Multiple sequence alignment - TraesCS7A01G344800

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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 TraesCS7A01G344800 chr7A 100.000 2558 0 0 1 2558 506855620 506853063 0.000000e+00 4724.0
1 TraesCS7A01G344800 chr7A 92.487 945 69 1 624 1568 507014137 507013195 0.000000e+00 1351.0
2 TraesCS7A01G344800 chr7A 91.657 863 57 7 704 1566 507022558 507021711 0.000000e+00 1181.0
3 TraesCS7A01G344800 chr7A 94.435 575 15 4 1 558 311314226 311313652 0.000000e+00 869.0
4 TraesCS7A01G344800 chr7A 90.874 515 41 4 2048 2558 507013199 507012687 0.000000e+00 686.0
5 TraesCS7A01G344800 chr7A 85.915 284 23 3 2127 2408 507021608 507021340 1.160000e-73 287.0
6 TraesCS7A01G344800 chr7A 91.150 113 8 1 2448 2558 507021339 507021227 4.410000e-33 152.0
7 TraesCS7A01G344800 chr7A 93.103 58 2 2 566 621 159420754 159420811 1.630000e-12 84.2
8 TraesCS7A01G344800 chr7B 92.308 949 59 5 621 1568 443690443 443691378 0.000000e+00 1336.0
9 TraesCS7A01G344800 chr7B 81.690 426 59 13 2065 2474 443703796 443704218 1.130000e-88 337.0
10 TraesCS7A01G344800 chr7D 90.542 941 71 9 629 1568 426450670 426451593 0.000000e+00 1229.0
11 TraesCS7A01G344800 chr7D 88.347 944 79 14 631 1571 426496726 426497641 0.000000e+00 1105.0
12 TraesCS7A01G344800 chr7D 89.315 861 69 13 631 1487 426518134 426518975 0.000000e+00 1059.0
13 TraesCS7A01G344800 chr7D 88.667 803 74 10 683 1482 426553869 426554657 0.000000e+00 963.0
14 TraesCS7A01G344800 chr7D 85.437 927 100 22 621 1541 426644388 426645285 0.000000e+00 931.0
15 TraesCS7A01G344800 chr7D 81.092 513 68 18 2070 2558 426633753 426634260 1.440000e-102 383.0
16 TraesCS7A01G344800 chr7D 75.962 520 61 30 2071 2558 426554748 426555235 2.580000e-50 209.0
17 TraesCS7A01G344800 chr7D 75.105 474 60 25 2114 2558 426491906 426492350 4.380000e-38 169.0
18 TraesCS7A01G344800 chr7D 89.552 134 10 4 2070 2201 426519041 426519172 1.570000e-37 167.0
19 TraesCS7A01G344800 chr7D 78.629 248 34 12 1809 2047 574111567 574111804 2.050000e-31 147.0
20 TraesCS7A01G344800 chr7D 78.543 247 34 12 1809 2046 574112945 574113181 7.380000e-31 145.0
21 TraesCS7A01G344800 chr2B 89.261 866 79 9 708 1571 753835088 753835941 0.000000e+00 1072.0
22 TraesCS7A01G344800 chr4A 97.173 566 12 4 1 562 616598916 616599481 0.000000e+00 953.0
23 TraesCS7A01G344800 chr4A 97.951 488 8 1 1566 2053 563506034 563505549 0.000000e+00 845.0
24 TraesCS7A01G344800 chr4A 97.536 487 12 0 1568 2054 563504657 563504171 0.000000e+00 833.0
25 TraesCS7A01G344800 chr4A 93.103 580 15 4 1 556 123864895 123864317 0.000000e+00 826.0
26 TraesCS7A01G344800 chr4A 90.643 513 26 8 9 502 615010700 615010191 0.000000e+00 662.0
27 TraesCS7A01G344800 chr1A 96.986 564 14 3 1 562 365614153 365614715 0.000000e+00 944.0
28 TraesCS7A01G344800 chr1A 90.963 509 29 7 7 502 267389267 267389771 0.000000e+00 669.0
29 TraesCS7A01G344800 chr5A 95.164 579 11 3 1 562 281142534 281143112 0.000000e+00 898.0
30 TraesCS7A01G344800 chr5A 93.939 297 12 5 1568 1861 14957800 14958093 6.490000e-121 444.0
31 TraesCS7A01G344800 chr5A 93.311 299 12 6 1568 1861 14959199 14959494 3.910000e-118 435.0
32 TraesCS7A01G344800 chr3A 94.671 563 13 5 15 562 494060270 494060830 0.000000e+00 857.0
33 TraesCS7A01G344800 chr6D 92.769 567 28 10 7 566 470580464 470581024 0.000000e+00 808.0
34 TraesCS7A01G344800 chr6D 85.113 309 21 14 1568 1861 437416747 437416449 2.490000e-75 292.0
35 TraesCS7A01G344800 chr6D 93.333 60 3 1 563 621 353366131 353366190 1.260000e-13 87.9
36 TraesCS7A01G344800 chrUn 90.328 548 29 8 29 556 314590133 314590676 0.000000e+00 697.0
37 TraesCS7A01G344800 chrUn 90.328 548 29 8 29 556 382905215 382904672 0.000000e+00 697.0
38 TraesCS7A01G344800 chrUn 79.352 247 32 12 1809 2046 111045143 111045379 3.410000e-34 156.0
39 TraesCS7A01G344800 chr5B 91.068 515 26 5 61 558 9345686 9345175 0.000000e+00 678.0
40 TraesCS7A01G344800 chr5B 81.250 80 12 3 554 633 28207790 28207714 7.640000e-06 62.1
41 TraesCS7A01G344800 chr4B 92.442 344 22 3 1568 1910 65967523 65967183 2.960000e-134 488.0
42 TraesCS7A01G344800 chr5D 79.839 248 31 12 1809 2047 8962613 8962850 2.040000e-36 163.0
43 TraesCS7A01G344800 chr5D 77.823 248 34 14 1809 2046 8963991 8964227 1.600000e-27 134.0
44 TraesCS7A01G344800 chr1D 78.516 256 35 13 1809 2054 460841953 460841708 1.590000e-32 150.0
45 TraesCS7A01G344800 chr1D 94.828 58 2 1 566 622 84705343 84705286 3.510000e-14 89.8
46 TraesCS7A01G344800 chr3D 78.543 247 34 12 1809 2046 6034239 6034475 7.380000e-31 145.0
47 TraesCS7A01G344800 chr1B 88.235 102 11 1 1656 1757 7229620 7229520 1.240000e-23 121.0
48 TraesCS7A01G344800 chr1B 91.071 56 4 1 566 620 368203707 368203652 9.820000e-10 75.0
49 TraesCS7A01G344800 chr6A 86.916 107 5 6 1649 1755 612106143 612106240 7.480000e-21 111.0


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 TraesCS7A01G344800 chr7A 506853063 506855620 2557 True 4724.0 4724 100.0000 1 2558 1 chr7A.!!$R2 2557
1 TraesCS7A01G344800 chr7A 507012687 507014137 1450 True 1018.5 1351 91.6805 624 2558 2 chr7A.!!$R3 1934
2 TraesCS7A01G344800 chr7A 311313652 311314226 574 True 869.0 869 94.4350 1 558 1 chr7A.!!$R1 557
3 TraesCS7A01G344800 chr7A 507021227 507022558 1331 True 540.0 1181 89.5740 704 2558 3 chr7A.!!$R4 1854
4 TraesCS7A01G344800 chr7B 443690443 443691378 935 False 1336.0 1336 92.3080 621 1568 1 chr7B.!!$F1 947
5 TraesCS7A01G344800 chr7D 426450670 426451593 923 False 1229.0 1229 90.5420 629 1568 1 chr7D.!!$F1 939
6 TraesCS7A01G344800 chr7D 426496726 426497641 915 False 1105.0 1105 88.3470 631 1571 1 chr7D.!!$F3 940
7 TraesCS7A01G344800 chr7D 426644388 426645285 897 False 931.0 931 85.4370 621 1541 1 chr7D.!!$F5 920
8 TraesCS7A01G344800 chr7D 426518134 426519172 1038 False 613.0 1059 89.4335 631 2201 2 chr7D.!!$F6 1570
9 TraesCS7A01G344800 chr7D 426553869 426555235 1366 False 586.0 963 82.3145 683 2558 2 chr7D.!!$F7 1875
10 TraesCS7A01G344800 chr7D 426633753 426634260 507 False 383.0 383 81.0920 2070 2558 1 chr7D.!!$F4 488
11 TraesCS7A01G344800 chr2B 753835088 753835941 853 False 1072.0 1072 89.2610 708 1571 1 chr2B.!!$F1 863
12 TraesCS7A01G344800 chr4A 616598916 616599481 565 False 953.0 953 97.1730 1 562 1 chr4A.!!$F1 561
13 TraesCS7A01G344800 chr4A 563504171 563506034 1863 True 839.0 845 97.7435 1566 2054 2 chr4A.!!$R3 488
14 TraesCS7A01G344800 chr4A 123864317 123864895 578 True 826.0 826 93.1030 1 556 1 chr4A.!!$R1 555
15 TraesCS7A01G344800 chr4A 615010191 615010700 509 True 662.0 662 90.6430 9 502 1 chr4A.!!$R2 493
16 TraesCS7A01G344800 chr1A 365614153 365614715 562 False 944.0 944 96.9860 1 562 1 chr1A.!!$F2 561
17 TraesCS7A01G344800 chr1A 267389267 267389771 504 False 669.0 669 90.9630 7 502 1 chr1A.!!$F1 495
18 TraesCS7A01G344800 chr5A 281142534 281143112 578 False 898.0 898 95.1640 1 562 1 chr5A.!!$F1 561
19 TraesCS7A01G344800 chr5A 14957800 14959494 1694 False 439.5 444 93.6250 1568 1861 2 chr5A.!!$F2 293
20 TraesCS7A01G344800 chr3A 494060270 494060830 560 False 857.0 857 94.6710 15 562 1 chr3A.!!$F1 547
21 TraesCS7A01G344800 chr6D 470580464 470581024 560 False 808.0 808 92.7690 7 566 1 chr6D.!!$F2 559
22 TraesCS7A01G344800 chrUn 314590133 314590676 543 False 697.0 697 90.3280 29 556 1 chrUn.!!$F2 527
23 TraesCS7A01G344800 chrUn 382904672 382905215 543 True 697.0 697 90.3280 29 556 1 chrUn.!!$R1 527
24 TraesCS7A01G344800 chr5B 9345175 9345686 511 True 678.0 678 91.0680 61 558 1 chr5B.!!$R1 497


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
778 819 0.385751 CTCCCGCAGCGAGAAGAATA 59.614 55.0 18.75 0.0 0.0 1.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2425 3960 0.38852 GCATTTTGTGGTCGGCCTTC 60.389 55.0 7.97 0.54 35.27 3.46 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
146 149 8.887036 ATTTTGGTTTACTCTTTGTTTCCATC 57.113 30.769 0.00 0.00 0.00 3.51
347 357 1.006825 CGTGCATGAAACTCGTCGGA 61.007 55.000 0.00 0.00 0.00 4.55
410 421 1.967319 TTGACAGGAAGGACAAGTGC 58.033 50.000 0.00 0.00 0.00 4.40
416 427 0.895559 GGAAGGACAAGTGCAAGGGG 60.896 60.000 0.00 0.00 0.00 4.79
469 504 1.670083 CCGGACAGGGAAACGAACC 60.670 63.158 0.00 0.00 35.97 3.62
562 598 1.874129 TCCAGGCGATCCCTTCTTTA 58.126 50.000 0.35 0.00 43.06 1.85
563 599 2.408565 TCCAGGCGATCCCTTCTTTAT 58.591 47.619 0.35 0.00 43.06 1.40
564 600 3.583228 TCCAGGCGATCCCTTCTTTATA 58.417 45.455 0.35 0.00 43.06 0.98
565 601 4.168101 TCCAGGCGATCCCTTCTTTATAT 58.832 43.478 0.35 0.00 43.06 0.86
566 602 5.338632 TCCAGGCGATCCCTTCTTTATATA 58.661 41.667 0.35 0.00 43.06 0.86
567 603 5.964477 TCCAGGCGATCCCTTCTTTATATAT 59.036 40.000 0.35 0.00 43.06 0.86
568 604 6.443849 TCCAGGCGATCCCTTCTTTATATATT 59.556 38.462 0.35 0.00 43.06 1.28
569 605 6.763610 CCAGGCGATCCCTTCTTTATATATTC 59.236 42.308 0.35 0.00 43.06 1.75
570 606 6.763610 CAGGCGATCCCTTCTTTATATATTCC 59.236 42.308 0.35 0.00 43.06 3.01
571 607 6.443849 AGGCGATCCCTTCTTTATATATTCCA 59.556 38.462 0.00 0.00 43.06 3.53
572 608 6.539103 GGCGATCCCTTCTTTATATATTCCAC 59.461 42.308 0.00 0.00 0.00 4.02
573 609 7.331791 GCGATCCCTTCTTTATATATTCCACT 58.668 38.462 0.00 0.00 0.00 4.00
574 610 7.824779 GCGATCCCTTCTTTATATATTCCACTT 59.175 37.037 0.00 0.00 0.00 3.16
575 611 9.372369 CGATCCCTTCTTTATATATTCCACTTC 57.628 37.037 0.00 0.00 0.00 3.01
579 615 9.799106 CCCTTCTTTATATATTCCACTTCATGT 57.201 33.333 0.00 0.00 0.00 3.21
591 627 4.852134 CACTTCATGTGGATTTTGGTGA 57.148 40.909 0.00 0.00 42.68 4.02
592 628 5.395682 CACTTCATGTGGATTTTGGTGAT 57.604 39.130 0.00 0.00 42.68 3.06
593 629 5.165676 CACTTCATGTGGATTTTGGTGATG 58.834 41.667 0.00 0.00 42.68 3.07
594 630 5.047872 CACTTCATGTGGATTTTGGTGATGA 60.048 40.000 0.00 0.00 42.68 2.92
595 631 5.539574 ACTTCATGTGGATTTTGGTGATGAA 59.460 36.000 0.00 0.00 0.00 2.57
596 632 6.211986 ACTTCATGTGGATTTTGGTGATGAAT 59.788 34.615 0.00 0.00 30.26 2.57
597 633 7.396907 ACTTCATGTGGATTTTGGTGATGAATA 59.603 33.333 0.00 0.00 30.26 1.75
598 634 7.715266 TCATGTGGATTTTGGTGATGAATAA 57.285 32.000 0.00 0.00 0.00 1.40
599 635 8.131847 TCATGTGGATTTTGGTGATGAATAAA 57.868 30.769 0.00 0.00 0.00 1.40
600 636 8.760735 TCATGTGGATTTTGGTGATGAATAAAT 58.239 29.630 0.00 0.00 0.00 1.40
601 637 9.386010 CATGTGGATTTTGGTGATGAATAAATT 57.614 29.630 0.00 0.00 0.00 1.82
602 638 8.774890 TGTGGATTTTGGTGATGAATAAATTG 57.225 30.769 0.00 0.00 0.00 2.32
603 639 7.823310 TGTGGATTTTGGTGATGAATAAATTGG 59.177 33.333 0.00 0.00 0.00 3.16
604 640 7.823799 GTGGATTTTGGTGATGAATAAATTGGT 59.176 33.333 0.00 0.00 0.00 3.67
605 641 8.381636 TGGATTTTGGTGATGAATAAATTGGTT 58.618 29.630 0.00 0.00 0.00 3.67
606 642 9.230122 GGATTTTGGTGATGAATAAATTGGTTT 57.770 29.630 0.00 0.00 0.00 3.27
608 644 9.790344 ATTTTGGTGATGAATAAATTGGTTTCA 57.210 25.926 1.78 1.78 34.18 2.69
609 645 8.600449 TTTGGTGATGAATAAATTGGTTTCAC 57.400 30.769 0.00 0.00 32.61 3.18
610 646 6.696411 TGGTGATGAATAAATTGGTTTCACC 58.304 36.000 10.94 10.94 42.79 4.02
611 647 6.106003 GGTGATGAATAAATTGGTTTCACCC 58.894 40.000 7.38 5.76 37.50 4.61
612 648 6.106003 GTGATGAATAAATTGGTTTCACCCC 58.894 40.000 1.40 0.00 37.50 4.95
613 649 6.022315 TGATGAATAAATTGGTTTCACCCCT 58.978 36.000 1.40 0.00 37.50 4.79
614 650 7.123547 GTGATGAATAAATTGGTTTCACCCCTA 59.876 37.037 1.40 0.00 37.50 3.53
615 651 7.676043 TGATGAATAAATTGGTTTCACCCCTAA 59.324 33.333 1.40 0.00 37.50 2.69
616 652 7.857404 TGAATAAATTGGTTTCACCCCTAAA 57.143 32.000 0.00 0.00 37.50 1.85
617 653 8.263854 TGAATAAATTGGTTTCACCCCTAAAA 57.736 30.769 0.00 0.00 37.50 1.52
618 654 8.714906 TGAATAAATTGGTTTCACCCCTAAAAA 58.285 29.630 0.00 0.00 37.50 1.94
680 717 6.717289 ACCTACAAATGCTATGGTTTCACTA 58.283 36.000 0.00 0.00 0.00 2.74
775 816 1.977009 TTCTCCCGCAGCGAGAAGA 60.977 57.895 18.75 12.74 40.57 2.87
778 819 0.385751 CTCCCGCAGCGAGAAGAATA 59.614 55.000 18.75 0.00 0.00 1.75
788 829 2.924454 GCGAGAAGAATATGGAGCCGAG 60.924 54.545 0.00 0.00 0.00 4.63
1109 1150 4.101448 GTCGGGATGGCCAGCTGT 62.101 66.667 22.39 0.00 35.15 4.40
1112 1153 2.439156 GGGATGGCCAGCTGTGAC 60.439 66.667 22.39 7.05 35.15 3.67
1143 1184 2.646719 GTGTCTACGGCACCGACA 59.353 61.111 17.40 7.05 42.83 4.35
1145 1186 1.900016 TGTCTACGGCACCGACAGT 60.900 57.895 17.40 0.00 42.83 3.55
1201 1242 4.008933 GCAGACGTGCCAGGGTCT 62.009 66.667 0.00 0.00 44.72 3.85
1217 1258 0.321298 GTCTTTCTGGTAAGGCGCCA 60.321 55.000 31.54 5.56 34.42 5.69
1319 1360 2.754658 ACTCTCTACGGCGGTGGG 60.755 66.667 13.24 2.96 0.00 4.61
1373 1414 4.719369 GACGGTGAGGCGTTCGCT 62.719 66.667 16.40 3.31 36.53 4.93
1466 1507 2.686915 GCTCAAGTGCTCTATGGCAAAT 59.313 45.455 0.00 0.00 44.18 2.32
1582 1646 8.426569 ACAGTACTAGTGTTAGGAATAAACCA 57.573 34.615 5.39 0.00 0.00 3.67
1942 2043 0.321996 ACAGGAGAAAGAGGGCGTTC 59.678 55.000 0.00 0.00 33.44 3.95
2002 3485 5.070001 CCTGTTTGTTTTCATCTACCTCCA 58.930 41.667 0.00 0.00 0.00 3.86
2061 3544 5.221702 ACCCCAACAACTAGTACGTGTTTAT 60.222 40.000 8.40 0.00 0.00 1.40
2166 3678 7.434492 TGGTGTTTCTCAAGTTTGTTTTAACA 58.566 30.769 0.00 0.00 37.08 2.41
2287 3801 4.023963 TGTCTGAACGGCTATTCTATCGAG 60.024 45.833 0.00 0.00 0.00 4.04
2333 3851 4.024048 TGAACCGTTCTTCAAGAGAAATGC 60.024 41.667 12.43 0.00 45.59 3.56
2425 3960 8.249638 ACAGATATGTCAGATGAATATCTTCGG 58.750 37.037 16.46 11.94 41.71 4.30
2492 4036 2.703007 AGGGTTCATGGAGCTCAGTATC 59.297 50.000 17.19 0.00 0.00 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
245 253 7.500992 TGAATAATTAAAGCTCCGAGATCACT 58.499 34.615 0.00 0.00 0.00 3.41
410 421 1.001641 CTGGCCTTGTCTCCCCTTG 60.002 63.158 3.32 0.00 0.00 3.61
416 427 0.827507 TTTTGGGCTGGCCTTGTCTC 60.828 55.000 21.72 0.00 36.10 3.36
469 504 2.360350 ACTGCATGCCAAGGTCCG 60.360 61.111 16.68 0.00 0.00 4.79
571 607 5.078949 TCATCACCAAAATCCACATGAAGT 58.921 37.500 0.00 0.00 0.00 3.01
572 608 5.648178 TCATCACCAAAATCCACATGAAG 57.352 39.130 0.00 0.00 0.00 3.02
573 609 6.608539 ATTCATCACCAAAATCCACATGAA 57.391 33.333 0.00 0.00 34.27 2.57
574 610 7.715266 TTATTCATCACCAAAATCCACATGA 57.285 32.000 0.00 0.00 0.00 3.07
575 611 8.951787 ATTTATTCATCACCAAAATCCACATG 57.048 30.769 0.00 0.00 0.00 3.21
576 612 9.386010 CAATTTATTCATCACCAAAATCCACAT 57.614 29.630 0.00 0.00 0.00 3.21
577 613 7.823310 CCAATTTATTCATCACCAAAATCCACA 59.177 33.333 0.00 0.00 0.00 4.17
578 614 7.823799 ACCAATTTATTCATCACCAAAATCCAC 59.176 33.333 0.00 0.00 0.00 4.02
579 615 7.915930 ACCAATTTATTCATCACCAAAATCCA 58.084 30.769 0.00 0.00 0.00 3.41
580 616 8.791327 AACCAATTTATTCATCACCAAAATCC 57.209 30.769 0.00 0.00 0.00 3.01
582 618 9.790344 TGAAACCAATTTATTCATCACCAAAAT 57.210 25.926 0.00 0.00 0.00 1.82
583 619 9.050601 GTGAAACCAATTTATTCATCACCAAAA 57.949 29.630 0.00 0.00 35.70 2.44
584 620 8.600449 GTGAAACCAATTTATTCATCACCAAA 57.400 30.769 0.00 0.00 35.70 3.28
680 717 8.236585 TGTAAACCATAGCATTAGCAAATGAT 57.763 30.769 2.38 0.00 44.50 2.45
775 816 2.031163 GGCGCTCGGCTCCATATT 59.969 61.111 7.64 0.00 42.94 1.28
816 857 1.443702 CGCGGAGTTGATGTCGTCA 60.444 57.895 0.00 0.00 34.25 4.35
969 1010 0.037590 TTCTTGGTGGATTCCGGGTG 59.962 55.000 0.00 0.00 0.00 4.61
1052 1093 2.813908 GTCATGTCACGGGCGTCC 60.814 66.667 0.00 0.00 0.00 4.79
1109 1150 1.154454 ACGGTCCCTGTAGGTGTCA 59.846 57.895 0.00 0.00 36.75 3.58
1112 1153 0.898789 AGACACGGTCCCTGTAGGTG 60.899 60.000 0.00 0.00 36.75 4.00
1143 1184 1.063642 TGGGTCGATCTCCTCATCACT 60.064 52.381 0.00 0.00 0.00 3.41
1145 1186 2.388526 ATGGGTCGATCTCCTCATCA 57.611 50.000 0.00 0.00 0.00 3.07
1201 1242 1.543802 CAAATGGCGCCTTACCAGAAA 59.456 47.619 29.70 3.35 41.46 2.52
1319 1360 1.338200 ACGAGATTGTCTTGCAGACCC 60.338 52.381 11.99 4.18 44.44 4.46
1373 1414 2.666098 GGCCTTGGCGAAGTCCCTA 61.666 63.158 7.74 0.00 0.00 3.53
1424 1465 0.533491 TCACCTCCACGGGTATTTCG 59.467 55.000 0.00 0.00 37.52 3.46
1426 1467 0.909623 CCTCACCTCCACGGGTATTT 59.090 55.000 0.00 0.00 37.52 1.40
1430 1471 4.640690 AGCCTCACCTCCACGGGT 62.641 66.667 0.00 0.00 40.73 5.28
1582 1646 2.679934 CGCACATCCGCACACACAT 61.680 57.895 0.00 0.00 0.00 3.21
1605 1669 3.269347 AGGAACGCGCACACACAC 61.269 61.111 5.73 0.00 0.00 3.82
1606 1670 3.268603 CAGGAACGCGCACACACA 61.269 61.111 5.73 0.00 0.00 3.72
1952 2053 1.795872 CATGTTTCTGGCAACGTACGA 59.204 47.619 24.41 0.00 42.51 3.43
2002 3485 2.814336 GCTCGAACTGGTTTTCAAGGAT 59.186 45.455 0.00 0.00 0.00 3.24
2075 3558 2.107366 TGAGCCGACATTGTATGAGGA 58.893 47.619 9.05 0.00 35.01 3.71
2077 3560 3.261580 TGTTGAGCCGACATTGTATGAG 58.738 45.455 0.00 0.00 0.00 2.90
2091 3574 4.291540 TGTGTCAAACATTCTGTTGAGC 57.708 40.909 0.00 0.00 40.14 4.26
2166 3678 7.542477 CGAACGTGAGCTCATTATATATTTCCT 59.458 37.037 21.47 0.00 0.00 3.36
2231 3743 3.010027 TCACTGATAATCCCCAAGTGCAA 59.990 43.478 0.00 0.00 0.00 4.08
2287 3801 7.715657 TCATTAGATTCCATGTTATTGGCAAC 58.284 34.615 0.00 0.00 36.66 4.17
2362 3897 5.127356 TGCAATCATATTTGAAGTGCCATGA 59.873 36.000 16.92 0.00 42.23 3.07
2408 3943 4.262635 GGCCTTCCGAAGATATTCATCTGA 60.263 45.833 9.87 0.00 40.81 3.27
2425 3960 0.388520 GCATTTTGTGGTCGGCCTTC 60.389 55.000 7.97 0.54 35.27 3.46
2437 3980 6.703857 TCGAAGAACAATTTTGTGCATTTTG 58.296 32.000 4.30 0.00 41.31 2.44



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

AutoCloner maintained by Alex Coulton.