Multiple sequence alignment - TraesCS7D01G175300

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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 TraesCS7D01G175300 chr7D 100.000 2696 0 0 1 2696 127420075 127417380 0.000000e+00 4979.0
1 TraesCS7D01G175300 chr7D 92.333 613 34 3 2097 2696 58107601 58108213 0.000000e+00 859.0
2 TraesCS7D01G175300 chr7D 79.754 568 81 24 1040 1602 24424604 24424066 5.450000e-102 381.0
3 TraesCS7D01G175300 chr7D 77.875 574 99 12 1040 1602 24501040 24500484 5.560000e-87 331.0
4 TraesCS7D01G175300 chr7D 75.562 356 60 18 1251 1600 24468944 24469278 1.670000e-32 150.0
5 TraesCS7D01G175300 chr7D 91.358 81 7 0 536 616 579143136 579143056 7.890000e-21 111.0
6 TraesCS7D01G175300 chr7D 75.781 256 41 12 1348 1600 24430562 24430325 2.840000e-20 110.0
7 TraesCS7D01G175300 chr7A 92.290 1284 69 20 823 2077 127909826 127911108 0.000000e+00 1796.0
8 TraesCS7D01G175300 chr7A 83.529 1020 118 29 981 1973 127916807 127917803 0.000000e+00 907.0
9 TraesCS7D01G175300 chr7A 79.787 564 86 16 1040 1601 24926040 24925503 4.210000e-103 385.0
10 TraesCS7D01G175300 chr7A 77.526 574 101 12 1040 1602 24959592 24959036 1.200000e-83 320.0
11 TraesCS7D01G175300 chr7A 81.778 225 41 0 2093 2317 116498119 116497895 3.540000e-44 189.0
12 TraesCS7D01G175300 chr7B 91.078 1345 76 24 787 2091 88973865 88975205 0.000000e+00 1779.0
13 TraesCS7D01G175300 chr7B 95.844 409 12 3 380 785 88973368 88973774 0.000000e+00 656.0
14 TraesCS7D01G175300 chr7B 89.302 430 21 10 790 1213 89207320 89206910 1.430000e-142 516.0
15 TraesCS7D01G175300 chr7B 90.643 342 28 3 194 535 89207918 89207581 4.090000e-123 451.0
16 TraesCS7D01G175300 chr7B 91.071 280 13 1 90 357 88970991 88971270 4.240000e-98 368.0
17 TraesCS7D01G175300 chr7B 88.971 272 27 3 2093 2363 721573711 721573442 1.550000e-87 333.0
18 TraesCS7D01G175300 chr7B 90.123 81 8 0 536 616 643340390 643340310 3.670000e-19 106.0
19 TraesCS7D01G175300 chr7B 95.000 60 3 0 528 587 89207570 89207511 7.950000e-16 95.3
20 TraesCS7D01G175300 chr5D 95.146 618 17 1 2092 2696 42225991 42225374 0.000000e+00 963.0
21 TraesCS7D01G175300 chr2D 93.193 617 29 3 2093 2696 345276014 345275398 0.000000e+00 894.0
22 TraesCS7D01G175300 chr2D 92.619 420 18 3 2290 2696 639463481 639463900 2.310000e-165 592.0
23 TraesCS7D01G175300 chr1D 93.031 617 30 3 2093 2696 71309050 71308434 0.000000e+00 889.0
24 TraesCS7D01G175300 chr1D 83.500 200 31 2 2316 2515 124069709 124069906 4.580000e-43 185.0
25 TraesCS7D01G175300 chr2A 90.016 621 45 4 2093 2696 32136419 32135799 0.000000e+00 787.0
26 TraesCS7D01G175300 chr1A 90.081 615 46 8 2091 2691 546527321 546526708 0.000000e+00 784.0
27 TraesCS7D01G175300 chr3B 88.444 225 21 4 2093 2315 599089678 599089457 1.590000e-67 267.0


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 TraesCS7D01G175300 chr7D 127417380 127420075 2695 True 4979.000000 4979 100.000000 1 2696 1 chr7D.!!$R4 2695
1 TraesCS7D01G175300 chr7D 58107601 58108213 612 False 859.000000 859 92.333000 2097 2696 1 chr7D.!!$F2 599
2 TraesCS7D01G175300 chr7D 24424066 24424604 538 True 381.000000 381 79.754000 1040 1602 1 chr7D.!!$R1 562
3 TraesCS7D01G175300 chr7D 24500484 24501040 556 True 331.000000 331 77.875000 1040 1602 1 chr7D.!!$R3 562
4 TraesCS7D01G175300 chr7A 127909826 127911108 1282 False 1796.000000 1796 92.290000 823 2077 1 chr7A.!!$F1 1254
5 TraesCS7D01G175300 chr7A 127916807 127917803 996 False 907.000000 907 83.529000 981 1973 1 chr7A.!!$F2 992
6 TraesCS7D01G175300 chr7A 24925503 24926040 537 True 385.000000 385 79.787000 1040 1601 1 chr7A.!!$R1 561
7 TraesCS7D01G175300 chr7A 24959036 24959592 556 True 320.000000 320 77.526000 1040 1602 1 chr7A.!!$R2 562
8 TraesCS7D01G175300 chr7B 88970991 88975205 4214 False 934.333333 1779 92.664333 90 2091 3 chr7B.!!$F1 2001
9 TraesCS7D01G175300 chr7B 89206910 89207918 1008 True 354.100000 516 91.648333 194 1213 3 chr7B.!!$R3 1019
10 TraesCS7D01G175300 chr5D 42225374 42225991 617 True 963.000000 963 95.146000 2092 2696 1 chr5D.!!$R1 604
11 TraesCS7D01G175300 chr2D 345275398 345276014 616 True 894.000000 894 93.193000 2093 2696 1 chr2D.!!$R1 603
12 TraesCS7D01G175300 chr1D 71308434 71309050 616 True 889.000000 889 93.031000 2093 2696 1 chr1D.!!$R1 603
13 TraesCS7D01G175300 chr2A 32135799 32136419 620 True 787.000000 787 90.016000 2093 2696 1 chr2A.!!$R1 603
14 TraesCS7D01G175300 chr1A 546526708 546527321 613 True 784.000000 784 90.081000 2091 2691 1 chr1A.!!$R1 600

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
37 38 0.108138 AAGATTCAAGTCGGAGCCGG 60.108 55.0 9.29 0.0 40.25 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1986 4325 0.098376 CGAAAGACTCGGTAGGTCGG 59.902 60.0 0.0 0.0 44.2 4.79 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
25 26 6.867519 TGGGTGAATACTAGACAAGATTCA 57.132 37.500 0.00 1.20 36.27 2.57
26 27 7.252612 TGGGTGAATACTAGACAAGATTCAA 57.747 36.000 0.00 0.00 39.37 2.69
27 28 7.331026 TGGGTGAATACTAGACAAGATTCAAG 58.669 38.462 0.00 0.00 39.37 3.02
28 29 7.038302 TGGGTGAATACTAGACAAGATTCAAGT 60.038 37.037 0.00 0.00 39.37 3.16
29 30 7.492994 GGGTGAATACTAGACAAGATTCAAGTC 59.507 40.741 0.00 1.54 39.37 3.01
30 31 7.221067 GGTGAATACTAGACAAGATTCAAGTCG 59.779 40.741 0.00 0.00 39.37 4.18
31 32 7.221067 GTGAATACTAGACAAGATTCAAGTCGG 59.779 40.741 0.00 4.14 39.37 4.79
32 33 7.122204 TGAATACTAGACAAGATTCAAGTCGGA 59.878 37.037 0.00 0.00 35.82 4.55
33 34 5.317733 ACTAGACAAGATTCAAGTCGGAG 57.682 43.478 0.00 7.12 37.36 4.63
34 35 2.966050 AGACAAGATTCAAGTCGGAGC 58.034 47.619 3.76 0.00 37.36 4.70
35 36 2.003301 GACAAGATTCAAGTCGGAGCC 58.997 52.381 0.00 0.00 0.00 4.70
36 37 1.002366 CAAGATTCAAGTCGGAGCCG 58.998 55.000 1.74 1.74 41.35 5.52
37 38 0.108138 AAGATTCAAGTCGGAGCCGG 60.108 55.000 9.29 0.00 40.25 6.13
38 39 1.218316 GATTCAAGTCGGAGCCGGT 59.782 57.895 9.29 0.00 40.25 5.28
39 40 1.079127 ATTCAAGTCGGAGCCGGTG 60.079 57.895 9.29 5.58 40.25 4.94
40 41 2.521958 ATTCAAGTCGGAGCCGGTGG 62.522 60.000 9.29 0.00 40.25 4.61
51 52 3.123674 GCCGGTGGCGATATAGAAG 57.876 57.895 1.90 0.00 39.62 2.85
52 53 1.014564 GCCGGTGGCGATATAGAAGC 61.015 60.000 1.90 0.00 39.62 3.86
53 54 0.317160 CCGGTGGCGATATAGAAGCA 59.683 55.000 0.00 0.00 0.00 3.91
54 55 1.270094 CCGGTGGCGATATAGAAGCAA 60.270 52.381 0.00 0.00 0.00 3.91
55 56 1.792949 CGGTGGCGATATAGAAGCAAC 59.207 52.381 0.00 0.00 34.24 4.17
56 57 2.801699 CGGTGGCGATATAGAAGCAACA 60.802 50.000 6.69 0.00 36.59 3.33
57 58 3.403038 GGTGGCGATATAGAAGCAACAT 58.597 45.455 6.69 0.00 36.59 2.71
58 59 3.433615 GGTGGCGATATAGAAGCAACATC 59.566 47.826 6.69 0.00 36.59 3.06
59 60 4.058124 GTGGCGATATAGAAGCAACATCA 58.942 43.478 0.00 0.00 35.06 3.07
60 61 4.058124 TGGCGATATAGAAGCAACATCAC 58.942 43.478 0.00 0.00 0.00 3.06
61 62 4.058124 GGCGATATAGAAGCAACATCACA 58.942 43.478 0.00 0.00 0.00 3.58
62 63 4.692625 GGCGATATAGAAGCAACATCACAT 59.307 41.667 0.00 0.00 0.00 3.21
63 64 5.390251 GGCGATATAGAAGCAACATCACATG 60.390 44.000 0.00 0.00 0.00 3.21
65 66 6.587651 CGATATAGAAGCAACATCACATGTG 58.412 40.000 20.18 20.18 44.07 3.21
66 67 6.347160 CGATATAGAAGCAACATCACATGTGG 60.347 42.308 25.16 12.86 44.07 4.17
67 68 3.144657 AGAAGCAACATCACATGTGGA 57.855 42.857 25.16 12.59 44.07 4.02
68 69 3.079578 AGAAGCAACATCACATGTGGAG 58.920 45.455 25.16 19.09 44.07 3.86
69 70 2.865119 AGCAACATCACATGTGGAGA 57.135 45.000 25.16 7.10 44.07 3.71
70 71 3.361281 AGCAACATCACATGTGGAGAT 57.639 42.857 25.16 9.27 44.07 2.75
71 72 3.014623 AGCAACATCACATGTGGAGATG 58.985 45.455 25.16 21.77 44.07 2.90
72 73 3.011818 GCAACATCACATGTGGAGATGA 58.988 45.455 24.89 8.70 44.07 2.92
73 74 3.064958 GCAACATCACATGTGGAGATGAG 59.935 47.826 24.89 18.64 44.07 2.90
74 75 4.510571 CAACATCACATGTGGAGATGAGA 58.489 43.478 24.89 7.39 44.07 3.27
75 76 5.123936 CAACATCACATGTGGAGATGAGAT 58.876 41.667 24.89 9.18 44.07 2.75
77 78 3.832615 TCACATGTGGAGATGAGATGG 57.167 47.619 25.16 0.00 0.00 3.51
78 79 2.436911 TCACATGTGGAGATGAGATGGG 59.563 50.000 25.16 0.00 0.00 4.00
79 80 2.436911 CACATGTGGAGATGAGATGGGA 59.563 50.000 18.51 0.00 0.00 4.37
80 81 3.072622 CACATGTGGAGATGAGATGGGAT 59.927 47.826 18.51 0.00 0.00 3.85
81 82 3.720526 ACATGTGGAGATGAGATGGGATT 59.279 43.478 0.00 0.00 0.00 3.01
82 83 4.202440 ACATGTGGAGATGAGATGGGATTC 60.202 45.833 0.00 0.00 0.00 2.52
83 84 2.366590 TGTGGAGATGAGATGGGATTCG 59.633 50.000 0.00 0.00 0.00 3.34
84 85 2.630098 GTGGAGATGAGATGGGATTCGA 59.370 50.000 0.00 0.00 0.00 3.71
85 86 2.896044 TGGAGATGAGATGGGATTCGAG 59.104 50.000 0.00 0.00 0.00 4.04
86 87 2.353605 GGAGATGAGATGGGATTCGAGC 60.354 54.545 0.00 0.00 0.00 5.03
87 88 1.622811 AGATGAGATGGGATTCGAGCC 59.377 52.381 0.00 0.00 0.00 4.70
88 89 1.345741 GATGAGATGGGATTCGAGCCA 59.654 52.381 8.43 0.00 0.00 4.75
95 96 1.379642 GGGATTCGAGCCAAAGCCAG 61.380 60.000 8.43 0.00 41.25 4.85
116 117 3.132925 GTGGCAAAGCAAACATGATGTT 58.867 40.909 4.72 4.72 43.41 2.71
155 156 0.394352 GGTGGGCTAGGATTGTGTGG 60.394 60.000 0.00 0.00 0.00 4.17
156 157 0.394352 GTGGGCTAGGATTGTGTGGG 60.394 60.000 0.00 0.00 0.00 4.61
157 158 1.227383 GGGCTAGGATTGTGTGGGG 59.773 63.158 0.00 0.00 0.00 4.96
158 159 1.571773 GGGCTAGGATTGTGTGGGGT 61.572 60.000 0.00 0.00 0.00 4.95
160 161 1.272480 GGCTAGGATTGTGTGGGGTTT 60.272 52.381 0.00 0.00 0.00 3.27
161 162 2.525368 GCTAGGATTGTGTGGGGTTTT 58.475 47.619 0.00 0.00 0.00 2.43
166 179 2.630580 GGATTGTGTGGGGTTTTAAGCA 59.369 45.455 0.00 0.00 0.00 3.91
232 245 0.474614 GATAGAGGGTTGGGGAAGGC 59.525 60.000 0.00 0.00 0.00 4.35
299 312 6.147164 TGAATCTCGTGTTGGTGTAAGAAATC 59.853 38.462 0.00 0.00 0.00 2.17
318 331 6.438425 AGAAATCTAGTTGATGGCCAATTTGT 59.562 34.615 10.96 4.17 37.08 2.83
345 358 3.444034 CGACCAAGTCTTGACAGAGGATA 59.556 47.826 14.42 0.00 0.00 2.59
350 363 5.355596 CAAGTCTTGACAGAGGATACCATC 58.644 45.833 6.76 0.00 37.17 3.51
357 370 5.989477 TGACAGAGGATACCATCGATTTTT 58.011 37.500 0.00 0.00 37.17 1.94
599 2705 1.213094 AACCGCTTCGTCTTGACACG 61.213 55.000 1.59 0.00 41.36 4.49
859 3093 6.093404 TCGCCGAGAGCAAATTATCTATAAG 58.907 40.000 0.00 0.00 44.04 1.73
944 3178 2.223852 TGCTACGTGTGCAACTCTAACA 60.224 45.455 14.19 0.00 37.51 2.41
1043 3281 2.432628 CAAGACGGCGACCAGGAC 60.433 66.667 16.62 0.00 0.00 3.85
1139 3377 2.347114 CGTGGTGGTGATGCTCCA 59.653 61.111 0.00 0.00 0.00 3.86
1563 3826 2.357517 GTCACCACCAGCGACCTG 60.358 66.667 0.00 0.00 38.85 4.00
1614 3877 4.131088 GTCGGTGGCTCGTCCTCC 62.131 72.222 7.27 7.27 43.51 4.30
1727 3996 4.396854 CGCTCCAACGGTAGTAGC 57.603 61.111 0.00 0.00 0.00 3.58
1728 3997 1.807886 CGCTCCAACGGTAGTAGCT 59.192 57.895 0.00 0.00 29.64 3.32
1729 3998 1.019673 CGCTCCAACGGTAGTAGCTA 58.980 55.000 0.00 0.00 29.64 3.32
1730 3999 1.268437 CGCTCCAACGGTAGTAGCTAC 60.268 57.143 16.43 16.43 36.33 3.58
1743 4028 0.313987 TAGCTACGTGATGCCATCCG 59.686 55.000 12.14 12.14 0.00 4.18
1794 4085 2.424246 GCCTACCGATCCATCTAGCTAC 59.576 54.545 0.00 0.00 0.00 3.58
1969 4298 2.865603 CACGACTGACGACGAGCG 60.866 66.667 0.00 0.62 45.77 5.03
2043 4382 1.078709 TTACTACACGCGACGCTAGT 58.921 50.000 15.93 19.55 31.60 2.57
2065 4405 3.623703 TGTCTTGGTACGTATGGCTAGA 58.376 45.455 0.00 0.00 0.00 2.43
2068 4408 4.818546 GTCTTGGTACGTATGGCTAGACTA 59.181 45.833 0.00 0.00 0.00 2.59
2069 4409 5.049543 GTCTTGGTACGTATGGCTAGACTAG 60.050 48.000 5.03 5.03 0.00 2.57
2085 4425 7.585286 CTAGACTAGCTATCTAAGGTACGTG 57.415 44.000 0.00 0.00 37.13 4.49
2086 4426 5.927819 AGACTAGCTATCTAAGGTACGTGT 58.072 41.667 0.00 0.00 37.13 4.49
2087 4427 7.060383 AGACTAGCTATCTAAGGTACGTGTA 57.940 40.000 0.00 0.00 37.13 2.90
2088 4428 7.153985 AGACTAGCTATCTAAGGTACGTGTAG 58.846 42.308 0.00 0.00 37.13 2.74
2089 4429 6.825610 ACTAGCTATCTAAGGTACGTGTAGT 58.174 40.000 0.00 0.00 37.13 2.73
2558 4914 8.258007 CACTTTATGTTCTCTGTGGTAGGATAA 58.742 37.037 0.00 0.00 0.00 1.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.861629 TGAATCTTGTCTAGTATTCACCCAAT 58.138 34.615 0.00 0.00 34.34 3.16
1 2 7.252612 TGAATCTTGTCTAGTATTCACCCAA 57.747 36.000 0.00 0.00 34.34 4.12
2 3 6.867519 TGAATCTTGTCTAGTATTCACCCA 57.132 37.500 0.00 0.00 34.34 4.51
3 4 7.331791 ACTTGAATCTTGTCTAGTATTCACCC 58.668 38.462 0.00 0.00 37.90 4.61
4 5 7.221067 CGACTTGAATCTTGTCTAGTATTCACC 59.779 40.741 0.00 0.00 37.90 4.02
5 6 7.221067 CCGACTTGAATCTTGTCTAGTATTCAC 59.779 40.741 0.00 0.00 37.90 3.18
6 7 7.122204 TCCGACTTGAATCTTGTCTAGTATTCA 59.878 37.037 0.00 0.00 34.38 2.57
7 8 7.481642 TCCGACTTGAATCTTGTCTAGTATTC 58.518 38.462 0.00 0.00 34.38 1.75
8 9 7.406031 TCCGACTTGAATCTTGTCTAGTATT 57.594 36.000 0.00 0.00 34.38 1.89
9 10 6.460399 GCTCCGACTTGAATCTTGTCTAGTAT 60.460 42.308 0.00 0.00 34.38 2.12
10 11 5.163642 GCTCCGACTTGAATCTTGTCTAGTA 60.164 44.000 0.00 0.00 34.38 1.82
11 12 4.381079 GCTCCGACTTGAATCTTGTCTAGT 60.381 45.833 0.00 0.00 36.49 2.57
12 13 4.109050 GCTCCGACTTGAATCTTGTCTAG 58.891 47.826 0.00 0.00 0.00 2.43
13 14 3.119101 GGCTCCGACTTGAATCTTGTCTA 60.119 47.826 0.00 0.00 0.00 2.59
14 15 2.354203 GGCTCCGACTTGAATCTTGTCT 60.354 50.000 0.00 0.00 0.00 3.41
15 16 2.003301 GGCTCCGACTTGAATCTTGTC 58.997 52.381 0.00 0.00 0.00 3.18
16 17 1.673033 CGGCTCCGACTTGAATCTTGT 60.673 52.381 1.35 0.00 42.83 3.16
17 18 1.002366 CGGCTCCGACTTGAATCTTG 58.998 55.000 1.35 0.00 42.83 3.02
18 19 0.108138 CCGGCTCCGACTTGAATCTT 60.108 55.000 10.28 0.00 42.83 2.40
19 20 1.258445 ACCGGCTCCGACTTGAATCT 61.258 55.000 10.28 0.00 42.83 2.40
20 21 1.084370 CACCGGCTCCGACTTGAATC 61.084 60.000 10.28 0.00 42.83 2.52
21 22 1.079127 CACCGGCTCCGACTTGAAT 60.079 57.895 10.28 0.00 42.83 2.57
22 23 2.342279 CACCGGCTCCGACTTGAA 59.658 61.111 10.28 0.00 42.83 2.69
23 24 3.691342 CCACCGGCTCCGACTTGA 61.691 66.667 10.28 0.00 42.83 3.02
33 34 1.014564 GCTTCTATATCGCCACCGGC 61.015 60.000 0.00 0.00 46.75 6.13
34 35 0.317160 TGCTTCTATATCGCCACCGG 59.683 55.000 0.00 0.00 34.56 5.28
35 36 1.792949 GTTGCTTCTATATCGCCACCG 59.207 52.381 0.00 0.00 0.00 4.94
36 37 2.833794 TGTTGCTTCTATATCGCCACC 58.166 47.619 0.00 0.00 0.00 4.61
37 38 4.058124 TGATGTTGCTTCTATATCGCCAC 58.942 43.478 0.00 0.00 0.00 5.01
38 39 4.058124 GTGATGTTGCTTCTATATCGCCA 58.942 43.478 0.00 0.00 0.00 5.69
39 40 4.058124 TGTGATGTTGCTTCTATATCGCC 58.942 43.478 0.00 0.00 0.00 5.54
40 41 5.178252 ACATGTGATGTTGCTTCTATATCGC 59.822 40.000 0.00 0.00 41.63 4.58
41 42 6.347160 CCACATGTGATGTTGCTTCTATATCG 60.347 42.308 27.46 0.00 42.70 2.92
42 43 6.707608 TCCACATGTGATGTTGCTTCTATATC 59.292 38.462 27.46 0.00 42.70 1.63
43 44 6.594744 TCCACATGTGATGTTGCTTCTATAT 58.405 36.000 27.46 0.00 42.70 0.86
44 45 5.988287 TCCACATGTGATGTTGCTTCTATA 58.012 37.500 27.46 0.00 42.70 1.31
45 46 4.847198 TCCACATGTGATGTTGCTTCTAT 58.153 39.130 27.46 0.00 42.70 1.98
46 47 4.020307 TCTCCACATGTGATGTTGCTTCTA 60.020 41.667 27.46 0.00 42.70 2.10
47 48 3.079578 CTCCACATGTGATGTTGCTTCT 58.920 45.455 27.46 0.00 42.70 2.85
48 49 3.076621 TCTCCACATGTGATGTTGCTTC 58.923 45.455 27.46 0.00 42.70 3.86
49 50 3.144657 TCTCCACATGTGATGTTGCTT 57.855 42.857 27.46 0.00 42.70 3.91
50 51 2.865119 TCTCCACATGTGATGTTGCT 57.135 45.000 27.46 0.00 42.70 3.91
51 52 3.011818 TCATCTCCACATGTGATGTTGC 58.988 45.455 27.46 0.00 42.70 4.17
52 53 4.510571 TCTCATCTCCACATGTGATGTTG 58.489 43.478 27.46 20.41 42.70 3.33
53 54 4.831674 TCTCATCTCCACATGTGATGTT 57.168 40.909 27.46 10.90 42.70 2.71
54 55 4.444449 CCATCTCATCTCCACATGTGATGT 60.444 45.833 27.46 7.25 45.29 3.06
55 56 4.065789 CCATCTCATCTCCACATGTGATG 58.934 47.826 27.46 20.98 45.81 3.07
56 57 3.072622 CCCATCTCATCTCCACATGTGAT 59.927 47.826 27.46 10.04 37.44 3.06
57 58 2.436911 CCCATCTCATCTCCACATGTGA 59.563 50.000 27.46 12.04 32.34 3.58
58 59 2.436911 TCCCATCTCATCTCCACATGTG 59.563 50.000 19.31 19.31 0.00 3.21
59 60 2.767972 TCCCATCTCATCTCCACATGT 58.232 47.619 0.00 0.00 0.00 3.21
60 61 4.325119 GAATCCCATCTCATCTCCACATG 58.675 47.826 0.00 0.00 0.00 3.21
61 62 3.007723 CGAATCCCATCTCATCTCCACAT 59.992 47.826 0.00 0.00 0.00 3.21
62 63 2.366590 CGAATCCCATCTCATCTCCACA 59.633 50.000 0.00 0.00 0.00 4.17
63 64 2.630098 TCGAATCCCATCTCATCTCCAC 59.370 50.000 0.00 0.00 0.00 4.02
64 65 2.896044 CTCGAATCCCATCTCATCTCCA 59.104 50.000 0.00 0.00 0.00 3.86
65 66 2.353605 GCTCGAATCCCATCTCATCTCC 60.354 54.545 0.00 0.00 0.00 3.71
66 67 2.353605 GGCTCGAATCCCATCTCATCTC 60.354 54.545 0.00 0.00 0.00 2.75
67 68 1.622811 GGCTCGAATCCCATCTCATCT 59.377 52.381 0.00 0.00 0.00 2.90
68 69 1.345741 TGGCTCGAATCCCATCTCATC 59.654 52.381 1.40 0.00 0.00 2.92
69 70 1.427809 TGGCTCGAATCCCATCTCAT 58.572 50.000 1.40 0.00 0.00 2.90
70 71 1.203237 TTGGCTCGAATCCCATCTCA 58.797 50.000 0.57 0.00 0.00 3.27
71 72 2.216898 CTTTGGCTCGAATCCCATCTC 58.783 52.381 0.57 0.00 0.00 2.75
72 73 1.748591 GCTTTGGCTCGAATCCCATCT 60.749 52.381 0.57 0.00 35.22 2.90
73 74 0.665298 GCTTTGGCTCGAATCCCATC 59.335 55.000 0.57 0.00 35.22 3.51
74 75 0.753111 GGCTTTGGCTCGAATCCCAT 60.753 55.000 0.57 0.00 38.73 4.00
75 76 1.378514 GGCTTTGGCTCGAATCCCA 60.379 57.895 1.40 0.00 38.73 4.37
76 77 1.378514 TGGCTTTGGCTCGAATCCC 60.379 57.895 1.40 0.00 38.73 3.85
77 78 0.678048 ACTGGCTTTGGCTCGAATCC 60.678 55.000 0.00 0.00 38.73 3.01
78 79 0.449388 CACTGGCTTTGGCTCGAATC 59.551 55.000 0.00 0.00 38.73 2.52
79 80 0.962356 CCACTGGCTTTGGCTCGAAT 60.962 55.000 0.00 0.00 38.73 3.34
80 81 1.600636 CCACTGGCTTTGGCTCGAA 60.601 57.895 0.00 0.00 38.73 3.71
81 82 2.032528 CCACTGGCTTTGGCTCGA 59.967 61.111 0.00 0.00 38.73 4.04
95 96 2.758009 ACATCATGTTTGCTTTGCCAC 58.242 42.857 0.00 0.00 0.00 5.01
116 117 1.199789 CCTAACTCGCATTTGCTTGCA 59.800 47.619 0.51 0.00 42.91 4.08
133 134 1.274184 ACACAATCCTAGCCCACCCTA 60.274 52.381 0.00 0.00 0.00 3.53
157 158 6.075046 CGTAAGCTCAAGGTTTTGCTTAAAAC 60.075 38.462 7.68 7.01 45.58 2.43
158 159 5.974751 CGTAAGCTCAAGGTTTTGCTTAAAA 59.025 36.000 7.68 0.00 45.58 1.52
160 161 4.577283 ACGTAAGCTCAAGGTTTTGCTTAA 59.423 37.500 7.68 0.00 45.58 1.85
161 162 4.131596 ACGTAAGCTCAAGGTTTTGCTTA 58.868 39.130 0.00 0.00 44.08 3.09
166 179 3.490249 GGCAAACGTAAGCTCAAGGTTTT 60.490 43.478 13.94 0.00 45.62 2.43
232 245 1.676014 CCAACGCTAACCCTTCCTCTG 60.676 57.143 0.00 0.00 0.00 3.35
299 312 5.639082 GGAAAACAAATTGGCCATCAACTAG 59.361 40.000 6.09 0.00 38.31 2.57
318 331 3.118555 TCTGTCAAGACTTGGTCGGAAAA 60.119 43.478 15.13 0.00 37.67 2.29
364 382 9.491675 TTGCATTTTGAAAATAATGTGAGACAT 57.508 25.926 2.42 0.00 41.31 3.06
400 2488 4.847990 TGGTATAACGGACTTCCCATTT 57.152 40.909 0.00 0.00 34.14 2.32
503 2591 3.680490 TGTCAAGGAAAATATGACGCCA 58.320 40.909 0.00 0.00 44.95 5.69
722 2860 3.859443 ACACTTCTCATGCAGCTTAGAG 58.141 45.455 0.00 0.00 0.00 2.43
785 2923 5.789643 AAGAACATCTCTAGCTGATCTCC 57.210 43.478 0.00 0.00 32.46 3.71
786 2924 9.008965 TGTATAAGAACATCTCTAGCTGATCTC 57.991 37.037 0.00 0.00 32.46 2.75
787 2925 8.932434 TGTATAAGAACATCTCTAGCTGATCT 57.068 34.615 0.00 0.00 32.46 2.75
788 2926 9.571810 CATGTATAAGAACATCTCTAGCTGATC 57.428 37.037 0.00 0.00 38.01 2.92
859 3093 3.449528 GGAACCACTTCCGGTATCTAC 57.550 52.381 0.00 0.00 38.76 2.59
895 3129 0.102481 TTAGCTAGCTACCACTGCGC 59.898 55.000 24.09 0.00 35.28 6.09
944 3178 3.368531 GCACTACTGGCTAAGCTACAGTT 60.369 47.826 15.45 0.66 42.38 3.16
1043 3281 1.153901 ACGTACAGCCATCCGAACG 60.154 57.895 0.00 0.00 36.48 3.95
1139 3377 4.400961 GCTGCAGCTTCTCGGGGT 62.401 66.667 31.33 0.00 38.21 4.95
1218 3456 1.954146 GAAGTTCAGCGCCACGACA 60.954 57.895 2.29 0.00 0.00 4.35
1563 3826 1.153628 CCAGCAGTAGTACGTGGCC 60.154 63.158 0.00 0.00 0.00 5.36
1724 3993 0.313987 CGGATGGCATCACGTAGCTA 59.686 55.000 27.39 0.00 0.00 3.32
1726 3995 0.810031 AACGGATGGCATCACGTAGC 60.810 55.000 30.33 14.19 35.94 3.58
1727 3996 0.930310 CAACGGATGGCATCACGTAG 59.070 55.000 30.33 18.57 35.94 3.51
1728 3997 1.087202 GCAACGGATGGCATCACGTA 61.087 55.000 30.33 0.00 35.94 3.57
1729 3998 2.398554 GCAACGGATGGCATCACGT 61.399 57.895 27.10 27.10 37.64 4.49
1730 3999 2.404789 GCAACGGATGGCATCACG 59.595 61.111 27.39 26.65 0.00 4.35
1753 4038 2.295349 GCATAGCTTGGTTGATCCATGG 59.705 50.000 4.97 4.97 46.60 3.66
1824 4119 5.572126 GCCTTATCAATCGATTCTACCGTAC 59.428 44.000 7.92 0.00 32.73 3.67
1826 4121 4.038763 TGCCTTATCAATCGATTCTACCGT 59.961 41.667 7.92 0.00 32.73 4.83
1827 4122 4.556233 TGCCTTATCAATCGATTCTACCG 58.444 43.478 7.92 0.00 32.73 4.02
1875 4188 0.883153 CAGGCATACAAGCAGCAACA 59.117 50.000 0.00 0.00 35.83 3.33
1904 4229 6.401153 GGAGTACGTGCTGTCTCAAATTAAAG 60.401 42.308 12.07 0.00 30.79 1.85
1986 4325 0.098376 CGAAAGACTCGGTAGGTCGG 59.902 60.000 0.00 0.00 44.20 4.79
2043 4382 4.018490 TCTAGCCATACGTACCAAGACAA 58.982 43.478 0.00 0.00 0.00 3.18
2065 4405 6.825610 ACTACACGTACCTTAGATAGCTAGT 58.174 40.000 0.00 0.00 0.00 2.57
2068 4408 7.448420 TCATACTACACGTACCTTAGATAGCT 58.552 38.462 0.00 0.00 0.00 3.32
2069 4409 7.601886 TCTCATACTACACGTACCTTAGATAGC 59.398 40.741 0.00 0.00 0.00 2.97
2070 4410 9.142515 CTCTCATACTACACGTACCTTAGATAG 57.857 40.741 0.00 0.00 0.00 2.08
2071 4411 7.601886 GCTCTCATACTACACGTACCTTAGATA 59.398 40.741 0.00 0.00 0.00 1.98
2072 4412 6.427547 GCTCTCATACTACACGTACCTTAGAT 59.572 42.308 0.00 0.00 0.00 1.98
2073 4413 5.757320 GCTCTCATACTACACGTACCTTAGA 59.243 44.000 0.00 0.00 0.00 2.10
2074 4414 5.333187 CGCTCTCATACTACACGTACCTTAG 60.333 48.000 0.00 0.00 0.00 2.18
2075 4415 4.509230 CGCTCTCATACTACACGTACCTTA 59.491 45.833 0.00 0.00 0.00 2.69
2076 4416 3.311871 CGCTCTCATACTACACGTACCTT 59.688 47.826 0.00 0.00 0.00 3.50
2077 4417 2.871022 CGCTCTCATACTACACGTACCT 59.129 50.000 0.00 0.00 0.00 3.08
2078 4418 2.032204 CCGCTCTCATACTACACGTACC 60.032 54.545 0.00 0.00 0.00 3.34
2079 4419 2.601741 GCCGCTCTCATACTACACGTAC 60.602 54.545 0.00 0.00 0.00 3.67
2080 4420 1.600957 GCCGCTCTCATACTACACGTA 59.399 52.381 0.00 0.00 0.00 3.57
2081 4421 0.381089 GCCGCTCTCATACTACACGT 59.619 55.000 0.00 0.00 0.00 4.49
2082 4422 0.657659 CGCCGCTCTCATACTACACG 60.658 60.000 0.00 0.00 0.00 4.49
2083 4423 0.661552 TCGCCGCTCTCATACTACAC 59.338 55.000 0.00 0.00 0.00 2.90
2084 4424 1.266989 CATCGCCGCTCTCATACTACA 59.733 52.381 0.00 0.00 0.00 2.74
2085 4425 1.401670 CCATCGCCGCTCTCATACTAC 60.402 57.143 0.00 0.00 0.00 2.73
2086 4426 0.881796 CCATCGCCGCTCTCATACTA 59.118 55.000 0.00 0.00 0.00 1.82
2087 4427 1.662608 CCATCGCCGCTCTCATACT 59.337 57.895 0.00 0.00 0.00 2.12
2088 4428 2.024319 GCCATCGCCGCTCTCATAC 61.024 63.158 0.00 0.00 0.00 2.39
2089 4429 2.340078 GCCATCGCCGCTCTCATA 59.660 61.111 0.00 0.00 0.00 2.15
2243 4584 1.047034 ACCGATTCTCCCCCGTTAGG 61.047 60.000 0.00 0.00 37.24 2.69
2558 4914 9.099454 GACGAGTATGAAAGTAAGGAATTGATT 57.901 33.333 0.00 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.