Multiple sequence alignment - TraesCS7D01G191600

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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 TraesCS7D01G191600 chr7D 100.000 4491 0 0 1 4491 146861920 146866410 0.000000e+00 8294.0
1 TraesCS7D01G191600 chr7D 89.933 149 12 3 2329 2476 589514278 589514424 5.930000e-44 189.0
2 TraesCS7D01G191600 chr7B 93.277 4581 168 71 1 4491 109701392 109705922 0.000000e+00 6625.0
3 TraesCS7D01G191600 chr7B 89.933 149 12 3 2329 2476 664108597 664108743 5.930000e-44 189.0
4 TraesCS7D01G191600 chr7B 97.917 48 1 0 2005 2052 664108178 664108225 2.880000e-12 84.2
5 TraesCS7D01G191600 chr7A 94.275 3738 125 38 253 3933 148414361 148418066 0.000000e+00 5635.0
6 TraesCS7D01G191600 chr7A 91.232 422 23 3 4030 4451 148418095 148418502 3.030000e-156 562.0
7 TraesCS7D01G191600 chr7A 95.753 259 9 1 1 257 148412391 148412649 2.500000e-112 416.0
8 TraesCS7D01G191600 chr7A 89.262 149 13 3 2329 2476 681013372 681013226 2.760000e-42 183.0
9 TraesCS7D01G191600 chr7A 100.000 43 0 0 4449 4491 148418738 148418780 3.720000e-11 80.5
10 TraesCS7D01G191600 chr7A 94.118 51 3 0 2005 2055 681013794 681013744 1.340000e-10 78.7
11 TraesCS7D01G191600 chr7A 97.561 41 1 0 1675 1715 637052827 637052787 2.240000e-08 71.3
12 TraesCS7D01G191600 chr6A 88.720 1117 100 13 995 2101 543394799 543395899 0.000000e+00 1341.0
13 TraesCS7D01G191600 chr6A 84.490 245 23 7 2243 2475 543396053 543396294 1.260000e-55 228.0
14 TraesCS7D01G191600 chr6A 89.503 181 15 4 2737 2916 543396577 543396754 4.520000e-55 226.0
15 TraesCS7D01G191600 chr6A 97.674 86 2 0 3214 3299 543396943 543397028 1.010000e-31 148.0
16 TraesCS7D01G191600 chr6D 88.403 1121 99 18 994 2101 397082337 397083439 0.000000e+00 1321.0
17 TraesCS7D01G191600 chr6D 83.209 268 30 6 2243 2496 397083590 397083856 9.720000e-57 231.0
18 TraesCS7D01G191600 chr6D 78.919 370 48 23 2569 2916 397083941 397084302 1.630000e-54 224.0
19 TraesCS7D01G191600 chr6D 98.837 86 1 0 3214 3299 397084502 397084587 2.160000e-33 154.0
20 TraesCS7D01G191600 chr6B 87.943 1128 113 16 982 2101 593711916 593713028 0.000000e+00 1308.0
21 TraesCS7D01G191600 chr6B 91.071 168 13 2 2750 2916 593713726 593713892 4.520000e-55 226.0
22 TraesCS7D01G191600 chr6B 76.591 440 71 21 2243 2661 593713179 593713607 3.520000e-51 213.0
23 TraesCS7D01G191600 chr6B 95.349 86 4 0 3214 3299 593714083 593714168 2.180000e-28 137.0
24 TraesCS7D01G191600 chr6B 97.561 41 1 0 1675 1715 142988907 142988867 2.240000e-08 71.3
25 TraesCS7D01G191600 chr4B 82.192 803 117 19 1001 1784 170927034 170927829 0.000000e+00 667.0
26 TraesCS7D01G191600 chr4D 82.067 803 118 21 1001 1784 109469594 109470389 0.000000e+00 662.0
27 TraesCS7D01G191600 chr4A 81.716 804 119 22 1001 1784 466941639 466940844 0.000000e+00 645.0
28 TraesCS7D01G191600 chr3A 79.281 584 98 19 994 1558 432040436 432041015 1.960000e-103 387.0
29 TraesCS7D01G191600 chr3A 90.984 122 11 0 2355 2476 432041807 432041928 9.990000e-37 165.0
30 TraesCS7D01G191600 chr3A 93.333 45 3 0 2005 2049 432041390 432041434 2.900000e-07 67.6
31 TraesCS7D01G191600 chr5B 97.561 41 1 0 1675 1715 447194713 447194753 2.240000e-08 71.3
32 TraesCS7D01G191600 chr1B 97.561 41 1 0 1675 1715 269297763 269297723 2.240000e-08 71.3


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 TraesCS7D01G191600 chr7D 146861920 146866410 4490 False 8294.000000 8294 100.00000 1 4491 1 chr7D.!!$F1 4490
1 TraesCS7D01G191600 chr7B 109701392 109705922 4530 False 6625.000000 6625 93.27700 1 4491 1 chr7B.!!$F1 4490
2 TraesCS7D01G191600 chr7A 148412391 148418780 6389 False 1673.375000 5635 95.31500 1 4491 4 chr7A.!!$F1 4490
3 TraesCS7D01G191600 chr6A 543394799 543397028 2229 False 485.750000 1341 90.09675 995 3299 4 chr6A.!!$F1 2304
4 TraesCS7D01G191600 chr6D 397082337 397084587 2250 False 482.500000 1321 87.34200 994 3299 4 chr6D.!!$F1 2305
5 TraesCS7D01G191600 chr6B 593711916 593714168 2252 False 471.000000 1308 87.73850 982 3299 4 chr6B.!!$F1 2317
6 TraesCS7D01G191600 chr4B 170927034 170927829 795 False 667.000000 667 82.19200 1001 1784 1 chr4B.!!$F1 783
7 TraesCS7D01G191600 chr4D 109469594 109470389 795 False 662.000000 662 82.06700 1001 1784 1 chr4D.!!$F1 783
8 TraesCS7D01G191600 chr4A 466940844 466941639 795 True 645.000000 645 81.71600 1001 1784 1 chr4A.!!$R1 783
9 TraesCS7D01G191600 chr3A 432040436 432041928 1492 False 206.533333 387 87.86600 994 2476 3 chr3A.!!$F1 1482

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
906 2641 0.027455 TGCTTCACTTGAACAACGCG 59.973 50.0 3.53 3.53 0.0 6.01 F
2166 4048 1.112113 TCGACTGTCCTAGCCATTCC 58.888 55.0 1.55 0.00 0.0 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2166 4048 0.096976 CGCACTAATGAACTTGCCGG 59.903 55.0 0.00 0.0 0.00 6.13 R
3752 5797 0.625849 ACCGGATTGATCCTTTGCCT 59.374 50.0 9.46 0.0 44.93 4.75 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
307 2027 1.580059 TGGGGTTGGGTCTCATAGTC 58.420 55.000 0.00 0.00 0.00 2.59
382 2109 1.135402 CACATCTCATGTCACCGTCGA 60.135 52.381 0.00 0.00 42.70 4.20
411 2138 0.874607 CGGCCATAGCTACAACGACC 60.875 60.000 2.24 0.00 39.73 4.79
424 2151 2.999063 CGACCCCCTTACACCGGT 60.999 66.667 0.00 0.00 0.00 5.28
459 2186 1.134670 GTGGCTCCGAGCTAAACTCAT 60.135 52.381 19.68 0.00 46.63 2.90
461 2188 1.137086 GGCTCCGAGCTAAACTCATGA 59.863 52.381 19.68 0.00 46.63 3.07
462 2189 2.197577 GCTCCGAGCTAAACTCATGAC 58.802 52.381 13.42 0.00 46.63 3.06
465 2192 1.629013 CGAGCTAAACTCATGACGCA 58.371 50.000 0.00 0.00 46.63 5.24
479 2206 1.503818 GACGCACCATCGGTTTGTGT 61.504 55.000 0.00 0.00 31.02 3.72
487 2214 0.248289 ATCGGTTTGTGTAGGTCGGG 59.752 55.000 0.00 0.00 0.00 5.14
508 2235 2.438392 GGACATCGACTAATCCCCCTTT 59.562 50.000 0.00 0.00 0.00 3.11
514 2241 2.706190 CGACTAATCCCCCTTTGATCCT 59.294 50.000 0.00 0.00 0.00 3.24
610 2338 9.457110 TTGTACTGCATTACACAATTTTAGTTG 57.543 29.630 15.74 0.00 31.53 3.16
611 2339 8.625651 TGTACTGCATTACACAATTTTAGTTGT 58.374 29.630 12.47 0.00 42.75 3.32
677 2406 5.043432 TGGTATTTCCTCAATCCCCATTTCT 60.043 40.000 0.00 0.00 37.07 2.52
878 2609 1.225855 CCGCGCCATAAATCAAGCTA 58.774 50.000 0.00 0.00 0.00 3.32
879 2610 1.195448 CCGCGCCATAAATCAAGCTAG 59.805 52.381 0.00 0.00 0.00 3.42
880 2611 1.398960 CGCGCCATAAATCAAGCTAGC 60.399 52.381 6.62 6.62 0.00 3.42
881 2612 1.068954 GCGCCATAAATCAAGCTAGCC 60.069 52.381 12.13 0.00 0.00 3.93
906 2641 0.027455 TGCTTCACTTGAACAACGCG 59.973 50.000 3.53 3.53 0.00 6.01
2166 4048 1.112113 TCGACTGTCCTAGCCATTCC 58.888 55.000 1.55 0.00 0.00 3.01
2187 4069 1.201921 CGGCAAGTTCATTAGTGCGTC 60.202 52.381 0.00 0.00 37.89 5.19
2209 4091 5.294552 GTCCGCTAATTAATCTGCTCTGTTT 59.705 40.000 9.82 0.00 0.00 2.83
2219 4101 5.948992 ATCTGCTCTGTTTTTGGTAACTC 57.051 39.130 0.00 0.00 37.61 3.01
2483 4444 1.134367 TCTGCTTCCGGTAATCACTCG 59.866 52.381 0.00 0.00 0.00 4.18
2501 4463 2.673523 CTGCTCCCTCCCCAAGTG 59.326 66.667 0.00 0.00 0.00 3.16
2502 4464 3.635268 CTGCTCCCTCCCCAAGTGC 62.635 68.421 0.00 0.00 0.00 4.40
2533 4510 2.766828 AGGTTAGCTAAAGCATCCGTCT 59.233 45.455 7.99 0.00 45.16 4.18
2556 4534 4.259356 GTTCCGAGCAGTTAATTAACCCT 58.741 43.478 21.92 18.28 36.88 4.34
2585 4563 1.238439 CATGCAGGTGGAACTTCGTT 58.762 50.000 0.00 0.00 36.74 3.85
2686 4664 2.086251 CTCCTCTGCTCCTCCGCATC 62.086 65.000 0.00 0.00 39.52 3.91
2709 4687 7.025485 TCTTCATGCATGCATTTTATTCGTA 57.975 32.000 30.32 10.30 33.90 3.43
2710 4688 6.912051 TCTTCATGCATGCATTTTATTCGTAC 59.088 34.615 30.32 0.00 33.90 3.67
2715 4720 4.666176 GCATGCATTTTATTCGTACGAGTG 59.334 41.667 21.92 13.72 0.00 3.51
2719 4724 4.574759 CATTTTATTCGTACGAGTGGTGC 58.425 43.478 21.92 0.00 0.00 5.01
2923 4944 1.174078 TCGTGCAGGTACGACCAGAA 61.174 55.000 8.51 0.00 46.94 3.02
2974 4995 2.094700 CCGAGCACACACAGTACTACAT 60.095 50.000 0.00 0.00 0.00 2.29
3000 5021 1.595489 GCTTGCACACTGACAAGAACG 60.595 52.381 16.07 0.00 44.89 3.95
3074 5095 2.253154 CGCCGATACGACGCCATA 59.747 61.111 0.00 0.00 34.06 2.74
3205 5227 3.242936 TGTTTAAGCTGCTGGTTCGTTTC 60.243 43.478 11.52 1.36 35.36 2.78
3210 5232 1.600413 GCTGCTGGTTCGTTTCCTTTG 60.600 52.381 0.00 0.00 0.00 2.77
3311 5333 2.040544 GTAAGTGCATGCGGCCAGT 61.041 57.895 14.09 0.00 43.89 4.00
3418 5449 3.777925 CCGCCGTTCTCTTGTGCG 61.778 66.667 0.00 0.00 44.47 5.34
3615 5647 2.182842 GGGGACATGATGCGTGCTC 61.183 63.158 0.00 0.00 0.00 4.26
3635 5674 0.820891 CTGCATGCGGGAGGCTAATT 60.821 55.000 19.33 0.00 44.05 1.40
3636 5675 0.472044 TGCATGCGGGAGGCTAATTA 59.528 50.000 14.09 0.00 44.05 1.40
3637 5676 0.875059 GCATGCGGGAGGCTAATTAC 59.125 55.000 0.00 0.00 44.05 1.89
3737 5776 7.639113 TGGTAAATTATAAAGGACTGCCAAG 57.361 36.000 0.00 0.00 36.29 3.61
3743 5782 7.814264 ATTATAAAGGACTGCCAAGATCAAG 57.186 36.000 0.00 0.00 36.29 3.02
3746 5791 0.329596 GGACTGCCAAGATCAAGGGT 59.670 55.000 0.00 0.00 0.00 4.34
3747 5792 1.272147 GGACTGCCAAGATCAAGGGTT 60.272 52.381 0.00 0.00 0.00 4.11
3748 5793 1.815003 GACTGCCAAGATCAAGGGTTG 59.185 52.381 0.00 0.00 0.00 3.77
3749 5794 1.180029 CTGCCAAGATCAAGGGTTGG 58.820 55.000 6.36 6.36 43.19 3.77
3750 5795 0.251742 TGCCAAGATCAAGGGTTGGG 60.252 55.000 11.46 0.00 41.03 4.12
3751 5796 0.972471 GCCAAGATCAAGGGTTGGGG 60.972 60.000 11.46 0.00 41.03 4.96
3752 5797 0.704076 CCAAGATCAAGGGTTGGGGA 59.296 55.000 0.00 0.00 37.64 4.81
3753 5798 1.341383 CCAAGATCAAGGGTTGGGGAG 60.341 57.143 0.00 0.00 37.64 4.30
3754 5799 1.002857 AAGATCAAGGGTTGGGGAGG 58.997 55.000 0.00 0.00 0.00 4.30
3755 5800 1.076705 GATCAAGGGTTGGGGAGGC 60.077 63.158 0.00 0.00 0.00 4.70
3756 5801 1.856873 ATCAAGGGTTGGGGAGGCA 60.857 57.895 0.00 0.00 0.00 4.75
3757 5802 1.442886 ATCAAGGGTTGGGGAGGCAA 61.443 55.000 0.00 0.00 0.00 4.52
3935 5998 9.627395 CCTTATTACTACTCCATCAATCTAACG 57.373 37.037 0.00 0.00 0.00 3.18
3936 5999 9.130312 CTTATTACTACTCCATCAATCTAACGC 57.870 37.037 0.00 0.00 0.00 4.84
3938 6001 5.189659 ACTACTCCATCAATCTAACGCTC 57.810 43.478 0.00 0.00 0.00 5.03
3939 6002 4.890581 ACTACTCCATCAATCTAACGCTCT 59.109 41.667 0.00 0.00 0.00 4.09
3940 6003 4.744795 ACTCCATCAATCTAACGCTCTT 57.255 40.909 0.00 0.00 0.00 2.85
3941 6004 5.854010 ACTCCATCAATCTAACGCTCTTA 57.146 39.130 0.00 0.00 0.00 2.10
3943 6006 7.526142 ACTCCATCAATCTAACGCTCTTATA 57.474 36.000 0.00 0.00 0.00 0.98
3945 6008 8.589338 ACTCCATCAATCTAACGCTCTTATATT 58.411 33.333 0.00 0.00 0.00 1.28
3947 6010 9.856488 TCCATCAATCTAACGCTCTTATATTAC 57.144 33.333 0.00 0.00 0.00 1.89
3956 6031 6.579491 ACGCTCTTATATTACGGTTGTTTC 57.421 37.500 0.00 0.00 0.00 2.78
3978 6053 1.736032 GCGTCTAGTCGTGCCTTCAAT 60.736 52.381 10.95 0.00 0.00 2.57
4008 6083 1.347062 TTTCCCTTGTGAATTGGGGC 58.653 50.000 0.00 0.00 41.22 5.80
4016 6091 3.448093 TGTGAATTGGGGCTGTAATGA 57.552 42.857 0.00 0.00 0.00 2.57
4020 6095 5.954752 TGTGAATTGGGGCTGTAATGATTTA 59.045 36.000 0.00 0.00 0.00 1.40
4033 6108 9.282247 GCTGTAATGATTTATGAACACTTCTTG 57.718 33.333 0.00 0.00 0.00 3.02
4042 6117 8.603242 TTTATGAACACTTCTTGTAGGAGAAC 57.397 34.615 0.00 0.00 37.51 3.01
4120 6197 1.510492 TTGATGATGCCCCTAGCTCA 58.490 50.000 0.00 0.00 44.23 4.26
4123 6200 1.275856 GATGATGCCCCTAGCTCAGAG 59.724 57.143 0.00 0.00 44.23 3.35
4124 6201 0.262876 TGATGCCCCTAGCTCAGAGA 59.737 55.000 0.00 0.00 44.23 3.10
4156 6233 1.662876 CCAAAGGTTCACGCATCAACG 60.663 52.381 0.00 0.00 39.50 4.10
4166 6243 2.094258 CACGCATCAACGTCTTGCTAAT 59.906 45.455 13.30 0.03 46.34 1.73
4171 6248 4.780324 GCATCAACGTCTTGCTAATCGAAG 60.780 45.833 9.34 0.00 33.61 3.79
4226 6303 9.331282 GTCTCTAAGCATAATTTGGACTTACAT 57.669 33.333 0.00 0.00 0.00 2.29
4292 6369 3.071479 TCTCGAGCCGCTTAAATGTTTT 58.929 40.909 7.81 0.00 0.00 2.43
4376 6453 7.502226 ACTTCTTGAATGTTTGTCTAATGTGGA 59.498 33.333 0.00 0.00 0.00 4.02
4382 6459 3.810941 TGTTTGTCTAATGTGGACGTTCC 59.189 43.478 0.00 0.00 36.58 3.62
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
86 89 7.256225 GGGTGAGGTTGGGTATACTTATTCTAG 60.256 44.444 2.25 0.00 0.00 2.43
88 91 5.368816 GGGTGAGGTTGGGTATACTTATTCT 59.631 44.000 2.25 0.00 0.00 2.40
188 192 0.179026 TCGACGACTCTCCCCCATAG 60.179 60.000 0.00 0.00 0.00 2.23
307 2027 2.107366 GGAGAAGGAGGAGAAGGACAG 58.893 57.143 0.00 0.00 0.00 3.51
382 2109 0.679960 GCTATGGCCGGGAAGTTGTT 60.680 55.000 2.18 0.00 0.00 2.83
411 2138 2.263540 CGTCACCGGTGTAAGGGG 59.736 66.667 32.74 13.46 0.00 4.79
424 2151 2.261361 CACATCCGCTCCACGTCA 59.739 61.111 0.00 0.00 41.42 4.35
459 2186 1.227704 ACAAACCGATGGTGCGTCA 60.228 52.632 0.00 0.00 35.34 4.35
461 2188 0.249953 TACACAAACCGATGGTGCGT 60.250 50.000 0.00 0.00 35.34 5.24
462 2189 0.442310 CTACACAAACCGATGGTGCG 59.558 55.000 0.00 0.00 35.34 5.34
465 2192 1.337447 CGACCTACACAAACCGATGGT 60.337 52.381 0.00 0.00 37.65 3.55
487 2214 1.718280 AGGGGGATTAGTCGATGTCC 58.282 55.000 0.00 0.00 0.00 4.02
561 2289 5.502089 TTTCAGAAAAATGGGGATGCAAT 57.498 34.783 0.00 0.00 0.00 3.56
603 2331 3.555139 GCAAATTGCACTGCACAACTAAA 59.445 39.130 13.73 0.00 44.26 1.85
606 2334 1.574134 GCAAATTGCACTGCACAACT 58.426 45.000 13.73 0.00 44.26 3.16
677 2406 0.415429 AGAGAGAGAAAGGGGGAGCA 59.585 55.000 0.00 0.00 0.00 4.26
879 2610 3.360340 AAGTGAAGCAGCGCTGGC 61.360 61.111 36.47 27.47 39.62 4.85
880 2611 1.509644 TTCAAGTGAAGCAGCGCTGG 61.510 55.000 36.47 19.58 39.62 4.85
881 2612 0.385223 GTTCAAGTGAAGCAGCGCTG 60.385 55.000 32.83 32.83 39.62 5.18
1095 2849 1.519455 CTGGTCCGGCGTGAAGATC 60.519 63.158 6.01 0.00 0.00 2.75
1894 3715 2.459934 GTACTTGCTGTTGTTGTTGCC 58.540 47.619 0.00 0.00 0.00 4.52
1895 3716 2.108700 CGTACTTGCTGTTGTTGTTGC 58.891 47.619 0.00 0.00 0.00 4.17
1963 3793 2.282180 GTTGGCCGCCTTCTTGGA 60.282 61.111 11.61 0.00 38.35 3.53
2166 4048 0.096976 CGCACTAATGAACTTGCCGG 59.903 55.000 0.00 0.00 0.00 6.13
2176 4058 5.405571 AGATTAATTAGCGGACGCACTAATG 59.594 40.000 19.48 0.00 44.88 1.90
2187 4069 5.741388 AAACAGAGCAGATTAATTAGCGG 57.259 39.130 7.23 4.92 0.00 5.52
2209 4091 7.575532 GCTGTGATTGATTGATGAGTTACCAAA 60.576 37.037 0.00 0.00 0.00 3.28
2219 4101 2.286008 CGTCCGCTGTGATTGATTGATG 60.286 50.000 0.00 0.00 0.00 3.07
2483 4444 3.334054 ACTTGGGGAGGGAGCAGC 61.334 66.667 0.00 0.00 0.00 5.25
2533 4510 4.004982 GGGTTAATTAACTGCTCGGAACA 58.995 43.478 23.89 0.00 36.47 3.18
2585 4563 0.607620 TCATGATGATCGCCGGCATA 59.392 50.000 28.98 14.85 0.00 3.14
2686 4664 6.129639 CGTACGAATAAAATGCATGCATGAAG 60.130 38.462 32.79 20.37 36.68 3.02
2701 4679 1.467883 CCGCACCACTCGTACGAATAA 60.468 52.381 20.00 0.00 32.65 1.40
2702 4680 0.099259 CCGCACCACTCGTACGAATA 59.901 55.000 20.00 0.00 32.65 1.75
2704 4682 2.256158 CCGCACCACTCGTACGAA 59.744 61.111 20.00 3.35 32.65 3.85
2705 4683 2.979676 ACCGCACCACTCGTACGA 60.980 61.111 18.41 18.41 32.65 3.43
2709 4687 4.969196 CAGCACCGCACCACTCGT 62.969 66.667 0.00 0.00 0.00 4.18
2710 4688 4.662961 TCAGCACCGCACCACTCG 62.663 66.667 0.00 0.00 0.00 4.18
2715 4720 1.081242 CAAATGTCAGCACCGCACC 60.081 57.895 0.00 0.00 0.00 5.01
2719 4724 0.241749 ACATGCAAATGTCAGCACCG 59.758 50.000 0.00 0.00 44.49 4.94
2923 4944 4.309950 GGTTGGTCGGGTGTCGCT 62.310 66.667 0.00 0.00 39.05 4.93
2974 4995 0.815213 GTCAGTGTGCAAGCCTGTGA 60.815 55.000 8.01 0.00 0.00 3.58
3418 5449 0.950555 TGCCGAAGATGACACTGCAC 60.951 55.000 0.00 0.00 0.00 4.57
3615 5647 2.687418 ATTAGCCTCCCGCATGCAGG 62.687 60.000 19.57 16.88 41.38 4.85
3737 5776 1.076705 GCCTCCCCAACCCTTGATC 60.077 63.158 0.00 0.00 0.00 2.92
3743 5782 2.168272 ATCCTTTGCCTCCCCAACCC 62.168 60.000 0.00 0.00 0.00 4.11
3746 5791 0.783206 TTGATCCTTTGCCTCCCCAA 59.217 50.000 0.00 0.00 0.00 4.12
3747 5792 1.009997 ATTGATCCTTTGCCTCCCCA 58.990 50.000 0.00 0.00 0.00 4.96
3748 5793 1.697284 GATTGATCCTTTGCCTCCCC 58.303 55.000 0.00 0.00 0.00 4.81
3749 5794 1.697284 GGATTGATCCTTTGCCTCCC 58.303 55.000 2.72 0.00 43.73 4.30
3750 5795 1.312815 CGGATTGATCCTTTGCCTCC 58.687 55.000 8.31 0.00 44.93 4.30
3751 5796 1.312815 CCGGATTGATCCTTTGCCTC 58.687 55.000 0.00 0.00 44.93 4.70
3752 5797 0.625849 ACCGGATTGATCCTTTGCCT 59.374 50.000 9.46 0.00 44.93 4.75
3753 5798 1.474330 AACCGGATTGATCCTTTGCC 58.526 50.000 9.46 0.00 44.93 4.52
3754 5799 2.417243 CCAAACCGGATTGATCCTTTGC 60.417 50.000 24.66 0.00 44.93 3.68
3755 5800 2.166254 CCCAAACCGGATTGATCCTTTG 59.834 50.000 24.66 13.47 44.93 2.77
3756 5801 2.456577 CCCAAACCGGATTGATCCTTT 58.543 47.619 24.66 1.11 44.93 3.11
3757 5802 1.341976 CCCCAAACCGGATTGATCCTT 60.342 52.381 24.66 0.00 44.93 3.36
3933 5996 6.101332 TGAAACAACCGTAATATAAGAGCGT 58.899 36.000 0.00 0.00 0.00 5.07
3934 5997 6.578020 TGAAACAACCGTAATATAAGAGCG 57.422 37.500 0.00 0.00 0.00 5.03
3935 5998 6.419771 GCTGAAACAACCGTAATATAAGAGC 58.580 40.000 0.00 0.00 0.00 4.09
3936 5999 6.255020 ACGCTGAAACAACCGTAATATAAGAG 59.745 38.462 0.00 0.00 31.43 2.85
3938 6001 6.255020 AGACGCTGAAACAACCGTAATATAAG 59.745 38.462 0.00 0.00 33.63 1.73
3939 6002 6.101332 AGACGCTGAAACAACCGTAATATAA 58.899 36.000 0.00 0.00 33.63 0.98
3940 6003 5.653507 AGACGCTGAAACAACCGTAATATA 58.346 37.500 0.00 0.00 33.63 0.86
3941 6004 4.501071 AGACGCTGAAACAACCGTAATAT 58.499 39.130 0.00 0.00 33.63 1.28
3943 6006 2.762745 AGACGCTGAAACAACCGTAAT 58.237 42.857 0.00 0.00 33.63 1.89
3945 6008 2.294233 ACTAGACGCTGAAACAACCGTA 59.706 45.455 0.00 0.00 33.63 4.02
3946 6009 1.068127 ACTAGACGCTGAAACAACCGT 59.932 47.619 0.00 0.00 36.53 4.83
3947 6010 1.719780 GACTAGACGCTGAAACAACCG 59.280 52.381 0.00 0.00 0.00 4.44
3956 6031 0.798771 GAAGGCACGACTAGACGCTG 60.799 60.000 14.46 12.28 36.70 5.18
4016 6091 9.220767 GTTCTCCTACAAGAAGTGTTCATAAAT 57.779 33.333 0.00 0.00 41.98 1.40
4020 6095 6.174720 TGTTCTCCTACAAGAAGTGTTCAT 57.825 37.500 0.00 0.00 41.98 2.57
4062 6139 4.520111 CCAACACATTGAGAAGGATGTTCA 59.480 41.667 0.00 0.00 38.15 3.18
4097 6174 2.026449 AGCTAGGGGCATCATCAATAGC 60.026 50.000 0.00 0.00 44.79 2.97
4110 6187 1.799933 ATTGGTCTCTGAGCTAGGGG 58.200 55.000 0.00 0.00 0.00 4.79
4111 6188 3.539604 CAAATTGGTCTCTGAGCTAGGG 58.460 50.000 0.00 0.00 0.00 3.53
4156 6233 5.051641 CGATTGGTACTTCGATTAGCAAGAC 60.052 44.000 18.51 14.82 39.57 3.01
4166 6243 3.520290 ATTGAGCGATTGGTACTTCGA 57.480 42.857 14.56 0.00 36.96 3.71
4171 6248 8.609176 TGAACTTAATTATTGAGCGATTGGTAC 58.391 33.333 0.00 0.00 0.00 3.34
4334 6411 3.108376 AGAAGTTCCATCTACACCTCCC 58.892 50.000 0.00 0.00 0.00 4.30
4382 6459 4.369182 ACAGGAATCTAATTAAGGCGTCG 58.631 43.478 0.00 0.00 0.00 5.12
4433 6510 9.455847 GCTGGATGATACATTTTTCAACTAATC 57.544 33.333 0.00 0.00 0.00 1.75


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

AutoCloner maintained by Alex Coulton.