Multiple sequence alignment - TraesCS7B01G064800

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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 TraesCS7B01G064800 chr7B 100.000 4544 0 0 1 4544 70338756 70343299 0.000000e+00 8392.0
1 TraesCS7B01G064800 chr7B 95.824 4143 134 21 416 4544 69849048 69853165 0.000000e+00 6656.0
2 TraesCS7B01G064800 chr7B 95.367 4144 152 18 416 4544 69992205 69996323 0.000000e+00 6553.0
3 TraesCS7B01G064800 chr7B 95.786 3583 114 19 416 3986 69912320 69915877 0.000000e+00 5746.0
4 TraesCS7B01G064800 chr7B 95.069 3245 141 10 1 3244 70242568 70245794 0.000000e+00 5088.0
5 TraesCS7B01G064800 chr7B 95.953 2718 89 9 416 3128 70068703 70071404 0.000000e+00 4390.0
6 TraesCS7B01G064800 chr7B 93.732 1069 54 10 3243 4306 70245955 70247015 0.000000e+00 1591.0
7 TraesCS7B01G064800 chr7B 93.527 1035 52 10 3277 4306 70071903 70072927 0.000000e+00 1526.0
8 TraesCS7B01G064800 chr7B 92.377 223 8 5 628 850 69822116 69822329 4.410000e-80 309.0
9 TraesCS7B01G064800 chr7B 92.466 146 5 3 3120 3265 70071586 70071725 2.140000e-48 204.0
10 TraesCS7B01G064800 chr6B 95.010 4148 158 23 416 4544 549028616 549032733 0.000000e+00 6468.0
11 TraesCS7B01G064800 chr6B 94.883 4143 165 22 416 4544 548948104 548952213 0.000000e+00 6433.0
12 TraesCS7B01G064800 chr7D 93.123 4159 205 38 416 4544 110890088 110894195 0.000000e+00 6021.0
13 TraesCS7B01G064800 chr7D 92.308 182 13 1 28 208 126883562 126883743 1.620000e-64 257.0
14 TraesCS7B01G064800 chr7A 91.696 2866 156 36 416 3247 116018290 116021107 0.000000e+00 3899.0
15 TraesCS7B01G064800 chr7A 94.113 1308 70 7 3241 4542 116021536 116022842 0.000000e+00 1982.0
16 TraesCS7B01G064800 chr7A 91.398 186 12 2 27 209 85435460 85435276 7.550000e-63 252.0
17 TraesCS7B01G064800 chr7A 90.058 171 15 2 32 201 701480506 701480337 2.130000e-53 220.0
18 TraesCS7B01G064800 chr2A 89.621 2399 192 28 726 3093 17299863 17302235 0.000000e+00 2998.0
19 TraesCS7B01G064800 chr2A 88.507 1340 104 20 726 2036 20365206 20366524 0.000000e+00 1576.0
20 TraesCS7B01G064800 chr2D 91.478 1948 138 19 1133 3072 15228915 15230842 0.000000e+00 2652.0
21 TraesCS7B01G064800 chr2D 93.396 212 12 2 209 420 558788072 558787863 3.410000e-81 313.0
22 TraesCS7B01G064800 chr2D 94.444 36 1 1 1 35 23548280 23548315 2.000000e-03 54.7
23 TraesCS7B01G064800 chrUn 91.427 1948 139 19 1133 3072 266171013 266169086 0.000000e+00 2647.0
24 TraesCS7B01G064800 chr2B 87.311 331 31 6 766 1093 27287296 27287618 7.180000e-98 368.0
25 TraesCS7B01G064800 chr2B 87.311 331 31 6 766 1093 27355603 27355925 7.180000e-98 368.0
26 TraesCS7B01G064800 chr1B 94.712 208 11 0 209 416 629797904 629798111 1.580000e-84 324.0
27 TraesCS7B01G064800 chr1B 93.839 211 11 2 209 418 622992538 622992329 2.640000e-82 316.0
28 TraesCS7B01G064800 chr4B 94.258 209 12 0 209 417 68661451 68661659 2.040000e-83 320.0
29 TraesCS7B01G064800 chr1A 94.258 209 12 0 209 417 49302276 49302068 2.040000e-83 320.0
30 TraesCS7B01G064800 chr1A 94.231 208 12 0 209 416 555305183 555305390 7.340000e-83 318.0
31 TraesCS7B01G064800 chr1A 94.444 180 10 0 30 209 445501201 445501380 1.250000e-70 278.0
32 TraesCS7B01G064800 chr4A 94.175 206 11 1 209 414 626298402 626298606 3.410000e-81 313.0
33 TraesCS7B01G064800 chr4A 89.944 179 15 3 29 205 4199723 4199900 1.270000e-55 228.0
34 TraesCS7B01G064800 chr1D 93.023 215 14 1 209 423 270634543 270634330 3.410000e-81 313.0
35 TraesCS7B01G064800 chr5A 95.082 183 9 0 30 212 436893949 436893767 5.750000e-74 289.0
36 TraesCS7B01G064800 chr5A 97.059 34 0 1 5 37 675295273 675295306 6.350000e-04 56.5
37 TraesCS7B01G064800 chr4D 89.944 179 16 2 32 208 55062374 55062196 3.540000e-56 230.0
38 TraesCS7B01G064800 chr5B 89.831 177 18 0 32 208 458620699 458620523 1.270000e-55 228.0
39 TraesCS7B01G064800 chr3B 94.595 37 1 1 1 36 776540381 776540417 6.350000e-04 56.5


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 TraesCS7B01G064800 chr7B 70338756 70343299 4543 False 8392.0 8392 100.0000 1 4544 1 chr7B.!!$F5 4543
1 TraesCS7B01G064800 chr7B 69849048 69853165 4117 False 6656.0 6656 95.8240 416 4544 1 chr7B.!!$F2 4128
2 TraesCS7B01G064800 chr7B 69992205 69996323 4118 False 6553.0 6553 95.3670 416 4544 1 chr7B.!!$F4 4128
3 TraesCS7B01G064800 chr7B 69912320 69915877 3557 False 5746.0 5746 95.7860 416 3986 1 chr7B.!!$F3 3570
4 TraesCS7B01G064800 chr7B 70242568 70247015 4447 False 3339.5 5088 94.4005 1 4306 2 chr7B.!!$F7 4305
5 TraesCS7B01G064800 chr7B 70068703 70072927 4224 False 2040.0 4390 93.9820 416 4306 3 chr7B.!!$F6 3890
6 TraesCS7B01G064800 chr6B 549028616 549032733 4117 False 6468.0 6468 95.0100 416 4544 1 chr6B.!!$F2 4128
7 TraesCS7B01G064800 chr6B 548948104 548952213 4109 False 6433.0 6433 94.8830 416 4544 1 chr6B.!!$F1 4128
8 TraesCS7B01G064800 chr7D 110890088 110894195 4107 False 6021.0 6021 93.1230 416 4544 1 chr7D.!!$F1 4128
9 TraesCS7B01G064800 chr7A 116018290 116022842 4552 False 2940.5 3899 92.9045 416 4542 2 chr7A.!!$F1 4126
10 TraesCS7B01G064800 chr2A 17299863 17302235 2372 False 2998.0 2998 89.6210 726 3093 1 chr2A.!!$F1 2367
11 TraesCS7B01G064800 chr2A 20365206 20366524 1318 False 1576.0 1576 88.5070 726 2036 1 chr2A.!!$F2 1310
12 TraesCS7B01G064800 chr2D 15228915 15230842 1927 False 2652.0 2652 91.4780 1133 3072 1 chr2D.!!$F1 1939
13 TraesCS7B01G064800 chrUn 266169086 266171013 1927 True 2647.0 2647 91.4270 1133 3072 1 chrUn.!!$R1 1939

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
60 61 0.249911 GCCACGTTGAGAGGAGTGTT 60.250 55.0 0.00 0.00 31.73 3.32 F
752 785 0.467290 AAATTGATACGGCCGGCCAT 60.467 50.0 42.78 33.95 35.37 4.40 F
1695 1766 0.032952 CCATCATGGTACGTACCCGG 59.967 60.0 35.71 27.80 45.87 5.73 F
2592 2676 0.107831 TCCACCGTCCTCACCAAAAG 59.892 55.0 0.00 0.00 0.00 2.27 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1516 1587 0.463295 CCGAGCATCTTCCACTGCAT 60.463 55.000 0.0 0.0 40.88 3.96 R
2573 2657 0.107831 CTTTTGGTGAGGACGGTGGA 59.892 55.000 0.0 0.0 0.00 4.02 R
3052 3144 0.934496 CTCGTTTTCGCTGACACCAA 59.066 50.000 0.0 0.0 43.73 3.67 R
4385 5446 1.959282 ACGATCTTATCCCACCCGTAC 59.041 52.381 0.0 0.0 0.00 3.67 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 2.261671 GGCGCTTCGGAGTCTTGA 59.738 61.111 7.64 0.00 0.00 3.02
60 61 0.249911 GCCACGTTGAGAGGAGTGTT 60.250 55.000 0.00 0.00 31.73 3.32
163 164 6.942532 AAACACTTGTACTTGACATCACAT 57.057 33.333 0.00 0.00 38.07 3.21
238 239 4.547367 GGAAGATCCCGGTGGGCG 62.547 72.222 0.00 0.00 43.94 6.13
259 260 2.998667 CGATCGCGTGGCTTCTTC 59.001 61.111 5.77 0.00 0.00 2.87
273 274 4.082787 TGGCTTCTTCGATTTTGTTGATCC 60.083 41.667 0.00 0.00 0.00 3.36
274 275 4.082787 GGCTTCTTCGATTTTGTTGATCCA 60.083 41.667 0.00 0.00 0.00 3.41
277 278 3.435327 TCTTCGATTTTGTTGATCCACCG 59.565 43.478 0.00 0.00 0.00 4.94
283 284 2.333688 TTGTTGATCCACCGTTGTCA 57.666 45.000 0.00 0.00 0.00 3.58
293 294 2.384382 CACCGTTGTCAGCATTTGTTC 58.616 47.619 0.00 0.00 0.00 3.18
312 313 4.576463 TGTTCCTTTTGCTCTTTCTCTGTC 59.424 41.667 0.00 0.00 0.00 3.51
324 325 4.574828 TCTTTCTCTGTCGTTTCTTTTGGG 59.425 41.667 0.00 0.00 0.00 4.12
341 342 1.432270 GGGCGTATCTGTGCTGCTTC 61.432 60.000 0.00 0.00 0.00 3.86
343 344 1.756375 GCGTATCTGTGCTGCTTCCG 61.756 60.000 0.00 0.00 0.00 4.30
359 360 3.164269 CGCCCCAGCACCTATCCT 61.164 66.667 0.00 0.00 39.83 3.24
483 495 3.386078 TGGATGAAGAGAGTAGGCATGAC 59.614 47.826 0.00 0.00 0.00 3.06
495 507 1.203038 AGGCATGACCATGGACAAACA 60.203 47.619 21.47 10.39 43.14 2.83
498 510 2.035704 GCATGACCATGGACAAACACAA 59.964 45.455 21.47 0.00 39.16 3.33
632 665 2.679349 GCAGGAGAGGAGGACATTGTTC 60.679 54.545 0.00 0.00 0.00 3.18
698 731 3.015327 GTTACGTGGAAGAGGAGCTAGA 58.985 50.000 0.00 0.00 0.00 2.43
752 785 0.467290 AAATTGATACGGCCGGCCAT 60.467 50.000 42.78 33.95 35.37 4.40
753 786 0.467290 AATTGATACGGCCGGCCATT 60.467 50.000 42.78 31.22 35.37 3.16
754 787 1.172180 ATTGATACGGCCGGCCATTG 61.172 55.000 42.78 29.63 35.37 2.82
755 788 2.203153 GATACGGCCGGCCATTGT 60.203 61.111 42.78 33.33 35.37 2.71
756 789 1.070105 GATACGGCCGGCCATTGTA 59.930 57.895 42.78 34.26 35.37 2.41
776 809 4.382320 GTACGGGAGCACGGCCAA 62.382 66.667 2.24 0.00 38.39 4.52
814 847 2.553028 GGTCTGCACCCAAATCAGAAGA 60.553 50.000 0.00 0.00 38.42 2.87
868 903 1.208165 ATCTTGGGGAAGGCGAAGGT 61.208 55.000 0.00 0.00 0.00 3.50
890 932 6.021672 GGTGTACCCCCTACTATATAAGCTT 58.978 44.000 3.48 3.48 0.00 3.74
996 1038 2.030451 CGATCGATCCATCTTGCTGAGA 60.030 50.000 19.51 0.00 39.13 3.27
1014 1056 1.134098 AGAATCATGGTTTCCGCCGAT 60.134 47.619 0.00 0.00 0.00 4.18
1174 1240 3.138304 TCATTTTCTGCTTGTGCGTACT 58.862 40.909 4.97 0.00 43.34 2.73
1344 1410 2.106938 GCATCGGCCTCGTCATCA 59.893 61.111 0.00 0.00 37.69 3.07
1350 1416 2.268920 GCCTCGTCATCAAGGGCA 59.731 61.111 0.00 0.00 42.08 5.36
1432 1498 1.457643 CTAGTGCCCCCTCATCCGA 60.458 63.158 0.00 0.00 0.00 4.55
1439 1505 0.481567 CCCCCTCATCCGACCTACTA 59.518 60.000 0.00 0.00 0.00 1.82
1443 1509 3.500654 CCCCTCATCCGACCTACTATCTT 60.501 52.174 0.00 0.00 0.00 2.40
1516 1587 3.296836 ATGCGCCTGTGCTTTGCA 61.297 55.556 4.18 0.00 36.13 4.08
1670 1741 0.398522 TCCATCATGTACGCCTCCCT 60.399 55.000 0.00 0.00 0.00 4.20
1694 1765 3.580904 CCATCATGGTACGTACCCG 57.419 57.895 35.71 27.51 45.87 5.28
1695 1766 0.032952 CCATCATGGTACGTACCCGG 59.967 60.000 35.71 27.80 45.87 5.73
1696 1767 0.748450 CATCATGGTACGTACCCGGT 59.252 55.000 35.71 23.25 45.87 5.28
1697 1768 1.955778 CATCATGGTACGTACCCGGTA 59.044 52.381 35.71 21.32 45.87 4.02
1698 1769 1.388547 TCATGGTACGTACCCGGTAC 58.611 55.000 35.71 16.71 45.87 3.34
1741 1812 4.178540 GTCGACCCGTGATCTTTGATAAA 58.821 43.478 3.51 0.00 0.00 1.40
1979 2056 4.232221 TGTTTTAACGTTCGTGCCAAAAA 58.768 34.783 2.82 1.06 0.00 1.94
2334 2413 4.530857 GCTGGACGGGCTATGCGT 62.531 66.667 0.00 0.00 0.00 5.24
2342 2421 2.610374 GACGGGCTATGCGTTAATCAAA 59.390 45.455 0.00 0.00 0.00 2.69
2382 2465 6.481976 CACGGTATGTACATACACATTGGATT 59.518 38.462 35.27 13.74 44.09 3.01
2429 2513 7.391554 CCAGACTTACAATCAAGAATTCCTCAA 59.608 37.037 0.65 0.00 0.00 3.02
2485 2569 1.721664 CTGTGCAGATCCCCAATGCG 61.722 60.000 0.00 0.00 42.92 4.73
2509 2593 2.741878 CGGTACAATCTTCGGCCTCATT 60.742 50.000 0.00 0.00 0.00 2.57
2513 2597 2.026822 ACAATCTTCGGCCTCATTCAGT 60.027 45.455 0.00 0.00 0.00 3.41
2524 2608 4.141620 GGCCTCATTCAGTTGATCCTCTAA 60.142 45.833 0.00 0.00 0.00 2.10
2538 2622 7.403837 TGATCCTCTAAGGGTACTACTACAT 57.596 40.000 0.00 0.00 35.59 2.29
2573 2657 2.949447 AGGGCAAGAATGTTGAACTGT 58.051 42.857 0.00 0.00 0.00 3.55
2592 2676 0.107831 TCCACCGTCCTCACCAAAAG 59.892 55.000 0.00 0.00 0.00 2.27
2595 2679 0.110486 ACCGTCCTCACCAAAAGCAT 59.890 50.000 0.00 0.00 0.00 3.79
2629 2713 1.830279 ACGTCTCCGTCACCATAGAA 58.170 50.000 0.00 0.00 46.28 2.10
2684 2768 8.713737 AAGATTTTGAGTAGTTAATACCGGAC 57.286 34.615 9.46 0.00 34.67 4.79
2708 2793 5.639506 CGATACTTCAACAGGTCTGATGTTT 59.360 40.000 4.84 0.00 38.80 2.83
2825 2914 9.702726 GCAAGTGTATATATAAATACCAATGCG 57.297 33.333 0.00 0.00 32.36 4.73
2899 2991 5.284864 TCAATCTGCTCTTACGTGATGATC 58.715 41.667 0.00 0.00 0.00 2.92
2983 3075 7.230914 CACGATGTGTTTGTATTATGTTTCGA 58.769 34.615 0.00 0.00 0.00 3.71
2998 3090 2.457366 TTCGAGCAAGGTCCTCTTTC 57.543 50.000 0.00 0.00 32.41 2.62
2999 3091 1.633774 TCGAGCAAGGTCCTCTTTCT 58.366 50.000 0.00 0.00 31.75 2.52
3004 3096 4.555511 CGAGCAAGGTCCTCTTTCTTTTTG 60.556 45.833 0.00 0.00 29.28 2.44
3052 3144 5.769662 TCTTATTGGTGATGCAACTTGAACT 59.230 36.000 0.00 0.00 0.00 3.01
3094 3188 7.549147 AGACACAGACTTAACCTAATTACCA 57.451 36.000 0.00 0.00 0.00 3.25
3124 3408 0.998145 ATGGCTCCTGCTCTTTTCCT 59.002 50.000 0.00 0.00 39.59 3.36
3183 3469 0.108186 TGCAGGGAAGTATGACGCTG 60.108 55.000 0.00 0.00 45.45 5.18
3191 3477 0.452184 AGTATGACGCTGTGAGTCCG 59.548 55.000 0.00 0.00 37.80 4.79
3268 4156 3.989705 TCATTAGTGTGTTTGATCGCG 57.010 42.857 0.00 0.00 0.00 5.87
3393 4445 3.916989 AGTAAGAACCCAGACCTTTCCAT 59.083 43.478 0.00 0.00 0.00 3.41
3431 4483 7.713764 AATAAAATCCAACTTGAAGCAACAC 57.286 32.000 0.00 0.00 0.00 3.32
3447 4499 2.912025 ACCCAAACAAGCAGCCCG 60.912 61.111 0.00 0.00 0.00 6.13
3485 4537 0.321919 ACGCTAGACCACAGACCGTA 60.322 55.000 0.00 0.00 0.00 4.02
3972 5032 9.151471 GCTTTGTGATCACATTACTAGTTTAGA 57.849 33.333 28.32 6.65 41.52 2.10
4095 5156 6.767456 TGTCAATTGTTCAATATTTTGGGCT 58.233 32.000 5.13 0.00 33.44 5.19
4113 5174 4.291249 TGGGCTAGATTTTGGTTTCTACCT 59.709 41.667 0.00 0.00 45.27 3.08
4119 5180 3.876309 TTTTGGTTTCTACCTGAGGCT 57.124 42.857 0.00 0.00 45.27 4.58
4414 5475 2.704065 GGGATAAGATCGTGGGGAAGAA 59.296 50.000 0.00 0.00 0.00 2.52
4489 5554 3.943671 TGGAAAAGACTGAGGGAAACA 57.056 42.857 0.00 0.00 0.00 2.83
4522 5587 9.986833 TCGACATAAACACATGAAATATTTCTG 57.013 29.630 24.77 21.11 38.02 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
163 164 8.724229 CAGAAGTCTGTGATGTCATTTCAAATA 58.276 33.333 0.00 0.00 39.09 1.40
259 260 3.233578 CAACGGTGGATCAACAAAATCG 58.766 45.455 1.86 0.00 0.00 3.34
273 274 2.384382 GAACAAATGCTGACAACGGTG 58.616 47.619 0.00 0.00 0.00 4.94
274 275 1.336755 GGAACAAATGCTGACAACGGT 59.663 47.619 0.00 0.00 0.00 4.83
277 278 4.260334 GCAAAAGGAACAAATGCTGACAAC 60.260 41.667 0.00 0.00 34.29 3.32
293 294 3.134458 ACGACAGAGAAAGAGCAAAAGG 58.866 45.455 0.00 0.00 0.00 3.11
312 313 2.482721 ACAGATACGCCCAAAAGAAACG 59.517 45.455 0.00 0.00 0.00 3.60
324 325 1.756375 CGGAAGCAGCACAGATACGC 61.756 60.000 0.00 0.00 0.00 4.42
341 342 4.256180 GGATAGGTGCTGGGGCGG 62.256 72.222 0.00 0.00 42.25 6.13
343 344 1.152881 CAAGGATAGGTGCTGGGGC 60.153 63.158 0.00 0.00 39.26 5.80
359 360 1.529226 CAACCAACCGAGCCATACAA 58.471 50.000 0.00 0.00 0.00 2.41
399 400 2.854963 ACCTTACCGAACAAGGGTTTC 58.145 47.619 12.42 0.00 45.81 2.78
483 495 3.904571 CACTCATTGTGTTTGTCCATGG 58.095 45.455 4.97 4.97 41.53 3.66
495 507 2.592102 ATGGGTTGAGCACTCATTGT 57.408 45.000 0.31 0.00 45.24 2.71
632 665 1.705337 CCGACAGCCCTACGCAAATG 61.705 60.000 0.00 0.00 41.38 2.32
698 731 1.379044 CCAAAGGATCGCCCAGCTT 60.379 57.895 0.00 0.00 37.41 3.74
752 785 1.404449 CCGTGCTCCCGTACAATACAA 60.404 52.381 0.00 0.00 0.00 2.41
753 786 0.173935 CCGTGCTCCCGTACAATACA 59.826 55.000 0.00 0.00 0.00 2.29
754 787 1.149964 GCCGTGCTCCCGTACAATAC 61.150 60.000 0.00 0.00 0.00 1.89
755 788 1.142314 GCCGTGCTCCCGTACAATA 59.858 57.895 0.00 0.00 0.00 1.90
756 789 2.125269 GCCGTGCTCCCGTACAAT 60.125 61.111 0.00 0.00 0.00 2.71
776 809 4.442192 GCAGACCTTATCGAACTCCATCTT 60.442 45.833 0.00 0.00 0.00 2.40
814 847 4.653801 GGATATTGTTAAGGGTGGCCAAAT 59.346 41.667 7.24 3.25 0.00 2.32
850 885 1.846124 ACCTTCGCCTTCCCCAAGA 60.846 57.895 0.00 0.00 0.00 3.02
868 903 6.021030 CCAAGCTTATATAGTAGGGGGTACA 58.979 44.000 0.00 0.00 33.55 2.90
996 1038 1.024271 CATCGGCGGAAACCATGATT 58.976 50.000 7.21 0.00 0.00 2.57
1014 1056 4.634703 ACGATGTTGCGGGCCACA 62.635 61.111 4.39 0.00 35.12 4.17
1048 1090 4.135747 GGAAGAGTCCAAAGGAGATGAG 57.864 50.000 0.00 0.00 44.26 2.90
1174 1240 4.373116 GCCAGAACGTCGGCCTGA 62.373 66.667 14.98 0.00 42.82 3.86
1344 1410 3.051581 AGATGATGATGTAGGTGCCCTT 58.948 45.455 0.00 0.00 34.61 3.95
1350 1416 7.556416 AGATGATGAAGATGATGATGTAGGT 57.444 36.000 0.00 0.00 0.00 3.08
1467 1533 0.767375 GGGCATGCAGGAGGATCTTA 59.233 55.000 21.36 0.00 33.73 2.10
1516 1587 0.463295 CCGAGCATCTTCCACTGCAT 60.463 55.000 0.00 0.00 40.88 3.96
1556 1627 2.672651 CCACGGCAGCCATGAACA 60.673 61.111 9.73 0.00 0.00 3.18
1639 1710 4.180377 ACATGATGGAGCCAAAGATGAT 57.820 40.909 0.00 0.00 0.00 2.45
1647 1718 1.146041 GGCGTACATGATGGAGCCA 59.854 57.895 18.43 0.00 43.65 4.75
1695 1766 1.064240 CCATAAGTTGGGGTGGGGTAC 60.064 57.143 0.00 0.00 42.33 3.34
1696 1767 1.203583 TCCATAAGTTGGGGTGGGGTA 60.204 52.381 0.00 0.00 46.45 3.69
1697 1768 0.478789 TCCATAAGTTGGGGTGGGGT 60.479 55.000 0.00 0.00 46.45 4.95
1698 1769 0.933700 ATCCATAAGTTGGGGTGGGG 59.066 55.000 0.00 0.00 46.45 4.96
1741 1812 6.016276 CCACCTGAACTAACAAGTTAAAGCAT 60.016 38.462 0.00 0.00 31.35 3.79
1950 2027 4.373619 GCACGAACGTTAAAACATGAAAGC 60.374 41.667 0.00 0.00 0.00 3.51
2245 2324 2.564947 ACACTCTTGGTCCTGATCACTC 59.435 50.000 0.00 0.00 0.00 3.51
2334 2413 9.986833 CGTGATGTAGATGTCAAATTTGATTAA 57.013 29.630 23.05 12.77 39.73 1.40
2342 2421 6.582636 ACATACCGTGATGTAGATGTCAAAT 58.417 36.000 0.00 0.00 38.29 2.32
2394 2478 5.640147 TGATTGTAAGTCTGGATGGGTTTT 58.360 37.500 0.00 0.00 0.00 2.43
2429 2513 2.450609 ACAGTTAGATCAAACCGCGT 57.549 45.000 4.92 0.00 0.00 6.01
2485 2569 1.152383 GGCCGAAGATTGTACCGAGC 61.152 60.000 0.00 0.00 0.00 5.03
2509 2593 5.208294 AGTACCCTTAGAGGATCAACTGA 57.792 43.478 0.00 0.00 37.67 3.41
2513 2597 7.217028 TGTAGTAGTACCCTTAGAGGATCAA 57.783 40.000 5.26 0.00 37.67 2.57
2524 2608 5.254972 GGGGGTAGATATGTAGTAGTACCCT 59.745 48.000 13.69 0.99 41.58 4.34
2573 2657 0.107831 CTTTTGGTGAGGACGGTGGA 59.892 55.000 0.00 0.00 0.00 4.02
2592 2676 2.395360 TTGCCGCTGGTAACGATGC 61.395 57.895 0.00 0.00 42.51 3.91
2684 2768 4.748892 ACATCAGACCTGTTGAAGTATCG 58.251 43.478 13.28 0.00 35.07 2.92
2812 2901 3.275617 ACTCAGCCGCATTGGTATTTA 57.724 42.857 0.00 0.00 41.21 1.40
2813 2902 2.128771 ACTCAGCCGCATTGGTATTT 57.871 45.000 0.00 0.00 41.21 1.40
2825 2914 7.430760 AATATATCTCTGGGATAACTCAGCC 57.569 40.000 0.57 0.00 43.71 4.85
2899 2991 9.474920 ACACACTGTAATTAACAAATCAATTGG 57.525 29.630 5.42 0.00 43.66 3.16
2983 3075 4.098501 CACAAAAAGAAAGAGGACCTTGCT 59.901 41.667 0.00 0.00 42.69 3.91
3004 3096 2.549926 CCTTTGGGTCTTTTTGTGCAC 58.450 47.619 10.75 10.75 0.00 4.57
3015 3107 2.695147 CCAATAAGATGCCCTTTGGGTC 59.305 50.000 4.42 0.00 46.51 4.46
3052 3144 0.934496 CTCGTTTTCGCTGACACCAA 59.066 50.000 0.00 0.00 43.73 3.67
3094 3188 3.965888 GGAGCCATCCAACTGAACT 57.034 52.632 0.00 0.00 45.87 3.01
3124 3408 2.584835 ATTAACAAGGCAGCCTCACA 57.415 45.000 16.53 0.00 30.89 3.58
3167 3453 1.478510 CTCACAGCGTCATACTTCCCT 59.521 52.381 0.00 0.00 0.00 4.20
3183 3469 6.663944 AAAATATTTCTAGCACGGACTCAC 57.336 37.500 0.10 0.00 0.00 3.51
3431 4483 3.683937 CCGGGCTGCTTGTTTGGG 61.684 66.667 0.00 0.00 0.00 4.12
3447 4499 2.289565 GTGGATGTGTTTAGCTAGCCC 58.710 52.381 12.13 2.27 0.00 5.19
4074 5135 9.603921 AATCTAGCCCAAAATATTGAACAATTG 57.396 29.630 3.24 3.24 38.94 2.32
4119 5180 2.624029 GGGCCATCTCCAGAAATTTGGA 60.624 50.000 4.39 0.00 44.84 3.53
4385 5446 1.959282 ACGATCTTATCCCACCCGTAC 59.041 52.381 0.00 0.00 0.00 3.67
4467 5531 4.803452 TGTTTCCCTCAGTCTTTTCCAAT 58.197 39.130 0.00 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.