Multiple sequence alignment - TraesCS3A01G261600

Loading Multiple Alignment...

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 TraesCS3A01G261600 chr3A 100.000 2288 0 0 1 2288 484633127 484635414 0.000000e+00 4226.0
1 TraesCS3A01G261600 chr3B 91.636 1638 102 21 658 2282 473691231 473692846 0.000000e+00 2233.0
2 TraesCS3A01G261600 chr3B 92.466 438 23 3 1 437 473690570 473690998 3.230000e-173 617.0
3 TraesCS3A01G261600 chr3B 85.263 190 5 9 491 660 473691010 473691196 8.400000e-40 174.0
4 TraesCS3A01G261600 chr3D 92.736 826 49 5 1465 2288 363594310 363595126 0.000000e+00 1182.0
5 TraesCS3A01G261600 chr3D 90.808 631 40 9 751 1376 363593460 363594077 0.000000e+00 828.0
6 TraesCS3A01G261600 chr3D 95.335 343 14 2 60 400 363592933 363593275 5.560000e-151 544.0
7 TraesCS3A01G261600 chr2B 100.000 29 0 0 2239 2267 765296309 765296337 1.000000e-03 54.7


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 TraesCS3A01G261600 chr3A 484633127 484635414 2287 False 4226.000000 4226 100.000000 1 2288 1 chr3A.!!$F1 2287
1 TraesCS3A01G261600 chr3B 473690570 473692846 2276 False 1008.000000 2233 89.788333 1 2282 3 chr3B.!!$F1 2281
2 TraesCS3A01G261600 chr3D 363592933 363595126 2193 False 851.333333 1182 92.959667 60 2288 3 chr3D.!!$F1 2228

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
479 482 0.041312 AATGTGAACTTGCGACGCAC 60.041 50.0 24.42 11.81 38.71 5.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1866 2102 0.034059 AGGGCAAAGAGACACGTCAG 59.966 55.0 0.0 0.0 0.0 3.51 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
72 73 2.765969 CCTGTGGAATGGCCCTGT 59.234 61.111 0.00 0.00 34.97 4.00
266 267 1.213926 AGGAAAGGATAGCTTGGCCTG 59.786 52.381 3.32 0.00 31.06 4.85
303 305 0.472898 GAGGGAGGGGAATAAACGGG 59.527 60.000 0.00 0.00 0.00 5.28
419 422 1.926511 GCCGGAACTGCACCTTGATG 61.927 60.000 5.05 0.00 38.81 3.07
420 423 1.503542 CGGAACTGCACCTTGATGC 59.496 57.895 0.00 0.00 46.32 3.91
426 429 0.803117 CTGCACCTTGATGCTCTGTG 59.197 55.000 0.00 0.00 46.28 3.66
437 440 3.692593 TGATGCTCTGTGAACATCAATGG 59.307 43.478 10.14 0.00 45.27 3.16
439 442 1.747355 GCTCTGTGAACATCAATGGGG 59.253 52.381 0.00 0.00 0.00 4.96
440 443 2.881403 GCTCTGTGAACATCAATGGGGT 60.881 50.000 0.00 0.00 0.00 4.95
441 444 3.424703 CTCTGTGAACATCAATGGGGTT 58.575 45.455 0.00 0.00 0.00 4.11
442 445 3.420893 TCTGTGAACATCAATGGGGTTC 58.579 45.455 9.78 9.78 40.91 3.62
443 446 3.074390 TCTGTGAACATCAATGGGGTTCT 59.926 43.478 15.14 0.00 41.07 3.01
445 448 3.181435 TGTGAACATCAATGGGGTTCTGA 60.181 43.478 15.14 3.82 41.07 3.27
446 449 3.191371 GTGAACATCAATGGGGTTCTGAC 59.809 47.826 15.14 6.26 41.07 3.51
447 450 2.514458 ACATCAATGGGGTTCTGACC 57.486 50.000 0.00 0.00 45.75 4.02
455 458 3.932289 GGTTCTGACCGTGACACG 58.068 61.111 21.02 21.02 42.11 4.49
456 459 2.308039 GGTTCTGACCGTGACACGC 61.308 63.158 22.46 10.38 40.91 5.34
457 460 1.590525 GTTCTGACCGTGACACGCA 60.591 57.895 22.46 14.41 40.91 5.24
458 461 0.944311 GTTCTGACCGTGACACGCAT 60.944 55.000 22.46 12.37 40.91 4.73
459 462 0.666274 TTCTGACCGTGACACGCATC 60.666 55.000 22.46 20.12 40.91 3.91
460 463 1.372872 CTGACCGTGACACGCATCA 60.373 57.895 22.46 23.11 40.91 3.07
461 464 0.943835 CTGACCGTGACACGCATCAA 60.944 55.000 24.47 13.98 40.91 2.57
462 465 0.320334 TGACCGTGACACGCATCAAT 60.320 50.000 22.46 2.90 40.91 2.57
463 466 0.095245 GACCGTGACACGCATCAATG 59.905 55.000 22.46 9.34 40.91 2.82
464 467 0.602638 ACCGTGACACGCATCAATGT 60.603 50.000 22.46 9.99 40.91 2.71
465 468 0.179217 CCGTGACACGCATCAATGTG 60.179 55.000 22.46 1.61 40.91 3.21
466 469 0.789601 CGTGACACGCATCAATGTGA 59.210 50.000 16.06 0.00 40.61 3.58
467 470 1.194322 CGTGACACGCATCAATGTGAA 59.806 47.619 16.06 0.00 40.61 3.18
468 471 2.574322 GTGACACGCATCAATGTGAAC 58.426 47.619 10.35 2.59 40.61 3.18
469 472 2.224079 GTGACACGCATCAATGTGAACT 59.776 45.455 10.35 0.00 40.61 3.01
470 473 2.877786 TGACACGCATCAATGTGAACTT 59.122 40.909 10.35 0.00 40.61 2.66
471 474 3.228749 GACACGCATCAATGTGAACTTG 58.771 45.455 10.35 1.25 40.61 3.16
472 475 1.980844 CACGCATCAATGTGAACTTGC 59.019 47.619 10.35 0.00 40.61 4.01
473 476 1.253116 CGCATCAATGTGAACTTGCG 58.747 50.000 9.49 9.49 43.67 4.85
474 477 2.617250 GCATCAATGTGAACTTGCGA 57.383 45.000 0.00 0.00 0.00 5.10
475 478 2.245096 GCATCAATGTGAACTTGCGAC 58.755 47.619 0.00 0.00 0.00 5.19
476 479 2.498905 CATCAATGTGAACTTGCGACG 58.501 47.619 0.00 0.00 0.00 5.12
477 480 0.234625 TCAATGTGAACTTGCGACGC 59.765 50.000 14.19 14.19 0.00 5.19
478 481 0.041400 CAATGTGAACTTGCGACGCA 60.041 50.000 20.50 20.50 36.47 5.24
479 482 0.041312 AATGTGAACTTGCGACGCAC 60.041 50.000 24.42 11.81 38.71 5.34
480 483 1.841663 ATGTGAACTTGCGACGCACC 61.842 55.000 24.42 12.42 38.71 5.01
481 484 2.970324 TGAACTTGCGACGCACCC 60.970 61.111 24.42 12.06 38.71 4.61
482 485 3.723348 GAACTTGCGACGCACCCC 61.723 66.667 24.42 8.44 38.71 4.95
483 486 4.555709 AACTTGCGACGCACCCCA 62.556 61.111 24.42 6.93 38.71 4.96
484 487 4.988598 ACTTGCGACGCACCCCAG 62.989 66.667 24.42 19.36 38.71 4.45
517 520 0.889306 GCCGTCTCCTACTCAAGTGT 59.111 55.000 0.00 0.00 0.00 3.55
572 575 4.201628 CGTCTTTCTTACTCCGCATTTCTG 60.202 45.833 0.00 0.00 0.00 3.02
577 580 0.459585 TACTCCGCATTTCTGACGGC 60.460 55.000 0.00 0.00 39.99 5.68
582 585 2.103042 GCATTTCTGACGGCGCTCT 61.103 57.895 6.90 0.00 0.00 4.09
583 586 2.002127 CATTTCTGACGGCGCTCTC 58.998 57.895 6.90 2.22 0.00 3.20
584 587 1.517257 ATTTCTGACGGCGCTCTCG 60.517 57.895 6.90 4.93 39.07 4.04
585 588 2.214181 ATTTCTGACGGCGCTCTCGT 62.214 55.000 6.90 8.96 44.03 4.18
639 660 1.472026 GCCATTTCGCCATTGCTCAAT 60.472 47.619 0.00 0.00 34.43 2.57
662 724 5.659463 TGTTGGAAAATCTGTTCAACAAGG 58.341 37.500 0.00 0.00 31.57 3.61
741 803 2.227388 CAGCAAACCTTGGACATGTCTC 59.773 50.000 24.50 15.19 0.00 3.36
746 808 1.899814 ACCTTGGACATGTCTCGCTAA 59.100 47.619 24.50 11.44 0.00 3.09
799 861 3.123620 CTGAAGCAGTGCCGGAGC 61.124 66.667 12.58 2.48 40.48 4.70
864 927 2.155539 CCGTGCAATGCAAAAGCTTTAC 59.844 45.455 10.44 8.62 41.47 2.01
881 945 2.443887 TACGAAGTTTTAGCGGCACT 57.556 45.000 1.45 0.00 37.78 4.40
970 1034 1.338020 CTCTTGTGCTCCCAAAACCAC 59.662 52.381 0.00 0.00 0.00 4.16
971 1035 0.389025 CTTGTGCTCCCAAAACCACC 59.611 55.000 0.00 0.00 0.00 4.61
972 1036 0.324738 TTGTGCTCCCAAAACCACCA 60.325 50.000 0.00 0.00 0.00 4.17
973 1037 0.754957 TGTGCTCCCAAAACCACCAG 60.755 55.000 0.00 0.00 0.00 4.00
974 1038 0.467290 GTGCTCCCAAAACCACCAGA 60.467 55.000 0.00 0.00 0.00 3.86
975 1039 0.467290 TGCTCCCAAAACCACCAGAC 60.467 55.000 0.00 0.00 0.00 3.51
976 1040 0.467290 GCTCCCAAAACCACCAGACA 60.467 55.000 0.00 0.00 0.00 3.41
977 1041 1.609208 CTCCCAAAACCACCAGACAG 58.391 55.000 0.00 0.00 0.00 3.51
978 1042 1.142870 CTCCCAAAACCACCAGACAGA 59.857 52.381 0.00 0.00 0.00 3.41
979 1043 1.142870 TCCCAAAACCACCAGACAGAG 59.857 52.381 0.00 0.00 0.00 3.35
980 1044 1.133792 CCCAAAACCACCAGACAGAGT 60.134 52.381 0.00 0.00 0.00 3.24
981 1045 2.105821 CCCAAAACCACCAGACAGAGTA 59.894 50.000 0.00 0.00 0.00 2.59
982 1046 3.434453 CCCAAAACCACCAGACAGAGTAA 60.434 47.826 0.00 0.00 0.00 2.24
983 1047 4.398319 CCAAAACCACCAGACAGAGTAAT 58.602 43.478 0.00 0.00 0.00 1.89
985 1049 3.983044 AACCACCAGACAGAGTAATCC 57.017 47.619 0.00 0.00 0.00 3.01
986 1050 3.191888 ACCACCAGACAGAGTAATCCT 57.808 47.619 0.00 0.00 0.00 3.24
1012 1080 1.679977 GAAGCCATGAAGCCCTGCA 60.680 57.895 0.00 0.00 0.00 4.41
1363 1434 2.204461 TTCGTCTTGGCCGTCTCCA 61.204 57.895 0.00 0.00 0.00 3.86
1404 1524 2.026641 AGCAGTGCTTTGTGTGTCATT 58.973 42.857 13.14 0.00 33.89 2.57
1419 1539 2.273557 GTCATTGCCATCAAATGTGCC 58.726 47.619 0.00 0.00 35.56 5.01
1427 1547 1.614903 CATCAAATGTGCCTGTGGTGT 59.385 47.619 0.00 0.00 0.00 4.16
1428 1548 1.774110 TCAAATGTGCCTGTGGTGTT 58.226 45.000 0.00 0.00 0.00 3.32
1429 1549 1.408340 TCAAATGTGCCTGTGGTGTTG 59.592 47.619 0.00 0.00 0.00 3.33
1430 1550 1.408340 CAAATGTGCCTGTGGTGTTGA 59.592 47.619 0.00 0.00 0.00 3.18
1431 1551 1.999648 AATGTGCCTGTGGTGTTGAT 58.000 45.000 0.00 0.00 0.00 2.57
1432 1552 1.250328 ATGTGCCTGTGGTGTTGATG 58.750 50.000 0.00 0.00 0.00 3.07
1450 1570 7.269084 GTGTTGATGATCGTGTCTTATTGTTTG 59.731 37.037 0.00 0.00 0.00 2.93
1451 1571 6.421377 TGATGATCGTGTCTTATTGTTTGG 57.579 37.500 0.00 0.00 0.00 3.28
1452 1572 5.937540 TGATGATCGTGTCTTATTGTTTGGT 59.062 36.000 0.00 0.00 0.00 3.67
1453 1573 6.429692 TGATGATCGTGTCTTATTGTTTGGTT 59.570 34.615 0.00 0.00 0.00 3.67
1454 1574 6.627395 TGATCGTGTCTTATTGTTTGGTTT 57.373 33.333 0.00 0.00 0.00 3.27
1479 1705 7.849496 TGTTTGTTTTCAACATATGATTGCAC 58.151 30.769 10.38 8.22 41.79 4.57
1480 1706 7.042187 TGTTTGTTTTCAACATATGATTGCACC 60.042 33.333 10.38 1.37 41.79 5.01
1494 1720 4.218200 TGATTGCACCAACAAGTTATCTGG 59.782 41.667 0.00 0.00 31.96 3.86
1499 1725 4.323417 CACCAACAAGTTATCTGGCACTA 58.677 43.478 0.00 0.00 31.74 2.74
1542 1769 2.907910 ACGAAATGAAGTGCTCATGC 57.092 45.000 0.00 0.00 44.43 4.06
1544 1771 3.599343 ACGAAATGAAGTGCTCATGCTA 58.401 40.909 0.00 0.00 44.43 3.49
1548 1775 2.680312 TGAAGTGCTCATGCTACTCC 57.320 50.000 0.00 0.00 40.48 3.85
1568 1798 1.871039 CCCTGAAACCAACACTACACG 59.129 52.381 0.00 0.00 0.00 4.49
1621 1857 8.099364 ACATTGTTTACAACCATGTCTTCTAG 57.901 34.615 0.00 0.00 42.15 2.43
1850 2086 0.451783 GGGCGAAATACTTGCTGGTG 59.548 55.000 0.00 0.00 0.00 4.17
1910 2146 2.606213 TCCAGGACCATCACGCCA 60.606 61.111 0.00 0.00 0.00 5.69
1932 2168 0.318445 GCTGTACACGTCGGACTTGT 60.318 55.000 21.62 21.62 34.78 3.16
1943 2179 1.012486 CGGACTTGTTAGTGACCGGC 61.012 60.000 0.00 0.00 37.84 6.13
2039 2275 2.151202 AGGTTTGCTACACCAACATCG 58.849 47.619 2.88 0.00 36.67 3.84
2123 2359 1.447140 GTTAGCACCGTCATCGCCA 60.447 57.895 0.00 0.00 35.54 5.69
2207 2443 2.554893 CCATAGCGAGTAGTTCTCCTCC 59.445 54.545 0.00 0.00 39.84 4.30
2249 2485 0.548031 CATAGCTTTCCAGGGAGCCA 59.452 55.000 11.01 0.21 39.71 4.75
2282 2518 2.417239 CTCGTATATCAGAGCCCTCGTC 59.583 54.545 0.00 0.00 34.09 4.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 4.344865 GGAGGGAAAGGTGCGCCA 62.345 66.667 20.59 0.00 37.19 5.69
28 29 2.448542 ATCCACCGGATCCTGGGG 60.449 66.667 18.18 18.18 38.09 4.96
266 267 3.495806 CCCTCAATTGCTCATCCTCCTAC 60.496 52.174 0.00 0.00 0.00 3.18
303 305 2.574018 GGAAACCCTTGCCCTGCAC 61.574 63.158 0.00 0.00 38.71 4.57
419 422 1.747355 CCCCATTGATGTTCACAGAGC 59.253 52.381 0.00 0.00 0.00 4.09
420 423 3.077484 ACCCCATTGATGTTCACAGAG 57.923 47.619 0.00 0.00 0.00 3.35
426 429 2.755103 GGTCAGAACCCCATTGATGTTC 59.245 50.000 9.10 9.10 39.93 3.18
437 440 1.663702 CGTGTCACGGTCAGAACCC 60.664 63.158 17.75 0.00 43.21 4.11
439 442 0.944311 ATGCGTGTCACGGTCAGAAC 60.944 55.000 25.70 8.54 42.82 3.01
440 443 0.666274 GATGCGTGTCACGGTCAGAA 60.666 55.000 25.70 0.00 42.82 3.02
441 444 1.080772 GATGCGTGTCACGGTCAGA 60.081 57.895 25.70 0.00 42.82 3.27
442 445 0.943835 TTGATGCGTGTCACGGTCAG 60.944 55.000 25.70 0.00 42.82 3.51
443 446 0.320334 ATTGATGCGTGTCACGGTCA 60.320 50.000 25.70 16.52 42.82 4.02
445 448 0.602638 ACATTGATGCGTGTCACGGT 60.603 50.000 25.70 10.96 42.82 4.83
446 449 0.179217 CACATTGATGCGTGTCACGG 60.179 55.000 25.70 10.33 42.82 4.94
447 450 0.789601 TCACATTGATGCGTGTCACG 59.210 50.000 21.02 21.02 45.88 4.35
448 451 2.224079 AGTTCACATTGATGCGTGTCAC 59.776 45.455 0.00 0.00 34.66 3.67
449 452 2.493035 AGTTCACATTGATGCGTGTCA 58.507 42.857 0.00 0.00 34.66 3.58
450 453 3.228749 CAAGTTCACATTGATGCGTGTC 58.771 45.455 0.00 0.00 34.66 3.67
451 454 2.605338 GCAAGTTCACATTGATGCGTGT 60.605 45.455 0.00 0.00 34.66 4.49
452 455 1.980844 GCAAGTTCACATTGATGCGTG 59.019 47.619 0.00 0.00 34.34 5.34
453 456 1.400113 CGCAAGTTCACATTGATGCGT 60.400 47.619 12.32 0.00 43.95 5.24
454 457 1.253116 CGCAAGTTCACATTGATGCG 58.747 50.000 7.90 7.90 43.67 4.73
455 458 2.245096 GTCGCAAGTTCACATTGATGC 58.755 47.619 0.00 0.00 39.48 3.91
456 459 2.498905 CGTCGCAAGTTCACATTGATG 58.501 47.619 0.00 0.00 39.48 3.07
457 460 1.135972 GCGTCGCAAGTTCACATTGAT 60.136 47.619 13.44 0.00 39.48 2.57
458 461 0.234625 GCGTCGCAAGTTCACATTGA 59.765 50.000 13.44 0.00 39.48 2.57
459 462 0.041400 TGCGTCGCAAGTTCACATTG 60.041 50.000 19.38 0.00 34.76 2.82
460 463 0.041312 GTGCGTCGCAAGTTCACATT 60.041 50.000 23.58 0.00 41.47 2.71
461 464 1.569493 GTGCGTCGCAAGTTCACAT 59.431 52.632 23.58 0.00 41.47 3.21
462 465 2.530497 GGTGCGTCGCAAGTTCACA 61.530 57.895 23.58 0.00 41.47 3.58
463 466 2.248431 GGTGCGTCGCAAGTTCAC 59.752 61.111 23.58 8.17 41.47 3.18
464 467 2.970324 GGGTGCGTCGCAAGTTCA 60.970 61.111 23.58 0.00 41.47 3.18
465 468 3.723348 GGGGTGCGTCGCAAGTTC 61.723 66.667 23.58 9.38 41.47 3.01
466 469 4.555709 TGGGGTGCGTCGCAAGTT 62.556 61.111 23.58 0.00 41.47 2.66
467 470 4.988598 CTGGGGTGCGTCGCAAGT 62.989 66.667 23.58 0.00 41.47 3.16
476 479 4.043200 GCAGAAACGCTGGGGTGC 62.043 66.667 0.00 0.00 45.03 5.01
477 480 2.594303 TGCAGAAACGCTGGGGTG 60.594 61.111 0.00 0.00 45.03 4.61
478 481 2.594592 GTGCAGAAACGCTGGGGT 60.595 61.111 0.00 0.00 45.03 4.95
479 482 2.281761 AGTGCAGAAACGCTGGGG 60.282 61.111 0.00 0.00 45.03 4.96
480 483 2.671177 CGAGTGCAGAAACGCTGGG 61.671 63.158 0.00 0.00 45.03 4.45
481 484 2.856032 CGAGTGCAGAAACGCTGG 59.144 61.111 0.00 0.00 45.03 4.85
485 488 3.000080 GACGGCGAGTGCAGAAACG 62.000 63.158 16.62 0.00 45.35 3.60
486 489 1.618640 GAGACGGCGAGTGCAGAAAC 61.619 60.000 16.62 0.00 45.35 2.78
487 490 1.372997 GAGACGGCGAGTGCAGAAA 60.373 57.895 16.62 0.00 45.35 2.52
488 491 2.258591 GAGACGGCGAGTGCAGAA 59.741 61.111 16.62 0.00 45.35 3.02
489 492 2.814913 TAGGAGACGGCGAGTGCAGA 62.815 60.000 16.62 0.00 45.35 4.26
500 503 3.479505 CTCACACTTGAGTAGGAGACG 57.520 52.381 5.70 0.00 43.95 4.18
517 520 0.250295 CCGGGTCACAAAAGCTCTCA 60.250 55.000 0.00 0.00 0.00 3.27
582 585 2.798445 TAAGGAGGCTGCTGGGACGA 62.798 60.000 10.05 0.00 0.00 4.20
583 586 1.690219 ATAAGGAGGCTGCTGGGACG 61.690 60.000 10.05 0.00 0.00 4.79
584 587 0.548510 AATAAGGAGGCTGCTGGGAC 59.451 55.000 10.05 0.00 0.00 4.46
585 588 0.839946 GAATAAGGAGGCTGCTGGGA 59.160 55.000 10.05 0.00 0.00 4.37
587 590 0.548031 TGGAATAAGGAGGCTGCTGG 59.452 55.000 10.05 0.00 0.00 4.85
588 591 1.487976 TCTGGAATAAGGAGGCTGCTG 59.512 52.381 10.05 0.00 0.00 4.41
589 592 1.885049 TCTGGAATAAGGAGGCTGCT 58.115 50.000 1.28 1.28 0.00 4.24
590 593 2.685388 GTTTCTGGAATAAGGAGGCTGC 59.315 50.000 0.00 0.00 0.00 5.25
591 594 3.955471 TGTTTCTGGAATAAGGAGGCTG 58.045 45.455 0.00 0.00 0.00 4.85
639 660 5.659463 CCTTGTTGAACAGATTTTCCAACA 58.341 37.500 0.00 0.00 30.99 3.33
741 803 3.097137 CTGCTGCTGCTGCTTAGCG 62.097 63.158 27.67 10.25 44.01 4.26
783 845 4.704833 GGCTCCGGCACTGCTTCA 62.705 66.667 0.00 0.00 40.87 3.02
799 861 1.479323 CATTCCAATGAGTGCTTGGGG 59.521 52.381 2.16 0.00 42.83 4.96
813 876 3.645660 TGGAGCACGGGCATTCCA 61.646 61.111 16.16 16.16 40.81 3.53
864 927 0.865769 ACAGTGCCGCTAAAACTTCG 59.134 50.000 0.00 0.00 0.00 3.79
881 945 1.202568 CGCCATGCTCTATCTGGAACA 60.203 52.381 0.00 0.00 31.38 3.18
915 979 4.627467 ACTATTTGTAGCAAGAGAACAGCG 59.373 41.667 0.00 0.00 0.00 5.18
970 1034 4.464244 TCAGTGAAGGATTACTCTGTCTGG 59.536 45.833 0.00 0.00 0.00 3.86
971 1035 5.417266 TCTCAGTGAAGGATTACTCTGTCTG 59.583 44.000 0.00 0.00 0.00 3.51
972 1036 5.575157 TCTCAGTGAAGGATTACTCTGTCT 58.425 41.667 0.00 0.00 0.00 3.41
973 1037 5.906113 TCTCAGTGAAGGATTACTCTGTC 57.094 43.478 0.00 0.00 0.00 3.51
974 1038 6.279513 CTTCTCAGTGAAGGATTACTCTGT 57.720 41.667 4.53 0.00 46.25 3.41
986 1050 2.430465 GCTTCATGGCTTCTCAGTGAA 58.570 47.619 0.00 0.00 0.00 3.18
1012 1080 1.585006 CTACGAGGAACAGCACCGT 59.415 57.895 0.00 0.00 37.27 4.83
1220 1291 3.873952 GCTGTTCTGGGAGTTGATGTATC 59.126 47.826 0.00 0.00 0.00 2.24
1404 1524 0.604073 CACAGGCACATTTGATGGCA 59.396 50.000 0.00 0.00 44.76 4.92
1419 1539 2.413112 GACACGATCATCAACACCACAG 59.587 50.000 0.00 0.00 0.00 3.66
1427 1547 6.429692 ACCAAACAATAAGACACGATCATCAA 59.570 34.615 0.00 0.00 0.00 2.57
1428 1548 5.937540 ACCAAACAATAAGACACGATCATCA 59.062 36.000 0.00 0.00 0.00 3.07
1429 1549 6.422776 ACCAAACAATAAGACACGATCATC 57.577 37.500 0.00 0.00 0.00 2.92
1430 1550 6.817765 AACCAAACAATAAGACACGATCAT 57.182 33.333 0.00 0.00 0.00 2.45
1431 1551 6.038825 ACAAACCAAACAATAAGACACGATCA 59.961 34.615 0.00 0.00 0.00 2.92
1432 1552 6.435428 ACAAACCAAACAATAAGACACGATC 58.565 36.000 0.00 0.00 0.00 3.69
1479 1705 5.957842 TTTAGTGCCAGATAACTTGTTGG 57.042 39.130 0.00 0.00 0.00 3.77
1480 1706 6.149633 GGTTTTAGTGCCAGATAACTTGTTG 58.850 40.000 0.00 0.00 0.00 3.33
1542 1769 2.372172 AGTGTTGGTTTCAGGGGAGTAG 59.628 50.000 0.00 0.00 0.00 2.57
1544 1771 1.222567 AGTGTTGGTTTCAGGGGAGT 58.777 50.000 0.00 0.00 0.00 3.85
1548 1775 1.871039 CGTGTAGTGTTGGTTTCAGGG 59.129 52.381 0.00 0.00 0.00 4.45
1568 1798 3.323751 AATGCACCTGCTTTTGGATTC 57.676 42.857 0.00 0.00 42.66 2.52
1621 1857 2.231721 AGAAGAACCTCCTGAAGCGTAC 59.768 50.000 0.00 0.00 0.00 3.67
1655 1891 4.874977 GAGGGTAGCAGCGCGGAC 62.875 72.222 13.03 0.54 0.00 4.79
1726 1962 2.290287 ATAGTCGGGCTGTGGTGCA 61.290 57.895 0.00 0.00 34.04 4.57
1866 2102 0.034059 AGGGCAAAGAGACACGTCAG 59.966 55.000 0.00 0.00 0.00 3.51
1910 2146 1.747709 AGTCCGACGTGTACAGCTAT 58.252 50.000 0.00 0.00 0.00 2.97
1932 2168 0.974010 AGATTCGGGCCGGTCACTAA 60.974 55.000 27.98 12.37 0.00 2.24
1943 2179 1.264749 TGGTGTCCAGGAGATTCGGG 61.265 60.000 0.00 0.00 0.00 5.14
2039 2275 3.265479 AGGAGCTATGCCCAAAGATATCC 59.735 47.826 0.00 0.00 0.00 2.59
2153 2389 2.995466 AACTGTTCGACATTGCCATG 57.005 45.000 0.00 0.00 36.34 3.66
2159 2395 3.181454 ACTGGGAGAAACTGTTCGACATT 60.181 43.478 0.00 0.00 38.90 2.71
2207 2443 0.457443 TCAGCAGCTATGACTCCGTG 59.543 55.000 0.00 0.00 0.00 4.94
2249 2485 5.480422 TCTGATATACGAGTACATGCCCAAT 59.520 40.000 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.