Multiple sequence alignment - TraesCS1B01G198400

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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 TraesCS1B01G198400 chr1B 100.000 2585 0 0 1 2585 356449638 356452222 0.000000e+00 4774.0
1 TraesCS1B01G198400 chr1D 95.589 2063 69 12 1 2049 256786086 256784032 0.000000e+00 3286.0
2 TraesCS1B01G198400 chr1D 88.381 809 43 24 1792 2585 256784037 256783265 0.000000e+00 926.0
3 TraesCS1B01G198400 chr1A 95.000 1280 41 10 784 2049 330088593 330087323 0.000000e+00 1988.0
4 TraesCS1B01G198400 chr1A 93.071 534 36 1 1 534 330146925 330146393 0.000000e+00 780.0
5 TraesCS1B01G198400 chr1A 94.488 381 17 3 1951 2328 330086948 330086569 3.710000e-163 584.0
6 TraesCS1B01G198400 chr1A 94.595 259 12 2 1792 2049 330087328 330087071 1.440000e-107 399.0
7 TraesCS1B01G198400 chr1A 88.889 252 13 5 533 779 330135710 330135469 1.940000e-76 296.0
8 TraesCS1B01G198400 chr1A 97.600 125 3 0 1792 1916 330087076 330086952 5.600000e-52 215.0
9 TraesCS1B01G198400 chr4A 89.366 489 47 2 16 502 91594322 91593837 6.120000e-171 610.0
10 TraesCS1B01G198400 chr7D 86.076 553 67 7 17 564 373581091 373580544 1.030000e-163 586.0
11 TraesCS1B01G198400 chr7A 85.278 557 73 5 13 564 419560128 419559576 1.340000e-157 566.0
12 TraesCS1B01G198400 chr7B 83.566 572 82 10 1 566 69590824 69591389 2.280000e-145 525.0
13 TraesCS1B01G198400 chrUn 84.515 536 70 11 13 543 26245920 26245393 3.810000e-143 518.0
14 TraesCS1B01G198400 chr5D 84.299 535 75 7 13 544 505416873 505416345 4.930000e-142 514.0
15 TraesCS1B01G198400 chr3B 83.039 566 85 9 2 564 360010275 360009718 1.070000e-138 503.0
16 TraesCS1B01G198400 chr4B 80.992 605 96 14 987 1574 673474691 673474089 1.810000e-126 462.0
17 TraesCS1B01G198400 chr4D 82.298 531 86 7 1047 1571 491345726 491346254 1.090000e-123 453.0
18 TraesCS1B01G198400 chr5A 82.688 491 77 7 1047 1531 707532579 707533067 1.840000e-116 429.0
19 TraesCS1B01G198400 chr2B 88.636 44 4 1 959 1001 537427120 537427163 5.000000e-03 52.8


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 TraesCS1B01G198400 chr1B 356449638 356452222 2584 False 4774.0 4774 100.00000 1 2585 1 chr1B.!!$F1 2584
1 TraesCS1B01G198400 chr1D 256783265 256786086 2821 True 2106.0 3286 91.98500 1 2585 2 chr1D.!!$R1 2584
2 TraesCS1B01G198400 chr1A 330086569 330088593 2024 True 796.5 1988 95.42075 784 2328 4 chr1A.!!$R3 1544
3 TraesCS1B01G198400 chr1A 330146393 330146925 532 True 780.0 780 93.07100 1 534 1 chr1A.!!$R2 533
4 TraesCS1B01G198400 chr7D 373580544 373581091 547 True 586.0 586 86.07600 17 564 1 chr7D.!!$R1 547
5 TraesCS1B01G198400 chr7A 419559576 419560128 552 True 566.0 566 85.27800 13 564 1 chr7A.!!$R1 551
6 TraesCS1B01G198400 chr7B 69590824 69591389 565 False 525.0 525 83.56600 1 566 1 chr7B.!!$F1 565
7 TraesCS1B01G198400 chrUn 26245393 26245920 527 True 518.0 518 84.51500 13 543 1 chrUn.!!$R1 530
8 TraesCS1B01G198400 chr5D 505416345 505416873 528 True 514.0 514 84.29900 13 544 1 chr5D.!!$R1 531
9 TraesCS1B01G198400 chr3B 360009718 360010275 557 True 503.0 503 83.03900 2 564 1 chr3B.!!$R1 562
10 TraesCS1B01G198400 chr4B 673474089 673474691 602 True 462.0 462 80.99200 987 1574 1 chr4B.!!$R1 587
11 TraesCS1B01G198400 chr4D 491345726 491346254 528 False 453.0 453 82.29800 1047 1571 1 chr4D.!!$F1 524

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
598 612 1.067295 TCTGGTCACCCTCAAAGCAT 58.933 50.0 0.0 0.0 0.0 3.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2519 3096 0.031994 AATTGCAACAACACCTCCGC 59.968 50.0 0.0 0.0 0.0 5.54 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
58 59 1.208165 AGGGATGGACAAGACCACCC 61.208 60.000 15.67 15.67 42.75 4.61
87 88 7.383843 GGGTTTTGTGAAATTAAATGTCGATGT 59.616 33.333 0.00 0.00 0.00 3.06
146 147 5.396884 GGGGCAGTACTTAGAGATGACAAAT 60.397 44.000 0.00 0.00 0.00 2.32
186 190 3.630828 GGGAATTGGAGGATGGATTGGTT 60.631 47.826 0.00 0.00 0.00 3.67
203 207 9.083422 TGGATTGGTTTGAAGATGTATTAACAA 57.917 29.630 0.00 0.00 39.58 2.83
441 447 5.588648 ACAAAGTAGCTGACAAACTTGCTAA 59.411 36.000 0.00 0.00 39.33 3.09
589 603 2.042831 GTGCTGCATCTGGTCACCC 61.043 63.158 5.27 0.00 0.00 4.61
598 612 1.067295 TCTGGTCACCCTCAAAGCAT 58.933 50.000 0.00 0.00 0.00 3.79
606 620 1.822990 ACCCTCAAAGCATGCATGAAG 59.177 47.619 30.64 16.31 0.00 3.02
609 623 2.490509 CCTCAAAGCATGCATGAAGACA 59.509 45.455 30.64 9.18 0.00 3.41
641 655 4.691860 AGCACAAAACTGATAGTGATGC 57.308 40.909 0.00 0.00 33.99 3.91
735 749 5.230182 CCAAAGATGTAAGGAGGCAAAAAC 58.770 41.667 0.00 0.00 0.00 2.43
736 750 5.011023 CCAAAGATGTAAGGAGGCAAAAACT 59.989 40.000 0.00 0.00 0.00 2.66
737 751 6.208599 CCAAAGATGTAAGGAGGCAAAAACTA 59.791 38.462 0.00 0.00 0.00 2.24
738 752 7.255801 CCAAAGATGTAAGGAGGCAAAAACTAA 60.256 37.037 0.00 0.00 0.00 2.24
739 753 7.833285 AAGATGTAAGGAGGCAAAAACTAAA 57.167 32.000 0.00 0.00 0.00 1.85
740 754 8.422577 AAGATGTAAGGAGGCAAAAACTAAAT 57.577 30.769 0.00 0.00 0.00 1.40
808 826 9.243637 TCTTTCATACAAAACATTTTCGAAAGG 57.756 29.630 10.98 10.03 0.00 3.11
827 849 4.766404 AGGCAATAAAAAGTTCTCACCG 57.234 40.909 0.00 0.00 0.00 4.94
854 876 1.592223 CCGAGTGTTCCAGAGTCCC 59.408 63.158 0.00 0.00 0.00 4.46
875 905 2.479837 CGCACCGCCTAGAAAATATCA 58.520 47.619 0.00 0.00 0.00 2.15
937 968 5.677319 AAACTAGATCATTTCCTCCGACA 57.323 39.130 0.00 0.00 0.00 4.35
1737 1786 6.376018 TCACATGTATACGATCGGAATGGATA 59.624 38.462 20.98 0.55 0.00 2.59
1744 1793 9.146984 GTATACGATCGGAATGGATAATTTTGA 57.853 33.333 20.98 0.00 0.00 2.69
1784 1834 5.694231 TGCCAGCATGATGTTATACATTC 57.306 39.130 10.55 0.00 39.27 2.67
1955 2005 2.349817 CGTGTGTTCATTTGCCTGTCTC 60.350 50.000 0.00 0.00 0.00 3.36
2002 2304 7.663081 TCAGAATTTTATGAAGCTGTTCTGAGT 59.337 33.333 9.97 0.00 42.77 3.41
2023 2325 6.486657 TGAGTTTGATGGTTTATAGCTATGCC 59.513 38.462 16.77 14.86 0.00 4.40
2024 2326 6.605119 AGTTTGATGGTTTATAGCTATGCCT 58.395 36.000 16.77 6.13 0.00 4.75
2027 2551 4.042062 TGATGGTTTATAGCTATGCCTGCT 59.958 41.667 16.77 5.49 43.79 4.24
2093 2618 7.762159 ACGAAAAACCATTGTGTTTTGAGTTAT 59.238 29.630 6.79 2.04 45.18 1.89
2096 2621 9.665719 AAAAACCATTGTGTTTTGAGTTATTCT 57.334 25.926 13.28 0.00 45.18 2.40
2100 2625 6.449698 CATTGTGTTTTGAGTTATTCTGGCT 58.550 36.000 0.00 0.00 0.00 4.75
2101 2626 5.437289 TGTGTTTTGAGTTATTCTGGCTG 57.563 39.130 0.00 0.00 0.00 4.85
2102 2627 5.129634 TGTGTTTTGAGTTATTCTGGCTGA 58.870 37.500 0.00 0.00 0.00 4.26
2103 2628 5.769662 TGTGTTTTGAGTTATTCTGGCTGAT 59.230 36.000 0.00 0.00 0.00 2.90
2104 2629 6.072508 TGTGTTTTGAGTTATTCTGGCTGATC 60.073 38.462 0.00 0.00 0.00 2.92
2105 2630 6.003326 TGTTTTGAGTTATTCTGGCTGATCA 58.997 36.000 0.00 0.00 0.00 2.92
2106 2631 6.660521 TGTTTTGAGTTATTCTGGCTGATCAT 59.339 34.615 0.00 0.00 0.00 2.45
2107 2632 7.177216 TGTTTTGAGTTATTCTGGCTGATCATT 59.823 33.333 0.00 0.00 0.00 2.57
2108 2633 7.707624 TTTGAGTTATTCTGGCTGATCATTT 57.292 32.000 0.00 0.00 0.00 2.32
2109 2634 6.932356 TGAGTTATTCTGGCTGATCATTTC 57.068 37.500 0.00 0.00 0.00 2.17
2110 2635 5.525012 TGAGTTATTCTGGCTGATCATTTCG 59.475 40.000 0.00 0.00 0.00 3.46
2111 2636 5.674525 AGTTATTCTGGCTGATCATTTCGA 58.325 37.500 0.00 0.00 0.00 3.71
2112 2637 6.115446 AGTTATTCTGGCTGATCATTTCGAA 58.885 36.000 0.00 0.00 0.00 3.71
2113 2638 6.259608 AGTTATTCTGGCTGATCATTTCGAAG 59.740 38.462 0.00 0.00 0.00 3.79
2114 2639 2.910199 TCTGGCTGATCATTTCGAAGG 58.090 47.619 0.00 0.00 0.00 3.46
2115 2640 2.237143 TCTGGCTGATCATTTCGAAGGT 59.763 45.455 0.00 0.00 0.00 3.50
2116 2641 2.611292 CTGGCTGATCATTTCGAAGGTC 59.389 50.000 0.00 0.00 0.00 3.85
2117 2642 2.237143 TGGCTGATCATTTCGAAGGTCT 59.763 45.455 0.00 0.00 0.00 3.85
2118 2643 2.869192 GGCTGATCATTTCGAAGGTCTC 59.131 50.000 0.00 0.00 0.00 3.36
2119 2644 3.525537 GCTGATCATTTCGAAGGTCTCA 58.474 45.455 0.00 0.56 0.00 3.27
2120 2645 3.555139 GCTGATCATTTCGAAGGTCTCAG 59.445 47.826 18.13 18.13 33.67 3.35
2121 2646 3.525537 TGATCATTTCGAAGGTCTCAGC 58.474 45.455 0.00 0.00 0.00 4.26
2122 2647 1.996292 TCATTTCGAAGGTCTCAGCG 58.004 50.000 0.00 0.00 0.00 5.18
2123 2648 0.371645 CATTTCGAAGGTCTCAGCGC 59.628 55.000 0.00 0.00 0.00 5.92
2139 2688 1.212935 AGCGCTCCATTTGACCCTAAT 59.787 47.619 2.64 0.00 0.00 1.73
2164 2713 5.420725 TTGTATCTGTGGTTATCACTGCT 57.579 39.130 0.00 0.00 46.20 4.24
2184 2733 9.282247 CACTGCTTTATATTTTCTTGTGATGTC 57.718 33.333 0.00 0.00 0.00 3.06
2262 2811 0.253044 TATGTGGCCTTCTGACTGCC 59.747 55.000 3.32 9.17 45.56 4.85
2298 2849 1.339610 TCACTTTGGGAAATGGTTGCG 59.660 47.619 0.00 0.00 0.00 4.85
2299 2850 0.033366 ACTTTGGGAAATGGTTGCGC 59.967 50.000 0.00 0.00 0.00 6.09
2366 2917 9.631639 GAGTTTGATTCAAAACCGTTTTAATTG 57.368 29.630 13.21 0.00 40.26 2.32
2370 2921 5.609533 TTCAAAACCGTTTTAATTGGGGA 57.390 34.783 8.90 0.00 0.00 4.81
2373 2924 6.592870 TCAAAACCGTTTTAATTGGGGAAAT 58.407 32.000 8.90 0.00 0.00 2.17
2387 2938 2.889678 GGGGAAATGATTCTGATCAGCC 59.110 50.000 18.36 10.20 45.01 4.85
2388 2939 2.551459 GGGAAATGATTCTGATCAGCCG 59.449 50.000 18.36 0.00 45.01 5.52
2389 2940 2.551459 GGAAATGATTCTGATCAGCCGG 59.449 50.000 18.36 0.00 45.01 6.13
2390 2941 3.209410 GAAATGATTCTGATCAGCCGGT 58.791 45.455 18.36 3.41 45.01 5.28
2401 2952 0.823769 TCAGCCGGTCGATCTAGCAT 60.824 55.000 1.90 0.00 0.00 3.79
2403 2954 1.109920 AGCCGGTCGATCTAGCATGT 61.110 55.000 1.90 0.00 0.00 3.21
2417 2968 5.946486 TCTAGCATGTCTCTCTTCCTCATA 58.054 41.667 0.00 0.00 0.00 2.15
2442 3019 5.694674 TTTTTGCAACAACGAAAGATGAC 57.305 34.783 0.00 0.00 37.33 3.06
2444 3021 3.607422 TGCAACAACGAAAGATGACTG 57.393 42.857 0.00 0.00 37.33 3.51
2445 3022 2.286950 TGCAACAACGAAAGATGACTGC 60.287 45.455 0.00 0.00 42.10 4.40
2451 3028 0.792640 CGAAAGATGACTGCGCAAGT 59.207 50.000 13.05 12.11 43.85 3.16
2452 3029 1.463034 CGAAAGATGACTGCGCAAGTG 60.463 52.381 13.05 1.71 40.07 3.16
2453 3030 0.239347 AAAGATGACTGCGCAAGTGC 59.761 50.000 13.05 1.15 40.07 4.40
2471 3048 3.527186 GCGACGCGACCATAGATG 58.473 61.111 15.93 0.00 0.00 2.90
2472 3049 1.299165 GCGACGCGACCATAGATGT 60.299 57.895 15.93 0.00 0.00 3.06
2473 3050 1.540607 GCGACGCGACCATAGATGTG 61.541 60.000 15.93 0.00 0.00 3.21
2474 3051 0.248498 CGACGCGACCATAGATGTGT 60.248 55.000 15.93 0.00 0.00 3.72
2475 3052 1.797713 CGACGCGACCATAGATGTGTT 60.798 52.381 15.93 0.00 0.00 3.32
2476 3053 1.588404 GACGCGACCATAGATGTGTTG 59.412 52.381 15.93 0.00 0.00 3.33
2477 3054 0.301687 CGCGACCATAGATGTGTTGC 59.698 55.000 0.00 10.81 36.18 4.17
2478 3055 1.368641 GCGACCATAGATGTGTTGCA 58.631 50.000 13.91 0.00 37.83 4.08
2479 3056 1.737236 GCGACCATAGATGTGTTGCAA 59.263 47.619 0.00 0.00 37.83 4.08
2480 3057 2.355756 GCGACCATAGATGTGTTGCAAT 59.644 45.455 0.59 0.00 37.83 3.56
2481 3058 3.181497 GCGACCATAGATGTGTTGCAATT 60.181 43.478 0.59 0.00 37.83 2.32
2519 3096 3.829886 TTTGCAGAAAGTTAGATGCGG 57.170 42.857 0.00 0.00 41.58 5.69
2521 3098 0.026803 GCAGAAAGTTAGATGCGGCG 59.973 55.000 0.51 0.51 0.00 6.46
2525 3102 0.462047 AAAGTTAGATGCGGCGGAGG 60.462 55.000 9.78 0.00 0.00 4.30
2526 3103 1.614241 AAGTTAGATGCGGCGGAGGT 61.614 55.000 9.78 0.00 0.00 3.85
2527 3104 1.883084 GTTAGATGCGGCGGAGGTG 60.883 63.158 9.78 0.00 0.00 4.00
2528 3105 2.355986 TTAGATGCGGCGGAGGTGT 61.356 57.895 9.78 0.00 0.00 4.16
2565 3142 5.678921 GCAATAAGGATGTTGTTGCAAAAC 58.321 37.500 0.00 8.97 43.18 2.43
2571 3148 6.076981 AGGATGTTGTTGCAAAACTTAGAG 57.923 37.500 18.68 0.00 0.00 2.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
58 59 6.145371 CGACATTTAATTTCACAAAACCCCTG 59.855 38.462 0.00 0.00 0.00 4.45
146 147 2.503765 TCCCGCCAACTATGAATCTTCA 59.496 45.455 0.00 0.00 42.14 3.02
203 207 1.418637 TCGTAGGGCCAAAACTTCTGT 59.581 47.619 6.18 0.00 0.00 3.41
346 351 9.299963 CAAGCCATAAAATAACAATCATCGAAA 57.700 29.630 0.00 0.00 0.00 3.46
441 447 5.993748 AGTCTCAGAAAACTTAGCTAGCT 57.006 39.130 23.12 23.12 0.00 3.32
589 603 3.842732 TGTCTTCATGCATGCTTTGAG 57.157 42.857 22.25 13.15 0.00 3.02
606 620 4.829064 TTTGTGCTAGTGTTTGGATGTC 57.171 40.909 0.00 0.00 0.00 3.06
609 623 4.887071 TCAGTTTTGTGCTAGTGTTTGGAT 59.113 37.500 0.00 0.00 0.00 3.41
641 655 9.973450 ATACAGATAGTTTAGTAGTCTGCATTG 57.027 33.333 0.00 0.00 39.83 2.82
736 750 9.817809 TGTGTTTGGTACTTGCAAATTTATTTA 57.182 25.926 0.00 0.00 0.00 1.40
737 751 8.723942 TGTGTTTGGTACTTGCAAATTTATTT 57.276 26.923 0.00 0.00 0.00 1.40
738 752 7.984617 ACTGTGTTTGGTACTTGCAAATTTATT 59.015 29.630 0.00 0.00 0.00 1.40
739 753 7.496747 ACTGTGTTTGGTACTTGCAAATTTAT 58.503 30.769 0.00 0.00 0.00 1.40
740 754 6.868622 ACTGTGTTTGGTACTTGCAAATTTA 58.131 32.000 0.00 0.00 0.00 1.40
744 758 3.129638 GGACTGTGTTTGGTACTTGCAAA 59.870 43.478 0.00 0.00 0.00 3.68
750 764 6.182507 TGAATAAGGACTGTGTTTGGTACT 57.817 37.500 0.00 0.00 0.00 2.73
782 796 9.243637 CCTTTCGAAAATGTTTTGTATGAAAGA 57.756 29.630 12.41 0.00 0.00 2.52
798 816 7.976734 TGAGAACTTTTTATTGCCTTTCGAAAA 59.023 29.630 12.41 0.00 0.00 2.29
808 826 5.154222 CCTTCGGTGAGAACTTTTTATTGC 58.846 41.667 0.00 0.00 34.66 3.56
827 849 1.295746 GAACACTCGGGGTCCCTTC 59.704 63.158 8.15 0.00 0.00 3.46
834 856 1.592223 GACTCTGGAACACTCGGGG 59.408 63.158 0.00 0.00 0.00 5.73
835 857 1.592223 GGACTCTGGAACACTCGGG 59.408 63.158 0.00 0.00 0.00 5.14
854 876 1.798813 GATATTTTCTAGGCGGTGCGG 59.201 52.381 0.00 0.00 0.00 5.69
875 905 0.326264 ATTTGCAGCGAGGTCCTTCT 59.674 50.000 0.00 0.00 0.00 2.85
1737 1786 6.276847 TCCGCATTGTAACAAAGTCAAAATT 58.723 32.000 0.00 0.00 0.00 1.82
1744 1793 2.094752 GGCATCCGCATTGTAACAAAGT 60.095 45.455 0.00 0.00 41.24 2.66
1784 1834 1.165907 TTGCTCAGCAACACCCGAAG 61.166 55.000 8.40 0.00 43.99 3.79
1931 1981 1.178534 AGGCAAATGAACACACGGGG 61.179 55.000 0.00 0.00 0.00 5.73
1955 2005 1.535204 GCCCCACAAACCACATCAGG 61.535 60.000 0.00 0.00 0.00 3.86
2002 2304 5.241506 GCAGGCATAGCTATAAACCATCAAA 59.758 40.000 17.41 0.00 0.00 2.69
2027 2551 3.376859 CGCAAAAGAACATAGTGCCCATA 59.623 43.478 0.00 0.00 31.41 2.74
2068 2593 6.401955 AACTCAAAACACAATGGTTTTTCG 57.598 33.333 8.96 6.75 45.89 3.46
2093 2618 3.273434 CCTTCGAAATGATCAGCCAGAA 58.727 45.455 0.09 4.16 0.00 3.02
2096 2621 2.237143 AGACCTTCGAAATGATCAGCCA 59.763 45.455 0.09 0.00 0.00 4.75
2100 2625 3.525537 GCTGAGACCTTCGAAATGATCA 58.474 45.455 0.00 0.00 0.00 2.92
2101 2626 2.537625 CGCTGAGACCTTCGAAATGATC 59.462 50.000 0.00 0.00 0.00 2.92
2102 2627 2.544685 CGCTGAGACCTTCGAAATGAT 58.455 47.619 0.00 0.00 0.00 2.45
2103 2628 1.996292 CGCTGAGACCTTCGAAATGA 58.004 50.000 0.00 0.00 0.00 2.57
2104 2629 0.371645 GCGCTGAGACCTTCGAAATG 59.628 55.000 0.00 0.00 0.00 2.32
2105 2630 0.247736 AGCGCTGAGACCTTCGAAAT 59.752 50.000 10.39 0.00 0.00 2.17
2106 2631 0.388649 GAGCGCTGAGACCTTCGAAA 60.389 55.000 18.48 0.00 0.00 3.46
2107 2632 1.213013 GAGCGCTGAGACCTTCGAA 59.787 57.895 18.48 0.00 0.00 3.71
2108 2633 2.701780 GGAGCGCTGAGACCTTCGA 61.702 63.158 18.48 0.00 0.00 3.71
2109 2634 2.202676 GGAGCGCTGAGACCTTCG 60.203 66.667 18.48 0.00 0.00 3.79
2110 2635 0.107945 AATGGAGCGCTGAGACCTTC 60.108 55.000 18.48 0.00 0.00 3.46
2111 2636 0.326264 AAATGGAGCGCTGAGACCTT 59.674 50.000 18.48 4.82 0.00 3.50
2112 2637 0.392193 CAAATGGAGCGCTGAGACCT 60.392 55.000 18.48 0.00 0.00 3.85
2113 2638 0.391661 TCAAATGGAGCGCTGAGACC 60.392 55.000 18.48 10.95 0.00 3.85
2114 2639 0.723981 GTCAAATGGAGCGCTGAGAC 59.276 55.000 18.48 9.63 0.00 3.36
2115 2640 0.391661 GGTCAAATGGAGCGCTGAGA 60.392 55.000 18.48 0.00 33.78 3.27
2116 2641 1.372087 GGGTCAAATGGAGCGCTGAG 61.372 60.000 18.48 0.00 45.03 3.35
2117 2642 1.377202 GGGTCAAATGGAGCGCTGA 60.377 57.895 18.48 1.55 45.03 4.26
2118 2643 0.107703 TAGGGTCAAATGGAGCGCTG 60.108 55.000 18.48 0.00 45.03 5.18
2119 2644 0.618458 TTAGGGTCAAATGGAGCGCT 59.382 50.000 11.27 11.27 45.03 5.92
2120 2645 1.604278 GATTAGGGTCAAATGGAGCGC 59.396 52.381 0.00 0.00 45.03 5.92
2121 2646 2.158755 AGGATTAGGGTCAAATGGAGCG 60.159 50.000 0.00 0.00 45.03 5.03
2122 2647 3.584733 AGGATTAGGGTCAAATGGAGC 57.415 47.619 0.00 0.00 43.35 4.70
2123 2648 4.860022 ACAAGGATTAGGGTCAAATGGAG 58.140 43.478 0.00 0.00 0.00 3.86
2262 2811 5.343058 CCAAAGTGACTTGCATATTTGAACG 59.657 40.000 0.00 0.00 37.83 3.95
2366 2917 2.889678 GGCTGATCAGAATCATTTCCCC 59.110 50.000 27.04 9.71 41.05 4.81
2370 2921 3.209410 GACCGGCTGATCAGAATCATTT 58.791 45.455 27.04 2.73 41.05 2.32
2373 2924 0.103026 CGACCGGCTGATCAGAATCA 59.897 55.000 27.04 0.00 39.63 2.57
2387 2938 1.876799 AGAGACATGCTAGATCGACCG 59.123 52.381 0.00 0.00 0.00 4.79
2388 2939 3.146066 AGAGAGACATGCTAGATCGACC 58.854 50.000 0.00 0.00 0.00 4.79
2389 2940 4.320202 GGAAGAGAGACATGCTAGATCGAC 60.320 50.000 0.00 0.00 0.00 4.20
2390 2941 3.818210 GGAAGAGAGACATGCTAGATCGA 59.182 47.826 0.00 0.00 0.00 3.59
2425 2976 2.310577 GCAGTCATCTTTCGTTGTTGC 58.689 47.619 0.00 0.00 0.00 4.17
2427 2978 1.069906 GCGCAGTCATCTTTCGTTGTT 60.070 47.619 0.30 0.00 0.00 2.83
2431 3008 0.792640 CTTGCGCAGTCATCTTTCGT 59.207 50.000 11.31 0.00 0.00 3.85
2454 3031 1.299165 ACATCTATGGTCGCGTCGC 60.299 57.895 7.29 7.29 0.00 5.19
2455 3032 0.248498 ACACATCTATGGTCGCGTCG 60.248 55.000 5.77 0.00 0.00 5.12
2456 3033 1.588404 CAACACATCTATGGTCGCGTC 59.412 52.381 5.77 0.00 0.00 5.19
2457 3034 1.640428 CAACACATCTATGGTCGCGT 58.360 50.000 5.77 0.00 0.00 6.01
2458 3035 0.301687 GCAACACATCTATGGTCGCG 59.698 55.000 0.00 0.00 0.00 5.87
2459 3036 1.368641 TGCAACACATCTATGGTCGC 58.631 50.000 0.00 0.00 0.00 5.19
2460 3037 4.621068 AATTGCAACACATCTATGGTCG 57.379 40.909 0.00 0.00 0.00 4.79
2461 3038 7.052565 CAAAAATTGCAACACATCTATGGTC 57.947 36.000 0.00 0.00 0.00 4.02
2477 3054 7.408500 GCAAAAAGACGCATATTGCAAAAATTG 60.408 33.333 1.71 0.00 45.36 2.32
2478 3055 6.578172 GCAAAAAGACGCATATTGCAAAAATT 59.422 30.769 1.71 0.00 45.36 1.82
2479 3056 6.079120 GCAAAAAGACGCATATTGCAAAAAT 58.921 32.000 1.71 0.00 45.36 1.82
2480 3057 5.438972 GCAAAAAGACGCATATTGCAAAAA 58.561 33.333 1.71 0.00 45.36 1.94
2481 3058 5.016275 GCAAAAAGACGCATATTGCAAAA 57.984 34.783 1.71 0.00 45.36 2.44
2489 3066 4.829064 ACTTTCTGCAAAAAGACGCATA 57.171 36.364 19.19 0.00 38.30 3.14
2499 3076 2.095263 GCCGCATCTAACTTTCTGCAAA 60.095 45.455 0.00 0.00 34.29 3.68
2519 3096 0.031994 AATTGCAACAACACCTCCGC 59.968 50.000 0.00 0.00 0.00 5.54
2521 3098 4.534794 CAAAAATTGCAACAACACCTCC 57.465 40.909 0.00 0.00 0.00 4.30
2553 3130 6.183360 ACCTCTTCTCTAAGTTTTGCAACAAC 60.183 38.462 0.00 7.48 35.05 3.32


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

AutoCloner maintained by Alex Coulton.