Multiple sequence alignment - TraesCS7D01G182300

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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 TraesCS7D01G182300 chr7D 100.000 2309 0 0 1 2309 135769093 135771401 0.000000e+00 4265
1 TraesCS7D01G182300 chr7D 99.547 1544 7 0 1 1544 23563082 23564625 0.000000e+00 2813
2 TraesCS7D01G182300 chr7D 99.546 1543 7 0 1 1543 135763962 135762420 0.000000e+00 2811
3 TraesCS7D01G182300 chr7D 99.352 1543 10 0 1 1543 400291676 400290134 0.000000e+00 2795
4 TraesCS7D01G182300 chr7D 99.160 1548 13 0 1 1548 14171011 14169464 0.000000e+00 2787
5 TraesCS7D01G182300 chr3D 99.288 1544 11 0 1 1544 564344208 564345751 0.000000e+00 2791
6 TraesCS7D01G182300 chr6D 99.287 1542 11 0 1 1542 402531207 402529666 0.000000e+00 2787
7 TraesCS7D01G182300 chr6D 99.157 1543 13 0 1 1543 392049939 392048397 0.000000e+00 2778
8 TraesCS7D01G182300 chr2D 99.222 1543 12 0 1 1543 70659368 70657826 0.000000e+00 2784
9 TraesCS7D01G182300 chr2D 99.093 1544 14 0 1 1544 35061492 35059949 0.000000e+00 2774
10 TraesCS7D01G182300 chr7B 83.058 667 101 10 1648 2309 97675308 97675967 1.530000e-166 595
11 TraesCS7D01G182300 chr7A 86.000 550 70 5 1763 2309 134719917 134720462 1.190000e-162 582
12 TraesCS7D01G182300 chr7A 87.556 225 28 0 1543 1767 134709403 134709627 6.330000e-66 261
13 TraesCS7D01G182300 chr2B 80.560 607 81 21 1593 2181 774500465 774501052 1.270000e-117 433
14 TraesCS7D01G182300 chr2B 78.095 630 111 19 1684 2309 210248566 210247960 7.790000e-100 374


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 TraesCS7D01G182300 chr7D 135769093 135771401 2308 False 4265 4265 100.000 1 2309 1 chr7D.!!$F2 2308
1 TraesCS7D01G182300 chr7D 23563082 23564625 1543 False 2813 2813 99.547 1 1544 1 chr7D.!!$F1 1543
2 TraesCS7D01G182300 chr7D 135762420 135763962 1542 True 2811 2811 99.546 1 1543 1 chr7D.!!$R2 1542
3 TraesCS7D01G182300 chr7D 400290134 400291676 1542 True 2795 2795 99.352 1 1543 1 chr7D.!!$R3 1542
4 TraesCS7D01G182300 chr7D 14169464 14171011 1547 True 2787 2787 99.160 1 1548 1 chr7D.!!$R1 1547
5 TraesCS7D01G182300 chr3D 564344208 564345751 1543 False 2791 2791 99.288 1 1544 1 chr3D.!!$F1 1543
6 TraesCS7D01G182300 chr6D 402529666 402531207 1541 True 2787 2787 99.287 1 1542 1 chr6D.!!$R2 1541
7 TraesCS7D01G182300 chr6D 392048397 392049939 1542 True 2778 2778 99.157 1 1543 1 chr6D.!!$R1 1542
8 TraesCS7D01G182300 chr2D 70657826 70659368 1542 True 2784 2784 99.222 1 1543 1 chr2D.!!$R2 1542
9 TraesCS7D01G182300 chr2D 35059949 35061492 1543 True 2774 2774 99.093 1 1544 1 chr2D.!!$R1 1543
10 TraesCS7D01G182300 chr7B 97675308 97675967 659 False 595 595 83.058 1648 2309 1 chr7B.!!$F1 661
11 TraesCS7D01G182300 chr7A 134719917 134720462 545 False 582 582 86.000 1763 2309 1 chr7A.!!$F2 546
12 TraesCS7D01G182300 chr2B 774500465 774501052 587 False 433 433 80.560 1593 2181 1 chr2B.!!$F1 588
13 TraesCS7D01G182300 chr2B 210247960 210248566 606 True 374 374 78.095 1684 2309 1 chr2B.!!$R1 625

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
1376 1377 9.005777 GTTGTAACTTCCATGATACTTGGTTTA 57.994 33.333 0.0 0.0 35.64 2.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2258 2277 0.039437 ACGCAGTGATCGACGAACTT 60.039 50.0 0.0 0.0 42.51 2.66 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
1376 1377 9.005777 GTTGTAACTTCCATGATACTTGGTTTA 57.994 33.333 0.00 0.00 35.64 2.01
1544 1545 4.632974 CATAGAGCCGGCCCTGCC 62.633 72.222 26.15 7.58 46.75 4.85
1553 1554 3.455469 GGCCCTGCCTGCATGTTC 61.455 66.667 0.00 0.00 46.69 3.18
1554 1555 2.677524 GCCCTGCCTGCATGTTCA 60.678 61.111 0.00 0.00 0.00 3.18
1555 1556 2.998279 GCCCTGCCTGCATGTTCAC 61.998 63.158 0.00 0.00 0.00 3.18
1556 1557 1.303888 CCCTGCCTGCATGTTCACT 60.304 57.895 0.00 0.00 0.00 3.41
1557 1558 1.310933 CCCTGCCTGCATGTTCACTC 61.311 60.000 0.00 0.00 0.00 3.51
1558 1559 1.642037 CCTGCCTGCATGTTCACTCG 61.642 60.000 0.00 0.00 0.00 4.18
1559 1560 0.952497 CTGCCTGCATGTTCACTCGT 60.952 55.000 0.00 0.00 0.00 4.18
1560 1561 0.534877 TGCCTGCATGTTCACTCGTT 60.535 50.000 0.00 0.00 0.00 3.85
1561 1562 1.270571 TGCCTGCATGTTCACTCGTTA 60.271 47.619 0.00 0.00 0.00 3.18
1562 1563 1.804151 GCCTGCATGTTCACTCGTTAA 59.196 47.619 0.00 0.00 0.00 2.01
1563 1564 2.412847 GCCTGCATGTTCACTCGTTAAC 60.413 50.000 0.00 0.00 0.00 2.01
1564 1565 3.067106 CCTGCATGTTCACTCGTTAACT 58.933 45.455 3.71 0.00 0.00 2.24
1565 1566 3.120546 CCTGCATGTTCACTCGTTAACTG 60.121 47.826 3.71 0.00 0.00 3.16
1566 1567 2.805671 TGCATGTTCACTCGTTAACTGG 59.194 45.455 3.71 0.00 0.00 4.00
1567 1568 2.159627 GCATGTTCACTCGTTAACTGGG 59.840 50.000 3.71 0.00 0.00 4.45
1568 1569 1.873698 TGTTCACTCGTTAACTGGGC 58.126 50.000 3.71 0.00 0.00 5.36
1569 1570 1.414919 TGTTCACTCGTTAACTGGGCT 59.585 47.619 3.71 0.00 0.00 5.19
1570 1571 2.158871 TGTTCACTCGTTAACTGGGCTT 60.159 45.455 3.71 0.00 0.00 4.35
1571 1572 2.163818 TCACTCGTTAACTGGGCTTG 57.836 50.000 3.71 0.00 0.00 4.01
1572 1573 0.517316 CACTCGTTAACTGGGCTTGC 59.483 55.000 3.71 0.00 0.00 4.01
1573 1574 0.396811 ACTCGTTAACTGGGCTTGCT 59.603 50.000 3.71 0.00 0.00 3.91
1574 1575 1.079503 CTCGTTAACTGGGCTTGCTC 58.920 55.000 3.71 0.00 0.00 4.26
1575 1576 0.669318 TCGTTAACTGGGCTTGCTCG 60.669 55.000 3.71 0.00 0.00 5.03
1576 1577 0.949105 CGTTAACTGGGCTTGCTCGT 60.949 55.000 3.71 0.00 0.00 4.18
1577 1578 0.796927 GTTAACTGGGCTTGCTCGTC 59.203 55.000 0.00 0.00 0.00 4.20
1578 1579 0.394938 TTAACTGGGCTTGCTCGTCA 59.605 50.000 0.00 0.00 0.00 4.35
1579 1580 0.394938 TAACTGGGCTTGCTCGTCAA 59.605 50.000 0.00 0.00 0.00 3.18
1580 1581 1.166531 AACTGGGCTTGCTCGTCAAC 61.167 55.000 0.00 0.00 0.00 3.18
1581 1582 1.302033 CTGGGCTTGCTCGTCAACT 60.302 57.895 0.00 0.00 0.00 3.16
1582 1583 1.572085 CTGGGCTTGCTCGTCAACTG 61.572 60.000 0.00 0.00 0.00 3.16
1583 1584 1.301716 GGGCTTGCTCGTCAACTGA 60.302 57.895 0.00 0.00 0.00 3.41
1584 1585 1.294659 GGGCTTGCTCGTCAACTGAG 61.295 60.000 0.00 0.00 36.53 3.35
1585 1586 0.601311 GGCTTGCTCGTCAACTGAGT 60.601 55.000 0.00 0.00 35.85 3.41
1586 1587 0.787183 GCTTGCTCGTCAACTGAGTC 59.213 55.000 0.00 0.00 35.85 3.36
1587 1588 1.869754 GCTTGCTCGTCAACTGAGTCA 60.870 52.381 0.00 0.00 35.85 3.41
1588 1589 2.057316 CTTGCTCGTCAACTGAGTCAG 58.943 52.381 18.83 18.83 35.85 3.51
1589 1590 0.315251 TGCTCGTCAACTGAGTCAGG 59.685 55.000 23.79 7.54 35.51 3.86
1590 1591 0.389166 GCTCGTCAACTGAGTCAGGG 60.389 60.000 23.79 15.20 35.51 4.45
1591 1592 0.389166 CTCGTCAACTGAGTCAGGGC 60.389 60.000 23.79 7.93 35.51 5.19
1592 1593 1.734477 CGTCAACTGAGTCAGGGCG 60.734 63.158 23.79 15.87 35.51 6.13
1593 1594 1.367840 GTCAACTGAGTCAGGGCGT 59.632 57.895 23.79 0.72 35.51 5.68
1594 1595 0.249911 GTCAACTGAGTCAGGGCGTT 60.250 55.000 23.79 7.35 35.51 4.84
1595 1596 0.468226 TCAACTGAGTCAGGGCGTTT 59.532 50.000 23.79 6.13 35.51 3.60
1596 1597 0.588252 CAACTGAGTCAGGGCGTTTG 59.412 55.000 23.79 14.26 35.51 2.93
1597 1598 1.166531 AACTGAGTCAGGGCGTTTGC 61.167 55.000 23.79 0.00 35.51 3.68
1598 1599 1.302033 CTGAGTCAGGGCGTTTGCT 60.302 57.895 12.67 0.00 42.25 3.91
1599 1600 1.294659 CTGAGTCAGGGCGTTTGCTC 61.295 60.000 12.67 0.00 44.16 4.26
1610 1611 0.877071 CGTTTGCTCAATGACTGGCT 59.123 50.000 0.00 0.00 0.00 4.75
1615 1616 1.160137 GCTCAATGACTGGCTCGTTT 58.840 50.000 0.00 0.00 0.00 3.60
1620 1621 3.258372 TCAATGACTGGCTCGTTTACTCT 59.742 43.478 0.00 0.00 0.00 3.24
1625 1626 0.246635 TGGCTCGTTTACTCTGCTCC 59.753 55.000 0.00 0.00 0.00 4.70
1630 1631 1.201647 TCGTTTACTCTGCTCCTTCCG 59.798 52.381 0.00 0.00 0.00 4.30
1636 1637 0.610687 CTCTGCTCCTTCCGAAACCT 59.389 55.000 0.00 0.00 0.00 3.50
1663 1664 2.159282 AGTGGTCGTTCGATCATACACC 60.159 50.000 11.23 1.34 0.00 4.16
1664 1665 1.202211 TGGTCGTTCGATCATACACCG 60.202 52.381 3.98 0.00 0.00 4.94
1665 1666 0.844503 GTCGTTCGATCATACACCGC 59.155 55.000 0.00 0.00 0.00 5.68
1682 1689 1.285950 GCGGCCTGTTTGGTTTCTC 59.714 57.895 0.00 0.00 38.35 2.87
1697 1704 4.207955 GGTTTCTCCTTCCAGAAAACACT 58.792 43.478 6.18 0.00 45.77 3.55
1701 1708 2.996621 CTCCTTCCAGAAAACACTAGCG 59.003 50.000 0.00 0.00 0.00 4.26
1703 1710 2.737252 CCTTCCAGAAAACACTAGCGTC 59.263 50.000 0.00 0.00 0.00 5.19
1735 1742 3.008266 TCCACTGCATTCATTCACTCTCA 59.992 43.478 0.00 0.00 0.00 3.27
1739 1746 2.738314 TGCATTCATTCACTCTCACACG 59.262 45.455 0.00 0.00 0.00 4.49
1797 1811 3.103742 ACCACCACCACAACAAGAAAAT 58.896 40.909 0.00 0.00 0.00 1.82
1814 1829 4.916293 TCTCCATCGCGCCATGGC 62.916 66.667 27.10 27.67 42.97 4.40
1860 1875 0.972471 TCTGCAGGAGATCTTCGCCA 60.972 55.000 15.13 6.07 38.94 5.69
1975 1994 0.962489 CACAACAGAGGAGAGGTCGT 59.038 55.000 0.00 0.00 0.00 4.34
2037 2056 4.925861 GCGATGGAGGAGGCCAGC 62.926 72.222 5.01 0.00 42.15 4.85
2038 2057 3.473647 CGATGGAGGAGGCCAGCA 61.474 66.667 5.01 0.00 44.38 4.41
2055 2074 3.181469 CCAGCAATTCCCTTGATCCATTG 60.181 47.826 0.00 0.00 36.97 2.82
2057 2076 2.800629 GCAATTCCCTTGATCCATTGCG 60.801 50.000 0.00 0.00 40.12 4.85
2058 2077 2.689471 CAATTCCCTTGATCCATTGCGA 59.311 45.455 0.00 0.00 36.97 5.10
2060 2079 0.617935 TCCCTTGATCCATTGCGACA 59.382 50.000 0.00 0.00 0.00 4.35
2125 2144 1.077858 GACTACGAGGTCGAGGGGT 60.078 63.158 6.35 0.00 43.02 4.95
2168 2187 1.129917 CTGATGGAGATGGAGCCACT 58.870 55.000 0.00 0.00 36.92 4.00
2175 2194 2.703007 GGAGATGGAGCCACTGTAGATT 59.297 50.000 0.00 0.00 0.00 2.40
2207 2226 0.464870 CAGATGCAGGAGGTGGAGAG 59.535 60.000 0.00 0.00 0.00 3.20
2258 2277 2.233566 AACTCTGCATCCAGGGGCA 61.234 57.895 6.55 6.55 44.18 5.36
2283 2302 1.698165 GTCGATCACTGCGTCTTCAA 58.302 50.000 0.00 0.00 0.00 2.69
2287 2306 2.476619 CGATCACTGCGTCTTCAAAAGT 59.523 45.455 0.00 0.00 0.00 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1178 1179 7.170277 TCCATTCAATCTTTCTTGAGACATCA 58.830 34.615 0.00 0.00 36.55 3.07
1376 1377 7.839680 ATGTTATTTTCCCTGTCTTTGTTCT 57.160 32.000 0.00 0.00 0.00 3.01
1544 1545 3.120546 CCAGTTAACGAGTGAACATGCAG 60.121 47.826 6.27 0.00 0.00 4.41
1548 1549 2.038557 AGCCCAGTTAACGAGTGAACAT 59.961 45.455 6.27 0.00 0.00 2.71
1549 1550 1.414919 AGCCCAGTTAACGAGTGAACA 59.585 47.619 6.27 0.00 0.00 3.18
1550 1551 2.165319 AGCCCAGTTAACGAGTGAAC 57.835 50.000 0.00 0.00 0.00 3.18
1551 1552 2.489971 CAAGCCCAGTTAACGAGTGAA 58.510 47.619 0.00 0.00 0.00 3.18
1552 1553 1.876416 GCAAGCCCAGTTAACGAGTGA 60.876 52.381 0.00 0.00 0.00 3.41
1553 1554 0.517316 GCAAGCCCAGTTAACGAGTG 59.483 55.000 0.00 0.00 0.00 3.51
1554 1555 0.396811 AGCAAGCCCAGTTAACGAGT 59.603 50.000 0.00 0.00 0.00 4.18
1555 1556 1.079503 GAGCAAGCCCAGTTAACGAG 58.920 55.000 0.00 0.00 0.00 4.18
1556 1557 0.669318 CGAGCAAGCCCAGTTAACGA 60.669 55.000 0.00 0.00 0.00 3.85
1557 1558 0.949105 ACGAGCAAGCCCAGTTAACG 60.949 55.000 0.00 0.00 0.00 3.18
1558 1559 0.796927 GACGAGCAAGCCCAGTTAAC 59.203 55.000 0.00 0.00 0.00 2.01
1559 1560 0.394938 TGACGAGCAAGCCCAGTTAA 59.605 50.000 0.00 0.00 0.00 2.01
1560 1561 0.394938 TTGACGAGCAAGCCCAGTTA 59.605 50.000 0.00 0.00 31.55 2.24
1561 1562 1.148273 TTGACGAGCAAGCCCAGTT 59.852 52.632 0.00 0.00 31.55 3.16
1562 1563 1.598130 GTTGACGAGCAAGCCCAGT 60.598 57.895 0.00 0.00 37.12 4.00
1563 1564 1.302033 AGTTGACGAGCAAGCCCAG 60.302 57.895 0.00 0.00 37.12 4.45
1564 1565 1.597854 CAGTTGACGAGCAAGCCCA 60.598 57.895 0.00 0.00 37.12 5.36
1565 1566 1.294659 CTCAGTTGACGAGCAAGCCC 61.295 60.000 0.00 0.00 37.12 5.19
1566 1567 0.601311 ACTCAGTTGACGAGCAAGCC 60.601 55.000 0.00 0.00 37.12 4.35
1567 1568 0.787183 GACTCAGTTGACGAGCAAGC 59.213 55.000 0.00 0.00 37.12 4.01
1568 1569 2.057316 CTGACTCAGTTGACGAGCAAG 58.943 52.381 0.00 0.00 37.12 4.01
1569 1570 1.269778 CCTGACTCAGTTGACGAGCAA 60.270 52.381 5.32 0.00 33.58 3.91
1570 1571 0.315251 CCTGACTCAGTTGACGAGCA 59.685 55.000 5.32 0.00 33.58 4.26
1571 1572 0.389166 CCCTGACTCAGTTGACGAGC 60.389 60.000 5.32 0.00 33.58 5.03
1572 1573 0.389166 GCCCTGACTCAGTTGACGAG 60.389 60.000 5.32 0.00 36.53 4.18
1573 1574 1.666011 GCCCTGACTCAGTTGACGA 59.334 57.895 5.32 0.00 0.00 4.20
1574 1575 1.734477 CGCCCTGACTCAGTTGACG 60.734 63.158 5.32 0.08 0.00 4.35
1575 1576 0.249911 AACGCCCTGACTCAGTTGAC 60.250 55.000 5.32 0.00 0.00 3.18
1576 1577 0.468226 AAACGCCCTGACTCAGTTGA 59.532 50.000 5.32 0.00 0.00 3.18
1577 1578 0.588252 CAAACGCCCTGACTCAGTTG 59.412 55.000 5.32 0.00 0.00 3.16
1578 1579 1.166531 GCAAACGCCCTGACTCAGTT 61.167 55.000 5.32 0.00 0.00 3.16
1579 1580 1.598130 GCAAACGCCCTGACTCAGT 60.598 57.895 5.32 0.00 0.00 3.41
1580 1581 1.294659 GAGCAAACGCCCTGACTCAG 61.295 60.000 0.00 0.00 0.00 3.35
1581 1582 1.301716 GAGCAAACGCCCTGACTCA 60.302 57.895 0.00 0.00 0.00 3.41
1582 1583 0.884704 TTGAGCAAACGCCCTGACTC 60.885 55.000 0.00 0.00 0.00 3.36
1583 1584 0.250901 ATTGAGCAAACGCCCTGACT 60.251 50.000 0.00 0.00 0.00 3.41
1584 1585 0.109597 CATTGAGCAAACGCCCTGAC 60.110 55.000 0.00 0.00 0.00 3.51
1585 1586 0.250684 TCATTGAGCAAACGCCCTGA 60.251 50.000 0.00 0.00 0.00 3.86
1586 1587 0.109597 GTCATTGAGCAAACGCCCTG 60.110 55.000 0.00 0.00 0.00 4.45
1587 1588 0.250901 AGTCATTGAGCAAACGCCCT 60.251 50.000 0.00 0.00 0.00 5.19
1588 1589 0.109597 CAGTCATTGAGCAAACGCCC 60.110 55.000 0.00 0.00 0.00 6.13
1589 1590 0.109597 CCAGTCATTGAGCAAACGCC 60.110 55.000 0.00 0.00 0.00 5.68
1590 1591 0.730494 GCCAGTCATTGAGCAAACGC 60.730 55.000 0.00 0.00 0.00 4.84
1591 1592 0.877071 AGCCAGTCATTGAGCAAACG 59.123 50.000 0.02 0.00 0.00 3.60
1592 1593 1.135859 CGAGCCAGTCATTGAGCAAAC 60.136 52.381 0.02 0.00 0.00 2.93
1593 1594 1.159285 CGAGCCAGTCATTGAGCAAA 58.841 50.000 0.02 0.00 0.00 3.68
1594 1595 0.035317 ACGAGCCAGTCATTGAGCAA 59.965 50.000 0.00 0.00 0.00 3.91
1595 1596 0.035317 AACGAGCCAGTCATTGAGCA 59.965 50.000 0.00 0.00 0.00 4.26
1596 1597 1.160137 AAACGAGCCAGTCATTGAGC 58.840 50.000 0.00 0.00 0.00 4.26
1597 1598 3.589988 AGTAAACGAGCCAGTCATTGAG 58.410 45.455 0.00 0.00 0.00 3.02
1598 1599 3.258372 AGAGTAAACGAGCCAGTCATTGA 59.742 43.478 0.00 0.00 0.00 2.57
1599 1600 3.369147 CAGAGTAAACGAGCCAGTCATTG 59.631 47.826 0.00 0.00 0.00 2.82
1600 1601 3.589988 CAGAGTAAACGAGCCAGTCATT 58.410 45.455 0.00 0.00 0.00 2.57
1601 1602 2.675317 GCAGAGTAAACGAGCCAGTCAT 60.675 50.000 0.00 0.00 0.00 3.06
1602 1603 1.336887 GCAGAGTAAACGAGCCAGTCA 60.337 52.381 0.00 0.00 0.00 3.41
1603 1604 1.067495 AGCAGAGTAAACGAGCCAGTC 60.067 52.381 0.00 0.00 0.00 3.51
1604 1605 0.969894 AGCAGAGTAAACGAGCCAGT 59.030 50.000 0.00 0.00 0.00 4.00
1610 1611 1.201647 CGGAAGGAGCAGAGTAAACGA 59.798 52.381 0.00 0.00 0.00 3.85
1615 1616 1.549170 GGTTTCGGAAGGAGCAGAGTA 59.451 52.381 0.00 0.00 0.00 2.59
1620 1621 1.002773 GGTTAGGTTTCGGAAGGAGCA 59.997 52.381 0.00 0.00 0.00 4.26
1625 1626 2.812011 CCACTTGGTTAGGTTTCGGAAG 59.188 50.000 0.00 0.00 0.00 3.46
1663 1664 2.050442 GAAACCAAACAGGCCGCG 60.050 61.111 0.00 0.00 43.14 6.46
1664 1665 1.285950 GAGAAACCAAACAGGCCGC 59.714 57.895 0.00 0.00 43.14 6.53
1665 1666 0.537371 AGGAGAAACCAAACAGGCCG 60.537 55.000 0.00 0.00 43.14 6.13
1682 1689 2.737252 GACGCTAGTGTTTTCTGGAAGG 59.263 50.000 10.89 0.00 0.00 3.46
1695 1702 1.924320 GAGTGGCTGACGACGCTAGT 61.924 60.000 0.00 0.00 39.67 2.57
1697 1704 2.697761 GGAGTGGCTGACGACGCTA 61.698 63.158 0.00 0.00 39.67 4.26
1701 1708 1.373497 CAGTGGAGTGGCTGACGAC 60.373 63.158 0.00 0.00 34.87 4.34
1703 1710 2.740055 GCAGTGGAGTGGCTGACG 60.740 66.667 0.00 0.00 34.87 4.35
1735 1742 1.198759 AGCCTGGTGGTTATCCGTGT 61.199 55.000 0.00 0.00 36.30 4.49
1739 1746 0.470341 GGAGAGCCTGGTGGTTATCC 59.530 60.000 0.00 0.00 45.25 2.59
1797 1811 4.916293 GCCATGGCGCGATGGAGA 62.916 66.667 43.88 6.09 45.24 3.71
1814 1829 3.864686 CATCCGAGGCCAAACGCG 61.865 66.667 5.01 3.53 38.94 6.01
1815 1830 3.508840 CCATCCGAGGCCAAACGC 61.509 66.667 5.01 0.00 0.00 4.84
1860 1875 2.103263 AGGAGAACTTCTTGTTGTCGCT 59.897 45.455 0.00 0.00 46.24 4.93
1925 1940 2.108514 ACCGCACGCATGATTCTGG 61.109 57.895 0.00 0.00 0.00 3.86
1962 1981 2.104170 GGAAATCACGACCTCTCCTCT 58.896 52.381 0.00 0.00 0.00 3.69
1975 1994 0.613260 CGGTGGAGGTCTGGAAATCA 59.387 55.000 0.00 0.00 0.00 2.57
2037 2056 2.689471 TCGCAATGGATCAAGGGAATTG 59.311 45.455 0.00 0.00 40.52 2.32
2038 2057 2.689983 GTCGCAATGGATCAAGGGAATT 59.310 45.455 0.00 0.00 0.00 2.17
2057 2076 1.202582 ACATGTACCAGCGAGACTGTC 59.797 52.381 0.00 0.00 45.68 3.51
2058 2077 1.257743 ACATGTACCAGCGAGACTGT 58.742 50.000 0.00 0.00 45.68 3.55
2103 2122 1.814586 CTCGACCTCGTAGTCCGCT 60.815 63.158 0.00 0.00 40.80 5.52
2105 2124 2.178890 CCCTCGACCTCGTAGTCCG 61.179 68.421 0.00 0.00 40.80 4.79
2168 2187 2.831526 TGCTACCACTGCTCAATCTACA 59.168 45.455 0.00 0.00 0.00 2.74
2175 2194 0.107993 GCATCTGCTACCACTGCTCA 60.108 55.000 0.00 0.00 38.21 4.26
2183 2202 0.179062 CACCTCCTGCATCTGCTACC 60.179 60.000 3.53 0.00 42.66 3.18
2207 2226 1.656441 CTCCTGTTGCTTGTGCCAC 59.344 57.895 0.00 0.00 38.71 5.01
2258 2277 0.039437 ACGCAGTGATCGACGAACTT 60.039 50.000 0.00 0.00 42.51 2.66
2283 2302 5.880332 TCAAACTCACTCTTGCTACAACTTT 59.120 36.000 0.00 0.00 0.00 2.66


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

AutoCloner maintained by Alex Coulton.