Multiple sequence alignment - TraesCS4B01G066900

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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 TraesCS4B01G066900 chr4B 100.000 2474 0 0 1 2474 59852917 59855390 0.000000e+00 4569.0
1 TraesCS4B01G066900 chr4A 87.968 1629 121 31 1 1607 558680670 558679095 0.000000e+00 1853.0
2 TraesCS4B01G066900 chr4A 83.495 103 10 5 205 305 558681880 558681783 3.390000e-14 89.8
3 TraesCS4B01G066900 chr2D 94.579 867 47 0 1606 2472 631902331 631901465 0.000000e+00 1341.0
4 TraesCS4B01G066900 chr2D 94.457 866 48 0 1609 2474 51187939 51187074 0.000000e+00 1334.0
5 TraesCS4B01G066900 chr2D 94.457 866 47 1 1608 2472 614328736 614329601 0.000000e+00 1332.0
6 TraesCS4B01G066900 chr2D 94.348 867 49 0 1608 2474 38186814 38187680 0.000000e+00 1330.0
7 TraesCS4B01G066900 chr7D 94.457 866 47 1 1608 2472 118576694 118575829 0.000000e+00 1332.0
8 TraesCS4B01G066900 chr7D 94.342 866 48 1 1608 2472 295300178 295299313 0.000000e+00 1327.0
9 TraesCS4B01G066900 chr3D 94.342 866 48 1 1608 2472 209459072 209459937 0.000000e+00 1327.0
10 TraesCS4B01G066900 chr6D 94.220 865 50 0 1608 2472 407220105 407219241 0.000000e+00 1321.0
11 TraesCS4B01G066900 chr6D 94.220 865 50 0 1608 2472 466258308 466259172 0.000000e+00 1321.0
12 TraesCS4B01G066900 chr4D 89.673 581 38 13 581 1152 40819106 40819673 0.000000e+00 721.0
13 TraesCS4B01G066900 chr4D 89.270 466 33 6 1144 1607 40820626 40821076 3.570000e-158 568.0
14 TraesCS4B01G066900 chr4D 83.578 341 35 17 184 514 40818688 40819017 1.440000e-77 300.0
15 TraesCS4B01G066900 chr2A 82.707 133 20 3 58 187 744324905 744324773 5.590000e-22 115.0


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 TraesCS4B01G066900 chr4B 59852917 59855390 2473 False 4569.000000 4569 100.0000 1 2474 1 chr4B.!!$F1 2473
1 TraesCS4B01G066900 chr4A 558679095 558681880 2785 True 971.400000 1853 85.7315 1 1607 2 chr4A.!!$R1 1606
2 TraesCS4B01G066900 chr2D 631901465 631902331 866 True 1341.000000 1341 94.5790 1606 2472 1 chr2D.!!$R2 866
3 TraesCS4B01G066900 chr2D 51187074 51187939 865 True 1334.000000 1334 94.4570 1609 2474 1 chr2D.!!$R1 865
4 TraesCS4B01G066900 chr2D 614328736 614329601 865 False 1332.000000 1332 94.4570 1608 2472 1 chr2D.!!$F2 864
5 TraesCS4B01G066900 chr2D 38186814 38187680 866 False 1330.000000 1330 94.3480 1608 2474 1 chr2D.!!$F1 866
6 TraesCS4B01G066900 chr7D 118575829 118576694 865 True 1332.000000 1332 94.4570 1608 2472 1 chr7D.!!$R1 864
7 TraesCS4B01G066900 chr7D 295299313 295300178 865 True 1327.000000 1327 94.3420 1608 2472 1 chr7D.!!$R2 864
8 TraesCS4B01G066900 chr3D 209459072 209459937 865 False 1327.000000 1327 94.3420 1608 2472 1 chr3D.!!$F1 864
9 TraesCS4B01G066900 chr6D 407219241 407220105 864 True 1321.000000 1321 94.2200 1608 2472 1 chr6D.!!$R1 864
10 TraesCS4B01G066900 chr6D 466258308 466259172 864 False 1321.000000 1321 94.2200 1608 2472 1 chr6D.!!$F1 864
11 TraesCS4B01G066900 chr4D 40818688 40821076 2388 False 529.666667 721 87.5070 184 1607 3 chr4D.!!$F1 1423

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
204 1418 0.764369 AGTGTTGACAGAGCTCCCCA 60.764 55.0 10.93 2.97 0.0 4.96 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1838 4113 0.113776 ACTACCCACCTCGACCTTCA 59.886 55.0 0.0 0.0 0.0 3.02 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
28 1239 9.965824 GTCTCTCATCTTCTTTCTATCCTAAAG 57.034 37.037 0.00 0.00 35.66 1.85
55 1266 2.747396 TCCTGCAAAATTCATGTGGC 57.253 45.000 0.00 0.00 0.00 5.01
71 1282 0.878416 TGGCGCATCCAAACAACTAC 59.122 50.000 10.83 0.00 43.21 2.73
88 1299 6.074398 CAACTACGTTGTACAATTCCTACG 57.926 41.667 12.26 12.47 38.56 3.51
94 1305 7.109006 ACGTTGTACAATTCCTACGTTTTAG 57.891 36.000 12.26 0.00 38.90 1.85
140 1351 5.182001 ACATGACTTGCAATTCCTACACTTC 59.818 40.000 13.60 0.00 0.00 3.01
143 1354 5.221722 TGACTTGCAATTCCTACACTTCTCT 60.222 40.000 13.60 0.00 0.00 3.10
148 1359 6.946340 TGCAATTCCTACACTTCTCTATTCA 58.054 36.000 0.00 0.00 0.00 2.57
150 1361 8.704668 TGCAATTCCTACACTTCTCTATTCATA 58.295 33.333 0.00 0.00 0.00 2.15
178 1389 5.614324 TTCCTATCATGAGTTCCGAACAT 57.386 39.130 13.69 0.74 0.00 2.71
193 1404 2.159627 CGAACATGGCCTTAGTGTTGAC 59.840 50.000 17.02 6.75 36.30 3.18
203 1417 1.267121 TAGTGTTGACAGAGCTCCCC 58.733 55.000 10.93 0.00 0.00 4.81
204 1418 0.764369 AGTGTTGACAGAGCTCCCCA 60.764 55.000 10.93 2.97 0.00 4.96
232 1446 3.646611 TTATATTTCGACGGATGCGGA 57.353 42.857 12.44 0.00 0.00 5.54
300 1516 3.981071 AGTGAGGGAAATGTCATCGAA 57.019 42.857 0.00 0.00 0.00 3.71
324 1540 5.766670 ACAAACATGGCATATGAGTATGAGG 59.233 40.000 6.97 5.38 40.12 3.86
333 1549 6.351626 GGCATATGAGTATGAGGACATCATCA 60.352 42.308 5.76 0.00 46.01 3.07
362 1578 8.735315 CGTGAGTTCTCTAATATATGATGGACT 58.265 37.037 1.53 0.00 0.00 3.85
433 1652 5.979288 ATATACGTTAGGTGATCCAGGTC 57.021 43.478 0.00 0.00 35.89 3.85
445 1664 5.012458 GGTGATCCAGGTCATATTCTCATCA 59.988 44.000 0.00 0.00 0.00 3.07
531 1826 1.408127 CCAGAGTCCACACACAAACCA 60.408 52.381 0.00 0.00 0.00 3.67
532 1827 2.364632 CAGAGTCCACACACAAACCAA 58.635 47.619 0.00 0.00 0.00 3.67
533 1828 2.355756 CAGAGTCCACACACAAACCAAG 59.644 50.000 0.00 0.00 0.00 3.61
675 1974 7.495934 GCTATTGGCCACGTATGATAAGATAAT 59.504 37.037 3.88 0.00 34.27 1.28
685 1984 8.886719 ACGTATGATAAGATAATTCATGCCATG 58.113 33.333 0.00 0.00 31.30 3.66
688 1987 8.873186 ATGATAAGATAATTCATGCCATGTCA 57.127 30.769 4.31 0.00 0.00 3.58
689 1988 8.331730 TGATAAGATAATTCATGCCATGTCAG 57.668 34.615 4.31 0.00 0.00 3.51
703 2008 3.684788 CCATGTCAGGAAAGTTAGGAACG 59.315 47.826 0.00 0.00 36.23 3.95
748 2053 3.699038 TCTTTCACTCAAACCCCAACTTG 59.301 43.478 0.00 0.00 0.00 3.16
766 2074 3.269381 ACTTGCATCCCCTCCAAATTCTA 59.731 43.478 0.00 0.00 0.00 2.10
794 2102 7.141363 GCCATAAAGCTCCAAATACTGTTATG 58.859 38.462 0.00 0.00 0.00 1.90
811 2119 8.142994 ACTGTTATGGTAAAGATTAATCAGCG 57.857 34.615 17.56 0.00 0.00 5.18
821 2129 2.435372 TTAATCAGCGGGCCTTTCAT 57.565 45.000 0.84 0.00 0.00 2.57
823 2131 1.097547 AATCAGCGGGCCTTTCATCG 61.098 55.000 0.84 0.00 0.00 3.84
844 2152 4.992319 TCGTACACGACATCAAAATTTCCT 59.008 37.500 0.00 0.00 44.22 3.36
859 2167 2.434359 CCTTTCCGCGTGACTCCC 60.434 66.667 4.92 0.00 0.00 4.30
861 2169 1.301401 CTTTCCGCGTGACTCCCAA 60.301 57.895 4.92 0.00 0.00 4.12
862 2170 1.566018 CTTTCCGCGTGACTCCCAAC 61.566 60.000 4.92 0.00 0.00 3.77
863 2171 2.313051 TTTCCGCGTGACTCCCAACA 62.313 55.000 4.92 0.00 0.00 3.33
921 2229 1.503994 GCTCTTCCTTTTCCGCAGC 59.496 57.895 0.00 0.00 0.00 5.25
992 2300 4.098960 CAGACATCCCATCCATTTGAAAGG 59.901 45.833 0.00 0.00 0.00 3.11
1025 2335 2.996249 TTCATGTCTCAGCTCATCCC 57.004 50.000 0.00 0.00 0.00 3.85
1116 2426 1.134640 TCGGACATTCCATACAACCCG 60.135 52.381 0.00 0.00 35.91 5.28
1125 2435 1.014352 CATACAACCCGCTACAAGCC 58.986 55.000 0.00 0.00 38.18 4.35
1145 3416 1.112315 TGCCGCAACCTTTTGTCCAT 61.112 50.000 0.00 0.00 34.90 3.41
1162 3433 6.685527 TGTCCATTAAAATATGCAGCGTAA 57.314 33.333 0.00 0.00 0.00 3.18
1175 3446 2.568090 CGTAAGCCCCGTGTACGT 59.432 61.111 3.57 0.00 36.68 3.57
1322 3593 1.912417 CTACTCCAGGAGATACCCCG 58.088 60.000 24.45 0.00 40.05 5.73
1339 3610 1.577421 CGGTTGCCCAAGGTTTACG 59.423 57.895 0.00 0.00 0.00 3.18
1356 3627 1.933021 ACGAGGAAGTACACCATGGA 58.067 50.000 21.47 0.00 0.00 3.41
1395 3666 3.334583 GTGCAACTTAGAGACCATCCA 57.665 47.619 0.00 0.00 0.00 3.41
1396 3667 3.878778 GTGCAACTTAGAGACCATCCAT 58.121 45.455 0.00 0.00 0.00 3.41
1397 3668 3.624861 GTGCAACTTAGAGACCATCCATG 59.375 47.826 0.00 0.00 0.00 3.66
1432 3703 3.391665 CTGCCCCACTCCGATCACC 62.392 68.421 0.00 0.00 0.00 4.02
1433 3704 4.530857 GCCCCACTCCGATCACCG 62.531 72.222 0.00 0.00 38.18 4.94
1483 3754 1.517276 CTCGATCGTGAATAACCGTGC 59.483 52.381 15.94 0.00 0.00 5.34
1508 3779 5.851047 CATCGATCGATGGATGAAATGAA 57.149 39.130 38.63 7.93 45.89 2.57
1516 3787 6.671190 TCGATGGATGAAATGAAATACATGC 58.329 36.000 0.00 0.00 39.39 4.06
1539 3810 1.518102 CTGTGCGCATGTGTGAAAAAC 59.482 47.619 15.91 0.00 0.00 2.43
1540 3811 1.133982 TGTGCGCATGTGTGAAAAACT 59.866 42.857 15.91 0.00 0.00 2.66
1541 3812 1.518102 GTGCGCATGTGTGAAAAACTG 59.482 47.619 15.91 0.00 0.00 3.16
1542 3813 1.403323 TGCGCATGTGTGAAAAACTGA 59.597 42.857 5.66 0.00 0.00 3.41
1543 3814 2.159324 TGCGCATGTGTGAAAAACTGAA 60.159 40.909 5.66 0.00 0.00 3.02
1544 3815 2.857152 GCGCATGTGTGAAAAACTGAAA 59.143 40.909 0.30 0.00 0.00 2.69
1545 3816 3.305629 GCGCATGTGTGAAAAACTGAAAA 59.694 39.130 0.30 0.00 0.00 2.29
1546 3817 4.201666 GCGCATGTGTGAAAAACTGAAAAA 60.202 37.500 0.30 0.00 0.00 1.94
1547 3818 5.502220 GCGCATGTGTGAAAAACTGAAAAAT 60.502 36.000 0.30 0.00 0.00 1.82
1548 3819 6.476896 CGCATGTGTGAAAAACTGAAAAATT 58.523 32.000 0.00 0.00 0.00 1.82
1584 3857 5.045578 TCCTAGAGCCTGCTTGTTAATCTTT 60.046 40.000 0.00 0.00 0.00 2.52
1597 3870 9.463443 GCTTGTTAATCTTTTGTAAAGATGTGT 57.537 29.630 13.66 3.63 37.11 3.72
1623 3896 8.106462 TGGTGGTTATTGTAGAGAATGATTTGA 58.894 33.333 0.00 0.00 0.00 2.69
1838 4113 1.128188 AGACTGGACCGAAAGCCCTT 61.128 55.000 0.00 0.00 0.00 3.95
1922 4197 2.012937 AGAACACGAACACGACCAAA 57.987 45.000 0.00 0.00 0.00 3.28
1988 4263 1.437573 TCCGTCGATGATGGACAGC 59.562 57.895 6.11 0.00 42.15 4.40
2046 4321 3.332493 GACGAGCGTCGCCTTGGTA 62.332 63.158 14.86 0.00 45.12 3.25
2224 4499 1.696832 GCCGAAAGTGGAGCATCGAC 61.697 60.000 0.00 0.00 44.86 4.20
2264 4539 3.593794 GGCGTCGGAGTAGGCGAT 61.594 66.667 0.00 0.00 0.00 4.58
2417 4692 1.893137 AGCGTACTGAATGTCTGGACA 59.107 47.619 5.87 5.87 46.44 4.02
2420 4695 1.993370 GTACTGAATGTCTGGACACGC 59.007 52.381 5.52 2.24 45.05 5.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.969690 AGGATAGAAAGAAGATGAGAGACAA 57.030 36.000 0.00 0.00 0.00 3.18
2 3 9.965824 CTTTAGGATAGAAAGAAGATGAGAGAC 57.034 37.037 0.00 0.00 36.22 3.36
28 1239 8.392612 CCACATGAATTTTGCAGGAATTATTTC 58.607 33.333 0.00 1.39 0.00 2.17
32 1243 5.177326 GCCACATGAATTTTGCAGGAATTA 58.823 37.500 0.00 1.82 0.00 1.40
41 1252 1.928503 GGATGCGCCACATGAATTTTG 59.071 47.619 4.18 0.00 39.84 2.44
42 1253 1.549620 TGGATGCGCCACATGAATTTT 59.450 42.857 4.18 0.00 43.33 1.82
45 1256 4.662023 TGGATGCGCCACATGAAT 57.338 50.000 4.18 0.00 43.33 2.57
71 1282 7.337150 TCTAAAACGTAGGAATTGTACAACG 57.663 36.000 11.22 12.05 36.48 4.10
75 1286 9.916397 CATGATTCTAAAACGTAGGAATTGTAC 57.084 33.333 0.00 0.00 0.00 2.90
88 1299 9.444600 TTGTAGGTTCCTACATGATTCTAAAAC 57.555 33.333 25.92 2.92 45.37 2.43
94 1305 6.640518 TGTCTTGTAGGTTCCTACATGATTC 58.359 40.000 31.31 24.48 46.00 2.52
148 1359 8.210946 TCGGAACTCATGATAGGAAAAACATAT 58.789 33.333 0.00 0.00 0.00 1.78
150 1361 6.414732 TCGGAACTCATGATAGGAAAAACAT 58.585 36.000 0.00 0.00 0.00 2.71
167 1378 1.628846 ACTAAGGCCATGTTCGGAACT 59.371 47.619 20.53 4.94 0.00 3.01
178 1389 1.270839 GCTCTGTCAACACTAAGGCCA 60.271 52.381 5.01 0.00 0.00 5.36
228 1442 0.526954 CTTGATGGCTTTGCATCCGC 60.527 55.000 0.00 0.00 39.24 5.54
232 1446 9.524496 TTATTAGATATCTTGATGGCTTTGCAT 57.476 29.630 11.25 0.00 0.00 3.96
289 1505 3.255395 TGCCATGTTTGTTCGATGACATT 59.745 39.130 0.00 0.00 30.78 2.71
300 1516 5.766670 CCTCATACTCATATGCCATGTTTGT 59.233 40.000 0.00 0.00 38.50 2.83
324 1540 5.347342 AGAGAACTCACGAATGATGATGTC 58.653 41.667 4.64 0.00 33.22 3.06
353 1569 7.228706 GGTACGAATCCAAAAATAGTCCATCAT 59.771 37.037 0.00 0.00 0.00 2.45
354 1570 6.540914 GGTACGAATCCAAAAATAGTCCATCA 59.459 38.462 0.00 0.00 0.00 3.07
362 1578 8.620416 CATCTTCATGGTACGAATCCAAAAATA 58.380 33.333 0.00 0.00 38.52 1.40
416 1633 4.873746 ATATGACCTGGATCACCTAACG 57.126 45.455 0.00 0.00 37.04 3.18
422 1639 6.106648 TGATGAGAATATGACCTGGATCAC 57.893 41.667 0.00 0.00 0.00 3.06
433 1652 7.522374 CAATCATGTGAGCTGATGAGAATATG 58.478 38.462 0.00 0.00 33.69 1.78
445 1664 1.743958 GCTTCAGCAATCATGTGAGCT 59.256 47.619 0.00 0.00 41.59 4.09
624 1923 6.461577 TTATCCCTGGTTTATATGGCATCA 57.538 37.500 1.65 0.00 0.00 3.07
675 1974 3.159213 ACTTTCCTGACATGGCATGAA 57.841 42.857 32.74 14.57 0.00 2.57
685 1984 2.737252 CTGCGTTCCTAACTTTCCTGAC 59.263 50.000 0.00 0.00 0.00 3.51
687 1986 2.480419 CACTGCGTTCCTAACTTTCCTG 59.520 50.000 0.00 0.00 0.00 3.86
688 1987 2.550208 CCACTGCGTTCCTAACTTTCCT 60.550 50.000 0.00 0.00 0.00 3.36
689 1988 1.804748 CCACTGCGTTCCTAACTTTCC 59.195 52.381 0.00 0.00 0.00 3.13
703 2008 1.214589 CCAGATTTGCTGCCACTGC 59.785 57.895 0.00 0.00 43.50 4.40
748 2053 3.006217 GCAATAGAATTTGGAGGGGATGC 59.994 47.826 0.00 0.00 0.00 3.91
766 2074 5.658190 ACAGTATTTGGAGCTTTATGGCAAT 59.342 36.000 0.00 0.00 34.17 3.56
794 2102 2.552743 GGCCCGCTGATTAATCTTTACC 59.447 50.000 16.24 6.95 0.00 2.85
807 2115 1.153449 TACGATGAAAGGCCCGCTG 60.153 57.895 0.00 0.00 0.00 5.18
811 2119 0.108520 TCGTGTACGATGAAAGGCCC 60.109 55.000 0.00 0.00 44.22 5.80
823 2131 6.581166 GGAAAGGAAATTTTGATGTCGTGTAC 59.419 38.462 0.00 0.00 0.00 2.90
844 2152 1.595929 GTTGGGAGTCACGCGGAAA 60.596 57.895 12.47 0.00 0.00 3.13
859 2167 2.582728 TGTGCCTTTTGCTCTTGTTG 57.417 45.000 0.00 0.00 42.00 3.33
861 2169 1.615392 GGATGTGCCTTTTGCTCTTGT 59.385 47.619 0.00 0.00 42.00 3.16
862 2170 1.614903 TGGATGTGCCTTTTGCTCTTG 59.385 47.619 0.00 0.00 42.00 3.02
863 2171 1.999648 TGGATGTGCCTTTTGCTCTT 58.000 45.000 0.00 0.00 42.00 2.85
950 2258 4.705991 GTCTGTAGTTTGAGGTAGGCTAGT 59.294 45.833 0.00 0.00 0.00 2.57
992 2300 4.142790 AGACATGAATGCCATTCTGGATC 58.857 43.478 17.73 10.18 40.96 3.36
1072 2382 1.215647 GAACGCACTGAGTCCCGAT 59.784 57.895 8.86 0.00 0.00 4.18
1116 2426 3.055719 TTGCGGCAGGCTTGTAGC 61.056 61.111 1.67 9.89 44.05 3.58
1125 2435 1.007387 GGACAAAAGGTTGCGGCAG 60.007 57.895 1.67 0.00 38.39 4.85
1145 3416 3.316868 GGGGCTTACGCTGCATATTTTAA 59.683 43.478 0.00 0.00 36.09 1.52
1162 3433 3.066814 GGAGACGTACACGGGGCT 61.067 66.667 6.72 0.57 44.95 5.19
1175 3446 2.238847 CTTCAACATCCCGGCGGAGA 62.239 60.000 30.79 22.95 43.12 3.71
1261 3532 1.134491 CGGAGTTTCTACCCCATCCAC 60.134 57.143 0.00 0.00 0.00 4.02
1289 3560 4.867599 GTAGGCCGCCCTCGAACG 62.868 72.222 5.55 0.00 41.75 3.95
1339 3610 2.168728 GAGGTCCATGGTGTACTTCCTC 59.831 54.545 12.58 13.48 34.48 3.71
1372 3643 2.724977 TGGTCTCTAAGTTGCACTCG 57.275 50.000 0.00 0.00 0.00 4.18
1432 3703 0.601841 GTTACACCACCACTCCACCG 60.602 60.000 0.00 0.00 0.00 4.94
1433 3704 0.763035 AGTTACACCACCACTCCACC 59.237 55.000 0.00 0.00 0.00 4.61
1444 3715 7.844653 CGATCGAGCTATTTTTAAAGTTACACC 59.155 37.037 10.26 0.00 0.00 4.16
1516 3787 0.518195 TTCACACATGCGCACAGATG 59.482 50.000 14.90 10.25 0.00 2.90
1539 3810 5.993441 AGGATTCTTTGGTGCAATTTTTCAG 59.007 36.000 0.00 0.00 0.00 3.02
1540 3811 5.927819 AGGATTCTTTGGTGCAATTTTTCA 58.072 33.333 0.00 0.00 0.00 2.69
1541 3812 7.378181 TCTAGGATTCTTTGGTGCAATTTTTC 58.622 34.615 0.00 0.00 0.00 2.29
1542 3813 7.301868 TCTAGGATTCTTTGGTGCAATTTTT 57.698 32.000 0.00 0.00 0.00 1.94
1543 3814 6.573094 GCTCTAGGATTCTTTGGTGCAATTTT 60.573 38.462 0.00 0.00 0.00 1.82
1544 3815 5.105595 GCTCTAGGATTCTTTGGTGCAATTT 60.106 40.000 0.00 0.00 0.00 1.82
1545 3816 4.400567 GCTCTAGGATTCTTTGGTGCAATT 59.599 41.667 0.00 0.00 0.00 2.32
1546 3817 3.950395 GCTCTAGGATTCTTTGGTGCAAT 59.050 43.478 0.00 0.00 0.00 3.56
1547 3818 3.347216 GCTCTAGGATTCTTTGGTGCAA 58.653 45.455 0.00 0.00 0.00 4.08
1548 3819 2.356125 GGCTCTAGGATTCTTTGGTGCA 60.356 50.000 0.00 0.00 0.00 4.57
1584 3857 6.547880 ACAATAACCACCACACATCTTTACAA 59.452 34.615 0.00 0.00 0.00 2.41
1597 3870 8.106462 TCAAATCATTCTCTACAATAACCACCA 58.894 33.333 0.00 0.00 0.00 4.17
1623 3896 6.972901 GCATGATCAATCAATTATCGATGCAT 59.027 34.615 8.54 0.00 40.69 3.96
1668 3941 2.582436 CGGTCGCACCCCTTGTAT 59.418 61.111 0.50 0.00 33.75 2.29
1815 4090 0.318762 GCTTTCGGTCCAGTCTCTGT 59.681 55.000 0.00 0.00 0.00 3.41
1838 4113 0.113776 ACTACCCACCTCGACCTTCA 59.886 55.000 0.00 0.00 0.00 3.02
1922 4197 3.381983 TCAGGGAGCACGTCGCAT 61.382 61.111 11.58 0.00 46.13 4.73
1977 4252 1.002257 TGCCAACGCTGTCCATCAT 60.002 52.632 0.00 0.00 35.36 2.45
1988 4263 1.574428 GTGTACCTTGCTGCCAACG 59.426 57.895 0.00 0.00 0.00 4.10
2046 4321 4.623932 TCAGAAGTTGCTATGTGAGGTT 57.376 40.909 0.00 0.00 0.00 3.50
2209 4484 1.670087 CGACAGTCGATGCTCCACTTT 60.670 52.381 18.63 0.00 43.74 2.66
2243 4518 3.129502 CCTACTCCGACGCCGACA 61.130 66.667 0.00 0.00 38.22 4.35
2264 4539 1.278985 CATCACCTGACACCAGCCTTA 59.721 52.381 0.00 0.00 39.07 2.69
2306 4581 1.608542 GGTACATACGTGGCACCACAA 60.609 52.381 19.38 7.41 46.47 3.33
2417 4692 3.738281 GCTTCAGTATATCACACTGGCGT 60.738 47.826 4.64 0.00 42.98 5.68
2420 4695 2.797156 GCGCTTCAGTATATCACACTGG 59.203 50.000 0.00 0.00 42.98 4.00
2429 4704 0.248336 CGTCGGTGCGCTTCAGTATA 60.248 55.000 9.73 0.00 0.00 1.47


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

AutoCloner maintained by Alex Coulton.