Multiple sequence alignment - TraesCS2A01G579100

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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 TraesCS2A01G579100 chr2A 100.000 2657 0 0 1 2657 771979507 771976851 0.000000e+00 4907
1 TraesCS2A01G579100 chr2A 99.215 637 5 0 3 639 771991016 771990380 0.000000e+00 1149
2 TraesCS2A01G579100 chr2D 90.499 1484 101 19 1 1462 650604629 650603164 0.000000e+00 1923
3 TraesCS2A01G579100 chr2D 92.421 1082 76 6 1579 2657 31033680 31034758 0.000000e+00 1539
4 TraesCS2A01G579100 chr2D 93.333 120 8 0 1459 1578 650603203 650603084 7.560000e-41 178
5 TraesCS2A01G579100 chr2B 90.007 1431 110 17 51 1462 787803353 787801937 0.000000e+00 1820
6 TraesCS2A01G579100 chr2B 87.161 553 50 7 586 1132 787023208 787023745 2.260000e-170 608
7 TraesCS2A01G579100 chr2B 86.606 545 54 12 1 540 787022499 787023029 3.810000e-163 584
8 TraesCS2A01G579100 chr2B 91.667 120 10 0 1459 1578 787801976 787801857 1.640000e-37 167
9 TraesCS2A01G579100 chr5D 92.884 1082 68 8 1579 2657 384697685 384696610 0.000000e+00 1563
10 TraesCS2A01G579100 chr6B 92.357 1086 73 8 1579 2657 213156724 213155642 0.000000e+00 1537
11 TraesCS2A01G579100 chr6B 92.081 1086 77 9 1579 2657 591519591 591518508 0.000000e+00 1520
12 TraesCS2A01G579100 chrUn 92.572 1077 67 10 1579 2645 47640707 47641780 0.000000e+00 1533
13 TraesCS2A01G579100 chr6A 92.565 1076 68 11 1578 2645 613602670 613601599 0.000000e+00 1533
14 TraesCS2A01G579100 chr6A 92.379 1076 73 9 1576 2645 27178186 27177114 0.000000e+00 1524
15 TraesCS2A01G579100 chr4A 92.066 1084 81 5 1579 2657 739050736 739049653 0.000000e+00 1520
16 TraesCS2A01G579100 chr4D 92.074 1085 76 9 1579 2657 306402579 306401499 0.000000e+00 1519


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 TraesCS2A01G579100 chr2A 771976851 771979507 2656 True 4907.0 4907 100.0000 1 2657 1 chr2A.!!$R1 2656
1 TraesCS2A01G579100 chr2A 771990380 771991016 636 True 1149.0 1149 99.2150 3 639 1 chr2A.!!$R2 636
2 TraesCS2A01G579100 chr2D 31033680 31034758 1078 False 1539.0 1539 92.4210 1579 2657 1 chr2D.!!$F1 1078
3 TraesCS2A01G579100 chr2D 650603084 650604629 1545 True 1050.5 1923 91.9160 1 1578 2 chr2D.!!$R1 1577
4 TraesCS2A01G579100 chr2B 787801857 787803353 1496 True 993.5 1820 90.8370 51 1578 2 chr2B.!!$R1 1527
5 TraesCS2A01G579100 chr2B 787022499 787023745 1246 False 596.0 608 86.8835 1 1132 2 chr2B.!!$F1 1131
6 TraesCS2A01G579100 chr5D 384696610 384697685 1075 True 1563.0 1563 92.8840 1579 2657 1 chr5D.!!$R1 1078
7 TraesCS2A01G579100 chr6B 213155642 213156724 1082 True 1537.0 1537 92.3570 1579 2657 1 chr6B.!!$R1 1078
8 TraesCS2A01G579100 chr6B 591518508 591519591 1083 True 1520.0 1520 92.0810 1579 2657 1 chr6B.!!$R2 1078
9 TraesCS2A01G579100 chrUn 47640707 47641780 1073 False 1533.0 1533 92.5720 1579 2645 1 chrUn.!!$F1 1066
10 TraesCS2A01G579100 chr6A 613601599 613602670 1071 True 1533.0 1533 92.5650 1578 2645 1 chr6A.!!$R2 1067
11 TraesCS2A01G579100 chr6A 27177114 27178186 1072 True 1524.0 1524 92.3790 1576 2645 1 chr6A.!!$R1 1069
12 TraesCS2A01G579100 chr4A 739049653 739050736 1083 True 1520.0 1520 92.0660 1579 2657 1 chr4A.!!$R1 1078
13 TraesCS2A01G579100 chr4D 306401499 306402579 1080 True 1519.0 1519 92.0740 1579 2657 1 chr4D.!!$R1 1078

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
994 1139 0.179084 ACCGATCGATTGCAATCCGT 60.179 50.0 29.1 19.54 31.68 4.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2627 2812 0.464554 GTGCTGATTGAGGGGCTACC 60.465 60.0 0.0 0.0 40.67 3.18 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
164 166 3.206150 CATGTTTGAGGGAATACGGGAG 58.794 50.000 0.00 0.00 0.00 4.30
391 399 2.178912 TAGGTGCCTTTTTGGAGACG 57.821 50.000 0.00 0.00 38.35 4.18
664 809 4.808767 ATTTTAGTATCCAGGTTCCCCC 57.191 45.455 0.00 0.00 0.00 5.40
777 922 1.179814 ACTGACTCCTCGTGGGTGAC 61.180 60.000 3.23 0.00 36.25 3.67
827 972 2.411748 CGATTCAGAGCGTTGTTTGCTA 59.588 45.455 0.00 0.00 44.18 3.49
934 1079 1.209275 GATCGATGAACAGGACGCCG 61.209 60.000 0.54 0.00 0.00 6.46
994 1139 0.179084 ACCGATCGATTGCAATCCGT 60.179 50.000 29.10 19.54 31.68 4.69
1031 1176 0.605319 ACCAATTTCTTCGGAGCGCA 60.605 50.000 11.47 0.00 0.00 6.09
1033 1178 0.798776 CAATTTCTTCGGAGCGCAGT 59.201 50.000 11.47 0.00 0.00 4.40
1073 1236 1.881903 CTCTCTGAGTCCTGCGGCAA 61.882 60.000 3.44 0.00 0.00 4.52
1083 1246 1.134521 TCCTGCGGCAACCTATACAAG 60.135 52.381 3.44 0.00 0.00 3.16
1174 1337 1.543614 CTCAGAGCGACGTCTTCATG 58.456 55.000 14.70 7.60 0.00 3.07
1175 1338 1.131315 CTCAGAGCGACGTCTTCATGA 59.869 52.381 14.70 11.36 0.00 3.07
1187 1350 2.045524 TCTTCATGATCCTGAGAGGGC 58.954 52.381 0.00 0.00 35.59 5.19
1206 1369 1.290203 CACTGGTCGTGATGTATGGC 58.710 55.000 0.00 0.00 46.81 4.40
1211 1380 1.053048 GTCGTGATGTATGGCGATCG 58.947 55.000 11.69 11.69 35.78 3.69
1214 1383 1.599419 CGTGATGTATGGCGATCGACA 60.599 52.381 28.59 28.59 37.65 4.35
1217 1386 2.558359 TGATGTATGGCGATCGACATCT 59.442 45.455 38.31 24.01 40.34 2.90
1219 1388 4.399303 TGATGTATGGCGATCGACATCTAT 59.601 41.667 38.31 30.38 40.34 1.98
1220 1389 5.588648 TGATGTATGGCGATCGACATCTATA 59.411 40.000 38.31 21.42 40.34 1.31
1234 1403 6.072452 TCGACATCTATACTACCTGAATGCTG 60.072 42.308 0.00 0.00 0.00 4.41
1235 1404 6.294231 CGACATCTATACTACCTGAATGCTGT 60.294 42.308 0.00 0.00 0.00 4.40
1236 1405 7.366847 ACATCTATACTACCTGAATGCTGTT 57.633 36.000 0.00 0.00 0.00 3.16
1241 1410 4.307032 ACTACCTGAATGCTGTTCCATT 57.693 40.909 0.94 0.00 38.09 3.16
1244 1413 4.961438 ACCTGAATGCTGTTCCATTTTT 57.039 36.364 0.94 0.00 35.67 1.94
1248 1417 5.935789 CCTGAATGCTGTTCCATTTTTGATT 59.064 36.000 0.94 0.00 35.67 2.57
1251 1420 6.427547 TGAATGCTGTTCCATTTTTGATTTCC 59.572 34.615 0.94 0.00 35.67 3.13
1263 1432 3.931907 TTGATTTCCGATGATGGTCCT 57.068 42.857 0.00 0.00 0.00 3.85
1307 1476 2.186903 GCCGATCGATGGTGGTGT 59.813 61.111 18.66 0.00 0.00 4.16
1321 1490 2.668212 GTGTAGCACCGGCAGCAA 60.668 61.111 20.11 4.20 44.61 3.91
1356 1525 1.835693 GGATCCTCTTGCTCCCAGG 59.164 63.158 3.84 0.00 0.00 4.45
1357 1526 1.704007 GGATCCTCTTGCTCCCAGGG 61.704 65.000 3.84 0.00 0.00 4.45
1358 1527 0.692419 GATCCTCTTGCTCCCAGGGA 60.692 60.000 8.35 8.35 0.00 4.20
1394 1563 0.118346 ACCATACAGGGACCTCCACA 59.882 55.000 0.00 0.00 43.89 4.17
1437 1606 2.833794 TCGATTTCGGATGATGGTTCC 58.166 47.619 0.00 0.00 40.29 3.62
1438 1607 2.434336 TCGATTTCGGATGATGGTTCCT 59.566 45.455 0.00 0.00 40.29 3.36
1439 1608 2.802816 CGATTTCGGATGATGGTTCCTC 59.197 50.000 0.00 0.00 35.37 3.71
1440 1609 3.493350 CGATTTCGGATGATGGTTCCTCT 60.493 47.826 0.00 0.00 35.37 3.69
1441 1610 3.543680 TTTCGGATGATGGTTCCTCTC 57.456 47.619 0.00 0.00 0.00 3.20
1442 1611 1.414158 TCGGATGATGGTTCCTCTCC 58.586 55.000 0.00 0.00 0.00 3.71
1443 1612 0.394565 CGGATGATGGTTCCTCTCCC 59.605 60.000 0.00 0.00 0.00 4.30
1444 1613 1.813102 GGATGATGGTTCCTCTCCCT 58.187 55.000 0.00 0.00 0.00 4.20
1445 1614 1.696884 GGATGATGGTTCCTCTCCCTC 59.303 57.143 0.00 0.00 0.00 4.30
1446 1615 1.696884 GATGATGGTTCCTCTCCCTCC 59.303 57.143 0.00 0.00 0.00 4.30
1447 1616 0.687757 TGATGGTTCCTCTCCCTCCG 60.688 60.000 0.00 0.00 0.00 4.63
1448 1617 0.688087 GATGGTTCCTCTCCCTCCGT 60.688 60.000 0.00 0.00 0.00 4.69
1449 1618 0.635009 ATGGTTCCTCTCCCTCCGTA 59.365 55.000 0.00 0.00 0.00 4.02
1450 1619 0.410663 TGGTTCCTCTCCCTCCGTAA 59.589 55.000 0.00 0.00 0.00 3.18
1451 1620 1.203212 TGGTTCCTCTCCCTCCGTAAA 60.203 52.381 0.00 0.00 0.00 2.01
1452 1621 1.206610 GGTTCCTCTCCCTCCGTAAAC 59.793 57.143 0.00 0.00 0.00 2.01
1453 1622 1.897802 GTTCCTCTCCCTCCGTAAACA 59.102 52.381 0.00 0.00 0.00 2.83
1454 1623 1.553706 TCCTCTCCCTCCGTAAACAC 58.446 55.000 0.00 0.00 0.00 3.32
1455 1624 1.203087 TCCTCTCCCTCCGTAAACACA 60.203 52.381 0.00 0.00 0.00 3.72
1456 1625 1.621814 CCTCTCCCTCCGTAAACACAA 59.378 52.381 0.00 0.00 0.00 3.33
1457 1626 2.612221 CCTCTCCCTCCGTAAACACAAC 60.612 54.545 0.00 0.00 0.00 3.32
1458 1627 2.299297 CTCTCCCTCCGTAAACACAACT 59.701 50.000 0.00 0.00 0.00 3.16
1459 1628 2.701951 TCTCCCTCCGTAAACACAACTT 59.298 45.455 0.00 0.00 0.00 2.66
1460 1629 3.064931 CTCCCTCCGTAAACACAACTTC 58.935 50.000 0.00 0.00 0.00 3.01
1461 1630 1.796459 CCCTCCGTAAACACAACTTCG 59.204 52.381 0.00 0.00 0.00 3.79
1462 1631 1.796459 CCTCCGTAAACACAACTTCGG 59.204 52.381 0.00 0.00 39.40 4.30
1463 1632 2.546373 CCTCCGTAAACACAACTTCGGA 60.546 50.000 0.00 0.00 43.52 4.55
1464 1633 3.323243 CTCCGTAAACACAACTTCGGAT 58.677 45.455 4.65 0.00 44.39 4.18
1465 1634 3.061322 TCCGTAAACACAACTTCGGATG 58.939 45.455 0.00 0.00 41.45 3.51
1466 1635 3.061322 CCGTAAACACAACTTCGGATGA 58.939 45.455 0.00 0.00 40.29 2.92
1467 1636 3.682858 CCGTAAACACAACTTCGGATGAT 59.317 43.478 0.00 0.00 40.29 2.45
1468 1637 4.435518 CCGTAAACACAACTTCGGATGATG 60.436 45.833 0.00 0.00 40.29 3.07
1469 1638 4.435518 CGTAAACACAACTTCGGATGATGG 60.436 45.833 6.20 0.00 0.00 3.51
1470 1639 2.859165 ACACAACTTCGGATGATGGT 57.141 45.000 6.20 0.00 0.00 3.55
1471 1640 3.140325 ACACAACTTCGGATGATGGTT 57.860 42.857 6.20 0.00 0.00 3.67
1472 1641 3.486383 ACACAACTTCGGATGATGGTTT 58.514 40.909 6.20 0.00 0.00 3.27
1484 1653 1.196012 GATGGTTTCTCTCCCTCCGT 58.804 55.000 0.00 0.00 0.00 4.69
1485 1654 2.291996 TGATGGTTTCTCTCCCTCCGTA 60.292 50.000 0.00 0.00 0.00 4.02
1563 1732 0.831288 CTCCGGATCCTCATGCTCCT 60.831 60.000 3.57 0.00 0.00 3.69
1590 1759 6.697641 ACCCTGGAGACTGTTAGAATAAAA 57.302 37.500 0.00 0.00 0.00 1.52
1623 1792 2.676750 CGTTGATCATCCGAGGACCAAA 60.677 50.000 9.08 0.00 0.00 3.28
1633 1802 1.535462 CGAGGACCAAACAATCACACC 59.465 52.381 0.00 0.00 0.00 4.16
1776 1946 3.761690 ATACCGCCGGCTTCCCCTA 62.762 63.158 26.68 4.51 0.00 3.53
1782 1952 2.356780 CCGGCTTCCCCTACGTTCT 61.357 63.158 0.00 0.00 0.00 3.01
1814 1984 4.739587 TGTTGGCATAGGTTACATCGTA 57.260 40.909 0.00 0.00 0.00 3.43
1845 2015 4.411927 CCCGCTATATATGAGAGGCCTAT 58.588 47.826 4.42 0.00 32.89 2.57
1857 2027 4.716784 TGAGAGGCCTATGATACAAGTGTT 59.283 41.667 3.53 0.00 0.00 3.32
1922 2094 3.986277 ACAAGTCCAACTGTAACCTACG 58.014 45.455 0.00 0.00 0.00 3.51
1923 2095 2.735134 CAAGTCCAACTGTAACCTACGC 59.265 50.000 0.00 0.00 0.00 4.42
1941 2113 3.870007 ACGCTGTACACTATATTCGACG 58.130 45.455 0.00 0.00 0.00 5.12
1965 2137 1.338020 CTCCAACAAACTCCACCTTGC 59.662 52.381 0.00 0.00 0.00 4.01
1990 2162 5.237344 CGAATATTCTCCACCACCTTGAATC 59.763 44.000 13.45 0.00 0.00 2.52
2034 2206 7.888021 TCCATGTACATTGGACTTGAGTTTATT 59.112 33.333 17.79 0.00 0.00 1.40
2037 2209 5.880054 ACATTGGACTTGAGTTTATTCCG 57.120 39.130 0.00 0.00 0.00 4.30
2044 2216 6.070995 TGGACTTGAGTTTATTCCGTGAGTAT 60.071 38.462 0.00 0.00 0.00 2.12
2141 2313 7.555965 ACACTCAAGCAAAATTAAGTTCCTTT 58.444 30.769 0.00 0.00 0.00 3.11
2203 2376 1.369091 GCCATCACACACCGATCACC 61.369 60.000 0.00 0.00 0.00 4.02
2289 2464 0.398318 ACCGCTCCTTTCTTTCTGCT 59.602 50.000 0.00 0.00 0.00 4.24
2345 2520 3.981071 AGTCATCCCGAGTCAAATTCA 57.019 42.857 0.00 0.00 0.00 2.57
2373 2548 4.467438 TGTCTCATCACATGTATGACCACT 59.533 41.667 0.00 0.00 30.38 4.00
2377 2552 6.607198 TCTCATCACATGTATGACCACTAGAA 59.393 38.462 0.00 0.00 30.38 2.10
2454 2629 4.021925 GCCTCTGCTGTCCCGGTT 62.022 66.667 0.00 0.00 33.53 4.44
2627 2812 2.710760 GACTCTCTGTCGACTTATGCG 58.289 52.381 17.92 3.66 35.81 4.73
2647 2832 0.253044 GTAGCCCCTCAATCAGCACA 59.747 55.000 0.00 0.00 0.00 4.57
2650 2835 0.322816 GCCCCTCAATCAGCACAGAA 60.323 55.000 0.00 0.00 0.00 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
164 166 4.037446 TGGTACCATGTGCTTTCTGTTTTC 59.963 41.667 11.60 0.00 0.00 2.29
391 399 0.604243 TTGTGTGGTGTACATCCCGC 60.604 55.000 3.07 6.39 42.24 6.13
452 460 1.547675 GGTGGTGTGTGTGGATTCCAT 60.548 52.381 9.01 0.00 35.28 3.41
664 809 1.992277 CAGTGGTGGAGGAGGAGGG 60.992 68.421 0.00 0.00 0.00 4.30
670 815 0.036732 GTTGATGCAGTGGTGGAGGA 59.963 55.000 0.00 0.00 0.00 3.71
777 922 2.033141 CAGAGTGGGTGTGGCCAG 59.967 66.667 5.11 0.00 39.65 4.85
827 972 3.092301 TGGATGAGTCAGTCGATTCAGT 58.908 45.455 0.00 0.00 40.75 3.41
934 1079 2.969238 CGCTGGATCCGCATGGTC 60.969 66.667 22.50 1.79 36.30 4.02
994 1139 2.795360 TGGTCACCCTATCCATCTCCTA 59.205 50.000 0.00 0.00 0.00 2.94
1005 1150 2.907696 TCCGAAGAAATTGGTCACCCTA 59.092 45.455 0.00 0.00 33.77 3.53
1031 1176 2.592574 TCGTCGTCGTGTCCCACT 60.593 61.111 1.33 0.00 38.33 4.00
1033 1178 4.016629 CGTCGTCGTCGTGTCCCA 62.017 66.667 3.67 0.00 38.33 4.37
1083 1246 1.341209 CAGAACCTGGGCAAAAGGAAC 59.659 52.381 7.08 1.64 38.27 3.62
1174 1337 0.980231 ACCAGTGCCCTCTCAGGATC 60.980 60.000 0.00 0.00 37.67 3.36
1175 1338 0.980231 GACCAGTGCCCTCTCAGGAT 60.980 60.000 0.00 0.00 37.67 3.24
1206 1369 6.723131 TTCAGGTAGTATAGATGTCGATCG 57.277 41.667 9.36 9.36 33.34 3.69
1211 1380 6.987386 ACAGCATTCAGGTAGTATAGATGTC 58.013 40.000 0.00 0.00 0.00 3.06
1214 1383 6.554982 TGGAACAGCATTCAGGTAGTATAGAT 59.445 38.462 3.46 0.00 0.00 1.98
1234 1403 6.256321 CCATCATCGGAAATCAAAAATGGAAC 59.744 38.462 0.00 0.00 34.40 3.62
1235 1404 6.070881 ACCATCATCGGAAATCAAAAATGGAA 60.071 34.615 4.67 0.00 35.73 3.53
1236 1405 5.421693 ACCATCATCGGAAATCAAAAATGGA 59.578 36.000 4.67 0.00 35.73 3.41
1241 1410 4.599041 AGGACCATCATCGGAAATCAAAA 58.401 39.130 0.00 0.00 0.00 2.44
1244 1413 3.455910 AGAAGGACCATCATCGGAAATCA 59.544 43.478 0.00 0.00 0.00 2.57
1248 1417 1.762957 GGAGAAGGACCATCATCGGAA 59.237 52.381 0.00 0.00 0.00 4.30
1251 1420 0.394565 GGGGAGAAGGACCATCATCG 59.605 60.000 0.00 0.00 0.00 3.84
1293 1462 1.571919 GTGCTACACCACCATCGATC 58.428 55.000 0.00 0.00 0.00 3.69
1307 1476 1.822114 TAGTGTTGCTGCCGGTGCTA 61.822 55.000 19.25 11.29 38.71 3.49
1321 1490 2.701780 CCGGAGAGCGTGCTAGTGT 61.702 63.158 0.00 0.00 0.00 3.55
1437 1606 2.299297 AGTTGTGTTTACGGAGGGAGAG 59.701 50.000 0.00 0.00 0.00 3.20
1438 1607 2.322658 AGTTGTGTTTACGGAGGGAGA 58.677 47.619 0.00 0.00 0.00 3.71
1439 1608 2.833631 AGTTGTGTTTACGGAGGGAG 57.166 50.000 0.00 0.00 0.00 4.30
1440 1609 2.546373 CGAAGTTGTGTTTACGGAGGGA 60.546 50.000 0.00 0.00 0.00 4.20
1441 1610 1.796459 CGAAGTTGTGTTTACGGAGGG 59.204 52.381 0.00 0.00 0.00 4.30
1442 1611 1.796459 CCGAAGTTGTGTTTACGGAGG 59.204 52.381 0.00 0.00 42.40 4.30
1443 1612 2.746269 TCCGAAGTTGTGTTTACGGAG 58.254 47.619 0.00 0.00 43.30 4.63
1444 1613 2.886862 TCCGAAGTTGTGTTTACGGA 57.113 45.000 0.00 0.00 45.36 4.69
1445 1614 3.061322 TCATCCGAAGTTGTGTTTACGG 58.939 45.455 0.00 0.00 41.39 4.02
1446 1615 4.435518 CCATCATCCGAAGTTGTGTTTACG 60.436 45.833 0.00 0.00 0.00 3.18
1447 1616 4.454504 ACCATCATCCGAAGTTGTGTTTAC 59.545 41.667 0.00 0.00 0.00 2.01
1448 1617 4.647611 ACCATCATCCGAAGTTGTGTTTA 58.352 39.130 0.00 0.00 0.00 2.01
1449 1618 3.486383 ACCATCATCCGAAGTTGTGTTT 58.514 40.909 0.00 0.00 0.00 2.83
1450 1619 3.140325 ACCATCATCCGAAGTTGTGTT 57.860 42.857 0.00 0.00 0.00 3.32
1451 1620 2.859165 ACCATCATCCGAAGTTGTGT 57.141 45.000 0.00 0.00 0.00 3.72
1452 1621 3.753272 AGAAACCATCATCCGAAGTTGTG 59.247 43.478 0.00 0.00 0.00 3.33
1453 1622 4.003648 GAGAAACCATCATCCGAAGTTGT 58.996 43.478 0.00 0.00 0.00 3.32
1454 1623 4.256920 AGAGAAACCATCATCCGAAGTTG 58.743 43.478 0.00 0.00 0.00 3.16
1455 1624 4.508662 GAGAGAAACCATCATCCGAAGTT 58.491 43.478 0.00 0.00 0.00 2.66
1456 1625 3.118592 GGAGAGAAACCATCATCCGAAGT 60.119 47.826 0.00 0.00 0.00 3.01
1457 1626 3.462021 GGAGAGAAACCATCATCCGAAG 58.538 50.000 0.00 0.00 0.00 3.79
1458 1627 2.170607 GGGAGAGAAACCATCATCCGAA 59.829 50.000 0.00 0.00 37.16 4.30
1459 1628 1.762957 GGGAGAGAAACCATCATCCGA 59.237 52.381 0.00 0.00 37.16 4.55
1460 1629 1.765314 AGGGAGAGAAACCATCATCCG 59.235 52.381 0.00 0.00 37.16 4.18
1461 1630 2.105649 GGAGGGAGAGAAACCATCATCC 59.894 54.545 0.00 0.00 39.56 3.51
1462 1631 2.224161 CGGAGGGAGAGAAACCATCATC 60.224 54.545 0.00 0.00 39.56 2.92
1463 1632 1.765314 CGGAGGGAGAGAAACCATCAT 59.235 52.381 0.00 0.00 39.56 2.45
1464 1633 1.195115 CGGAGGGAGAGAAACCATCA 58.805 55.000 0.00 0.00 39.56 3.07
1465 1634 1.196012 ACGGAGGGAGAGAAACCATC 58.804 55.000 0.00 0.00 37.47 3.51
1466 1635 2.544844 TACGGAGGGAGAGAAACCAT 57.455 50.000 0.00 0.00 0.00 3.55
1467 1636 2.301009 GTTTACGGAGGGAGAGAAACCA 59.699 50.000 0.00 0.00 0.00 3.67
1468 1637 2.301009 TGTTTACGGAGGGAGAGAAACC 59.699 50.000 0.00 0.00 0.00 3.27
1469 1638 3.243975 TGTGTTTACGGAGGGAGAGAAAC 60.244 47.826 0.00 0.00 0.00 2.78
1470 1639 2.967201 TGTGTTTACGGAGGGAGAGAAA 59.033 45.455 0.00 0.00 0.00 2.52
1471 1640 2.600790 TGTGTTTACGGAGGGAGAGAA 58.399 47.619 0.00 0.00 0.00 2.87
1472 1641 2.297698 TGTGTTTACGGAGGGAGAGA 57.702 50.000 0.00 0.00 0.00 3.10
1484 1653 0.940519 CGGCGTCGAGGTTGTGTTTA 60.941 55.000 1.44 0.00 39.00 2.01
1485 1654 2.241880 CGGCGTCGAGGTTGTGTTT 61.242 57.895 1.44 0.00 39.00 2.83
1531 1700 4.363990 CGGAGAGCGTGCTGGTGT 62.364 66.667 0.00 0.00 0.00 4.16
1563 1732 5.525454 TTCTAACAGTCTCCAGGGTACTA 57.475 43.478 0.00 0.00 0.00 1.82
1590 1759 0.104304 GATCAACGGTATGCCTCGGT 59.896 55.000 0.00 0.00 0.00 4.69
1623 1792 0.179059 TGTCGTGCTGGTGTGATTGT 60.179 50.000 0.00 0.00 0.00 2.71
1633 1802 1.002900 ACAAATTTCGGTGTCGTGCTG 60.003 47.619 0.00 0.00 37.69 4.41
1776 1946 3.938963 CCAACATAATAGCACCAGAACGT 59.061 43.478 0.00 0.00 0.00 3.99
1782 1952 4.141274 ACCTATGCCAACATAATAGCACCA 60.141 41.667 0.00 0.00 38.29 4.17
1814 1984 4.804597 TCATATATAGCGGGGCTAGACAT 58.195 43.478 0.00 0.00 44.66 3.06
1845 2015 6.128090 CGTGTCCTAGTAGAACACTTGTATCA 60.128 42.308 16.51 0.00 40.84 2.15
1922 2094 3.624900 TGCGTCGAATATAGTGTACAGC 58.375 45.455 0.00 0.00 0.00 4.40
1923 2095 5.271625 AGTTGCGTCGAATATAGTGTACAG 58.728 41.667 0.00 0.00 0.00 2.74
1941 2113 1.067060 GGTGGAGTTTGTTGGAGTTGC 59.933 52.381 0.00 0.00 0.00 4.17
1965 2137 3.118408 TCAAGGTGGTGGAGAATATTCGG 60.118 47.826 9.78 0.00 0.00 4.30
1990 2162 1.399727 GGAAGTTTGACGCATTGACGG 60.400 52.381 5.68 0.00 37.37 4.79
2034 2206 0.661552 GTAGCAGCGATACTCACGGA 59.338 55.000 0.00 0.00 0.00 4.69
2044 2216 1.202582 GAGTCTTTGGAGTAGCAGCGA 59.797 52.381 0.00 0.00 0.00 4.93
2141 2313 4.967084 TGGGAGCACAAACTAGAGTAAA 57.033 40.909 0.00 0.00 0.00 2.01
2289 2464 7.257722 GTGAAATTCCTTCAAGTTTCAGACAA 58.742 34.615 2.66 0.00 45.67 3.18
2345 2520 5.871524 GTCATACATGTGATGAGACAACTGT 59.128 40.000 9.11 0.00 34.02 3.55
2373 2548 1.684734 GAGACGGGCCAGGGTTCTA 60.685 63.158 8.08 0.00 0.00 2.10
2377 2552 4.741239 ATGGAGACGGGCCAGGGT 62.741 66.667 8.08 0.00 39.11 4.34
2454 2629 0.756294 TTTGCGACCCTTGAGACTCA 59.244 50.000 0.00 0.00 0.00 3.41
2627 2812 0.464554 GTGCTGATTGAGGGGCTACC 60.465 60.000 0.00 0.00 40.67 3.18


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

AutoCloner maintained by Alex Coulton.