2 153 186 62365217 62365184 6.000000e-03 52.8


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 TraesCS7D01G113100 chr7D 69264266 69267584 3318 False 6130.00 6130 100.00000 1 3319 1 chr7D.!!$F2 3318
1 TraesCS7D01G113100 chr7A 75034301 75038965 4664 False 1187.75 3672 93.32375 2 3319 4 chr7A.!!$F1 3317
2 TraesCS7D01G113100 chr7B 11529209 11532006 2797 False 2008.00 3646 90.99400 266 3153 2 chr7B.!!$F1 2887

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
245 246 0.105964 TTCATTCTATGGGTCGGCCG 59.894 55.0 22.12 22.12 34.97 6.13 F
1137 1232 0.250038 TATCCTACGTAGACGCCGCT 60.250 55.0 24.15 0.99 44.43 5.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2033 2133 0.034380 CGAGGTCTAGGTGGAGGTCA 60.034 60.0 0.00 0.0 0.00 4.02 R
2341 2449 0.461339 GAAACGAATCGCCCCTGCTA 60.461 55.0 1.15 0.0 34.43 3.49 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
30 31 6.115448 AGCACTACTCTTGTAATTTGACCT 57.885 37.500 0.00 0.00 0.00 3.85
32 33 6.651225 AGCACTACTCTTGTAATTTGACCTTC 59.349 38.462 0.00 0.00 0.00 3.46
33 34 6.651225 GCACTACTCTTGTAATTTGACCTTCT 59.349 38.462 0.00 0.00 0.00 2.85
43 44 4.751767 ATTTGACCTTCTTGTTTGGCAA 57.248 36.364 0.00 0.00 35.50 4.52
59 60 3.499338 TGGCAAGTTCAATCAAGATGGT 58.501 40.909 0.00 0.00 0.00 3.55
80 81 4.024893 GGTCAACATGTCTACAACAGTGTG 60.025 45.833 0.00 0.00 42.37 3.82
95 96 6.545666 ACAACAGTGTGGAATAACATTGAAGA 59.454 34.615 4.15 0.00 39.44 2.87
118 119 3.956199 CAATGGATCACCTTGGCATAGTT 59.044 43.478 0.00 0.00 37.04 2.24
167 168 8.130307 CCAATGTTGGCATTAACTTTTATAGC 57.870 34.615 0.00 0.00 42.91 2.97
168 169 7.224557 CCAATGTTGGCATTAACTTTTATAGCC 59.775 37.037 0.00 0.00 42.91 3.93
181 182 0.396556 TATAGCCACACTGCCTCCGA 60.397 55.000 0.00 0.00 0.00 4.55
185 186 2.430921 CACACTGCCTCCGACGAC 60.431 66.667 0.00 0.00 0.00 4.34
205 206 1.680338 GATGTTATGGCCCCACTCAC 58.320 55.000 0.00 0.00 0.00 3.51
234 235 4.927267 TTTGGAGAAGCCCTTCATTCTA 57.073 40.909 10.37 0.00 41.84 2.10
244 245 1.543429 CCTTCATTCTATGGGTCGGCC 60.543 57.143 0.00 0.00 0.00 6.13
245 246 0.105964 TTCATTCTATGGGTCGGCCG 59.894 55.000 22.12 22.12 34.97 6.13
249 250 2.520982 CTATGGGTCGGCCGGAGA 60.521 66.667 27.83 2.10 34.97 3.71
253 254 2.032987 GGGTCGGCCGGAGAAAAA 59.967 61.111 27.83 0.00 34.97 1.94
314 315 9.959721 AATTTAGAATACTACCACACTCATGTT 57.040 29.630 0.00 0.00 36.72 2.71
318 319 8.324163 AGAATACTACCACACTCATGTTTTTC 57.676 34.615 0.00 0.00 36.72 2.29
319 320 7.936847 AGAATACTACCACACTCATGTTTTTCA 59.063 33.333 0.00 0.00 36.72 2.69
330 332 3.189080 TCATGTTTTTCAGGTGCATCTCG 59.811 43.478 0.00 0.00 0.00 4.04
357 359 5.446031 CGGTTTCGTGAAAGATAACTACC 57.554 43.478 0.00 0.00 0.00 3.18
575 585 5.291128 CGTGTGGGTAGAGACAACAATAATC 59.709 44.000 0.00 0.00 0.00 1.75
578 588 6.049790 GTGGGTAGAGACAACAATAATCCTC 58.950 44.000 0.00 0.00 0.00 3.71
579 589 5.964477 TGGGTAGAGACAACAATAATCCTCT 59.036 40.000 0.00 0.00 35.46 3.69
580 590 6.443849 TGGGTAGAGACAACAATAATCCTCTT 59.556 38.462 0.00 0.00 33.58 2.85
581 591 6.763610 GGGTAGAGACAACAATAATCCTCTTG 59.236 42.308 0.00 0.00 33.58 3.02
603 652 1.410224 CCCCCTGATTTCAACTAGGGC 60.410 57.143 0.00 0.00 46.92 5.19
604 653 1.668419 CCCTGATTTCAACTAGGGCG 58.332 55.000 0.00 0.00 43.08 6.13
608 657 1.626321 TGATTTCAACTAGGGCGTGGA 59.374 47.619 0.00 0.00 0.00 4.02
637 686 6.542370 CCCTTTCGCTCTATCTCCAATAAAAA 59.458 38.462 0.00 0.00 0.00 1.94
676 748 1.534163 CATGGATGTAGCATTGCTCGG 59.466 52.381 15.81 0.00 40.44 4.63
952 1031 0.996762 TCCCCTCTCCTCTCCTCTCC 60.997 65.000 0.00 0.00 0.00 3.71
961 1040 2.584965 TCCTCTCCTCTCCTCAGTTCAT 59.415 50.000 0.00 0.00 0.00 2.57
970 1063 3.200165 TCTCCTCAGTTCATCTCTACGGA 59.800 47.826 0.00 0.00 0.00 4.69
984 1077 1.043116 TACGGAGTAGCAGCAGGCAT 61.043 55.000 0.00 0.00 44.76 4.40
985 1078 2.961622 TACGGAGTAGCAGCAGGCATC 61.962 57.143 0.00 0.00 44.76 3.91
998 1093 0.329596 AGGCATCAGTTTCCCCTGAC 59.670 55.000 0.00 0.00 43.86 3.51
1113 1208 0.392193 CGGCAGAGCTCAACTTCCAT 60.392 55.000 17.77 0.00 0.00 3.41
1119 1214 3.703556 CAGAGCTCAACTTCCATCTCCTA 59.296 47.826 17.77 0.00 0.00 2.94
1132 1227 3.933955 CCATCTCCTATCCTACGTAGACG 59.066 52.174 24.15 8.30 46.33 4.18
1134 1229 2.075338 CTCCTATCCTACGTAGACGCC 58.925 57.143 24.15 0.00 44.43 5.68
1137 1232 0.250038 TATCCTACGTAGACGCCGCT 60.250 55.000 24.15 0.99 44.43 5.52
1374 1472 1.077787 CATGGTAGGCGGCTTCCAA 60.078 57.895 34.93 21.25 33.55 3.53
1656 1756 6.989759 TCTTTAATTTTTCTGGGCTTCAAACC 59.010 34.615 0.00 0.00 0.00 3.27
1883 1983 2.825387 GTGATGCCAGCGATGCCA 60.825 61.111 0.00 0.00 0.00 4.92
1884 1984 2.825387 TGATGCCAGCGATGCCAC 60.825 61.111 0.00 0.00 0.00 5.01
1961 2061 2.126228 GACGTGCGGATCGTGGAA 60.126 61.111 8.98 0.00 41.64 3.53
2142 2242 5.779806 CGTCACAACGGATCTCTTAATTT 57.220 39.130 0.00 0.00 45.21 1.82
2143 2243 5.786392 CGTCACAACGGATCTCTTAATTTC 58.214 41.667 0.00 0.00 45.21 2.17
2144 2244 5.347635 CGTCACAACGGATCTCTTAATTTCA 59.652 40.000 0.00 0.00 45.21 2.69
2145 2245 6.454318 CGTCACAACGGATCTCTTAATTTCAG 60.454 42.308 0.00 0.00 45.21 3.02
2220 2325 8.385858 GCAAAAGAAGGATGATAATTTTCTTGC 58.614 33.333 4.93 0.00 37.93 4.01
2328 2436 4.116238 GGATGAGTACTAGCAGCTTGTTC 58.884 47.826 14.96 9.97 0.00 3.18
2341 2449 2.896685 AGCTTGTTCTCTAGTCACAGCT 59.103 45.455 0.00 0.00 0.00 4.24
2342 2450 4.082517 CAGCTTGTTCTCTAGTCACAGCTA 60.083 45.833 0.00 0.00 0.00 3.32
2344 2452 4.420168 CTTGTTCTCTAGTCACAGCTAGC 58.580 47.826 6.62 6.62 38.58 3.42
2345 2453 3.421844 TGTTCTCTAGTCACAGCTAGCA 58.578 45.455 18.83 0.00 38.58 3.49
2346 2454 3.441922 TGTTCTCTAGTCACAGCTAGCAG 59.558 47.826 18.83 12.15 38.58 4.24
2347 2455 2.649190 TCTCTAGTCACAGCTAGCAGG 58.351 52.381 18.83 11.24 38.58 4.85
2348 2456 1.680735 CTCTAGTCACAGCTAGCAGGG 59.319 57.143 18.83 10.85 38.58 4.45
2349 2457 0.749649 CTAGTCACAGCTAGCAGGGG 59.250 60.000 18.83 10.04 33.04 4.79
2350 2458 1.330655 TAGTCACAGCTAGCAGGGGC 61.331 60.000 18.83 12.44 41.61 5.80
2401 2509 2.196742 AGGGTTCCTGGATATCTGCA 57.803 50.000 0.00 0.00 29.57 4.41
2405 2513 3.558746 GGGTTCCTGGATATCTGCATCTG 60.559 52.174 0.00 0.00 0.00 2.90
2430 2538 4.386049 CAGTACTTCAGTAGTTCTTTGGCG 59.614 45.833 0.00 0.00 38.33 5.69
2680 2799 4.113354 GACGGTTGTAGATCTGGATGAAC 58.887 47.826 5.18 0.00 0.00 3.18
2767 2886 6.260271 GGATAGGAGCTTAATTACAACACCAC 59.740 42.308 0.00 0.00 0.00 4.16
2878 2997 1.073923 TCCTTTTGTTCCCTCAGCCTC 59.926 52.381 0.00 0.00 0.00 4.70
2885 3004 0.251341 TTCCCTCAGCCTCCAAAAGC 60.251 55.000 0.00 0.00 0.00 3.51
2935 3054 3.119096 GCTGTTTCGCCCTCGTCC 61.119 66.667 0.00 0.00 36.96 4.79
2964 3083 5.869579 TGAATTTGTTCCTAGTCTCTGCTT 58.130 37.500 0.00 0.00 0.00 3.91
3014 3133 0.323542 TTCTCCTCCCTCGGTGTCTC 60.324 60.000 0.00 0.00 0.00 3.36
3017 3136 1.977544 CCTCCCTCGGTGTCTCGTT 60.978 63.158 0.00 0.00 0.00 3.85
3018 3137 1.213013 CTCCCTCGGTGTCTCGTTG 59.787 63.158 0.00 0.00 0.00 4.10
3021 3140 1.300620 CCTCGGTGTCTCGTTGCAA 60.301 57.895 0.00 0.00 0.00 4.08
3022 3141 0.670546 CCTCGGTGTCTCGTTGCAAT 60.671 55.000 0.59 0.00 0.00 3.56
3047 3166 9.834628 ATATTATTTTGCATTATTAACGTCCGG 57.165 29.630 0.00 0.00 0.00 5.14
3048 3167 5.570234 ATTTTGCATTATTAACGTCCGGT 57.430 34.783 0.00 0.00 0.00 5.28
3050 3169 2.975266 TGCATTATTAACGTCCGGTGT 58.025 42.857 0.00 0.00 0.00 4.16
3054 3173 1.999048 TATTAACGTCCGGTGTGCAG 58.001 50.000 0.00 0.00 0.00 4.41
3068 3188 2.884639 GTGTGCAGTGGGAATGTTTAGT 59.115 45.455 0.00 0.00 0.00 2.24
3153 4648 6.592994 CACATAAGTTTCTGAGAGAATGAGCA 59.407 38.462 0.00 0.00 33.67 4.26
3169 4664 3.861840 TGAGCAGTGAGGCTATTGTTAC 58.138 45.455 0.00 0.00 45.99 2.50
3207 4704 2.986050 AGAGGAGTAAACCCCTTGACA 58.014 47.619 0.00 0.00 31.84 3.58
3218 4715 3.424703 ACCCCTTGACAAATGAGTCATG 58.575 45.455 6.34 0.00 46.90 3.07
3221 4718 5.195940 CCCCTTGACAAATGAGTCATGTAT 58.804 41.667 6.34 0.00 46.90 2.29
3284 4782 7.880160 ATGCTAAATTATACTGTGGCTTTCA 57.120 32.000 0.00 0.00 0.00 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 5.127845 TGCCAAACAAGAAGGTCAAATTACA 59.872 36.000 0.00 0.00 0.00 2.41
33 34 5.336150 TCTTGATTGAACTTGCCAAACAA 57.664 34.783 0.00 0.00 35.80 2.83
43 44 5.771666 ACATGTTGACCATCTTGATTGAACT 59.228 36.000 0.00 0.00 0.00 3.01
44 45 6.017400 ACATGTTGACCATCTTGATTGAAC 57.983 37.500 0.00 0.00 0.00 3.18
59 60 4.126437 CCACACTGTTGTAGACATGTTGA 58.874 43.478 0.00 0.00 37.69 3.18
95 96 2.537633 ATGCCAAGGTGATCCATTGT 57.462 45.000 7.49 0.00 35.89 2.71
127 128 2.295070 ACATTGGCCGTTACTTCAAACC 59.705 45.455 0.00 0.00 0.00 3.27
128 129 3.636282 ACATTGGCCGTTACTTCAAAC 57.364 42.857 0.00 0.00 0.00 2.93
167 168 3.680786 TCGTCGGAGGCAGTGTGG 61.681 66.667 0.00 0.00 0.00 4.17
168 169 2.430921 GTCGTCGGAGGCAGTGTG 60.431 66.667 0.00 0.00 0.00 3.82
169 170 4.039357 CGTCGTCGGAGGCAGTGT 62.039 66.667 0.00 0.00 0.00 3.55
181 182 1.145377 GGGGCCATAACATCGTCGT 59.855 57.895 4.39 0.00 0.00 4.34
185 186 0.180171 TGAGTGGGGCCATAACATCG 59.820 55.000 4.39 0.00 0.00 3.84
234 235 2.132089 TTTTTCTCCGGCCGACCCAT 62.132 55.000 30.73 0.00 0.00 4.00
244 245 5.438761 AAGTCAAATGGTCTTTTTCTCCG 57.561 39.130 0.00 0.00 0.00 4.63
253 254 7.530426 AGCTTATGAAAAAGTCAAATGGTCT 57.470 32.000 0.00 0.00 40.50 3.85
290 291 9.787435 AAAACATGAGTGTGGTAGTATTCTAAA 57.213 29.630 0.00 0.00 38.92 1.85
314 315 2.542020 TCACGAGATGCACCTGAAAA 57.458 45.000 0.00 0.00 0.00 2.29
318 319 1.354337 CCGTTCACGAGATGCACCTG 61.354 60.000 0.00 0.00 43.02 4.00
319 320 1.079819 CCGTTCACGAGATGCACCT 60.080 57.895 0.00 0.00 43.02 4.00
330 332 3.872560 ATCTTTCACGAAACCGTTCAC 57.127 42.857 0.00 0.00 38.35 3.18
357 359 5.588845 AGAGAGTAGAATATCCTGGATGGG 58.411 45.833 19.42 0.00 36.20 4.00
447 450 4.098654 ACGGAGAAGAGATCGAATGACATT 59.901 41.667 0.00 0.00 0.00 2.71
448 451 3.634448 ACGGAGAAGAGATCGAATGACAT 59.366 43.478 0.00 0.00 0.00 3.06
449 452 3.017442 ACGGAGAAGAGATCGAATGACA 58.983 45.455 0.00 0.00 0.00 3.58
450 453 3.314080 AGACGGAGAAGAGATCGAATGAC 59.686 47.826 0.00 0.00 0.00 3.06
587 636 2.009774 CCACGCCCTAGTTGAAATCAG 58.990 52.381 0.00 0.00 0.00 2.90
603 652 2.513897 GCGAAAGGGGGATCCACG 60.514 66.667 15.23 9.74 38.24 4.94
604 653 1.153147 GAGCGAAAGGGGGATCCAC 60.153 63.158 15.23 10.58 38.24 4.02
608 657 2.252714 GAGATAGAGCGAAAGGGGGAT 58.747 52.381 0.00 0.00 0.00 3.85
637 686 6.825610 TCCATGAAAAACTAAGTTGGCATTT 58.174 32.000 0.00 0.00 0.00 2.32
641 690 5.783111 ACATCCATGAAAAACTAAGTTGGC 58.217 37.500 0.00 0.00 0.00 4.52
650 722 5.413499 AGCAATGCTACATCCATGAAAAAC 58.587 37.500 5.69 0.00 36.99 2.43
655 727 2.486918 CGAGCAATGCTACATCCATGA 58.513 47.619 8.12 0.00 39.88 3.07
657 729 1.417517 TCCGAGCAATGCTACATCCAT 59.582 47.619 8.12 0.00 39.88 3.41
676 748 4.310288 GGCTTGGCCTTGTCTCTC 57.690 61.111 3.32 0.00 46.69 3.20
723 795 1.003355 CTTCACCGGACACTGGCAT 60.003 57.895 9.46 0.00 0.00 4.40
952 1031 4.024387 GCTACTCCGTAGAGATGAACTGAG 60.024 50.000 5.28 0.00 43.39 3.35
961 1040 1.669604 CTGCTGCTACTCCGTAGAGA 58.330 55.000 0.00 0.00 43.39 3.10
970 1063 0.617413 AACTGATGCCTGCTGCTACT 59.383 50.000 0.00 0.00 42.00 2.57
978 1071 0.329261 TCAGGGGAAACTGATGCCTG 59.671 55.000 0.00 0.00 42.26 4.85
984 1077 1.348064 ACATCGTCAGGGGAAACTGA 58.652 50.000 0.00 0.00 44.74 3.41
985 1078 3.118775 TGATACATCGTCAGGGGAAACTG 60.119 47.826 0.00 0.00 39.84 3.16
986 1079 3.104512 TGATACATCGTCAGGGGAAACT 58.895 45.455 0.00 0.00 0.00 2.66
1113 1208 2.289320 GGCGTCTACGTAGGATAGGAGA 60.289 54.545 22.01 0.00 42.22 3.71
1119 1214 1.525535 AGCGGCGTCTACGTAGGAT 60.526 57.895 22.01 1.69 42.22 3.24
1458 1556 0.608308 TCTCCTTCTTCTCGACGCCA 60.608 55.000 0.00 0.00 0.00 5.69
1628 1728 9.625747 TTTGAAGCCCAGAAAAATTAAAGAATT 57.374 25.926 0.00 0.00 36.82 2.17
1815 1915 3.612247 CTTCTCCGGCCACCACCAG 62.612 68.421 2.24 0.00 0.00 4.00
1816 1916 3.636231 CTTCTCCGGCCACCACCA 61.636 66.667 2.24 0.00 0.00 4.17
1961 2061 1.620819 AGCTTGATGTTCACCTCGTCT 59.379 47.619 0.00 0.00 0.00 4.18
2033 2133 0.034380 CGAGGTCTAGGTGGAGGTCA 60.034 60.000 0.00 0.00 0.00 4.02
2142 2242 6.974622 CGTACATGCATGATATATGTAGCTGA 59.025 38.462 32.75 0.00 37.80 4.26
2143 2243 6.753744 ACGTACATGCATGATATATGTAGCTG 59.246 38.462 32.75 9.52 37.80 4.24
2144 2244 6.867550 ACGTACATGCATGATATATGTAGCT 58.132 36.000 32.75 8.41 37.80 3.32
2145 2245 7.275560 TGAACGTACATGCATGATATATGTAGC 59.724 37.037 32.75 18.71 37.80 3.58
2220 2325 8.914328 TGCATATACACATCAACAAATGAAAG 57.086 30.769 0.00 0.00 42.54 2.62
2328 2436 1.680735 CCCTGCTAGCTGTGACTAGAG 59.319 57.143 17.23 0.90 41.92 2.43
2341 2449 0.461339 GAAACGAATCGCCCCTGCTA 60.461 55.000 1.15 0.00 34.43 3.49
2342 2450 1.745489 GAAACGAATCGCCCCTGCT 60.745 57.895 1.15 0.00 34.43 4.24
2344 2452 2.240493 ATAGAAACGAATCGCCCCTG 57.760 50.000 1.15 0.00 0.00 4.45
2345 2453 4.315803 CAATATAGAAACGAATCGCCCCT 58.684 43.478 1.15 0.00 0.00 4.79
2346 2454 3.120304 GCAATATAGAAACGAATCGCCCC 60.120 47.826 1.15 0.00 0.00 5.80
2347 2455 3.746492 AGCAATATAGAAACGAATCGCCC 59.254 43.478 1.15 0.00 0.00 6.13
2348 2456 4.992381 AGCAATATAGAAACGAATCGCC 57.008 40.909 1.15 0.00 0.00 5.54
2349 2457 5.346281 AGCTAGCAATATAGAAACGAATCGC 59.654 40.000 18.83 0.00 0.00 4.58
2350 2458 6.936222 AGCTAGCAATATAGAAACGAATCG 57.064 37.500 18.83 0.00 0.00 3.34
2401 2509 7.768807 AAGAACTACTGAAGTACTGACAGAT 57.231 36.000 26.44 17.03 37.50 2.90
2405 2513 5.405873 GCCAAAGAACTACTGAAGTACTGAC 59.594 44.000 0.00 0.00 37.50 3.51
2878 2997 5.878332 AAACCAAGTCAAAAAGCTTTTGG 57.122 34.783 24.50 21.53 40.59 3.28
2885 3004 2.607180 CGGCCAAAACCAAGTCAAAAAG 59.393 45.455 2.24 0.00 0.00 2.27
2935 3054 5.006386 AGACTAGGAACAAATTCAGGCAAG 58.994 41.667 0.00 0.00 36.46 4.01
2964 3083 3.390967 TCCAATCTTCACCACAAGTCTCA 59.609 43.478 0.00 0.00 0.00 3.27
2971 3090 2.583024 TGCATCCAATCTTCACCACA 57.417 45.000 0.00 0.00 0.00 4.17
3021 3140 9.834628 CCGGACGTTAATAATGCAAAATAATAT 57.165 29.630 0.00 0.00 0.00 1.28
3022 3141 8.838365 ACCGGACGTTAATAATGCAAAATAATA 58.162 29.630 9.46 0.00 0.00 0.98
3042 3161 2.748058 ATTCCCACTGCACACCGGAC 62.748 60.000 9.46 0.00 0.00 4.79
3044 3163 2.034066 ATTCCCACTGCACACCGG 59.966 61.111 0.00 0.00 0.00 5.28
3046 3165 1.039856 AAACATTCCCACTGCACACC 58.960 50.000 0.00 0.00 0.00 4.16
3047 3166 2.884639 ACTAAACATTCCCACTGCACAC 59.115 45.455 0.00 0.00 0.00 3.82
3048 3167 3.222173 ACTAAACATTCCCACTGCACA 57.778 42.857 0.00 0.00 0.00 4.57
3050 3169 5.172687 TGATACTAAACATTCCCACTGCA 57.827 39.130 0.00 0.00 0.00 4.41
3126 4621 7.332926 GCTCATTCTCTCAGAAACTTATGTGAA 59.667 37.037 0.00 0.00 37.82 3.18
3127 4622 6.815641 GCTCATTCTCTCAGAAACTTATGTGA 59.184 38.462 0.00 0.00 37.82 3.58
3271 4769 6.679392 GCAACTTTACTTTGAAAGCCACAGTA 60.679 38.462 4.57 0.00 39.60 2.74
3284 4782 8.842358 TTACTAGCTACATGCAACTTTACTTT 57.158 30.769 0.00 0.00 45.94 2.66


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

AutoCloner maintained by Alex Coulton.