Multiple sequence alignment - TraesCS2A01G209400

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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 TraesCS2A01G209400 chr2A 100.000 2853 0 0 1 2853 193583965 193586817 0.000000e+00 5269.0
1 TraesCS2A01G209400 chr2A 98.720 781 10 0 1 781 572710344 572709564 0.000000e+00 1387.0
2 TraesCS2A01G209400 chr2A 97.475 792 13 4 1 786 674186360 674187150 0.000000e+00 1345.0
3 TraesCS2A01G209400 chr2A 96.000 700 22 3 104 797 705552978 705552279 0.000000e+00 1133.0
4 TraesCS2A01G209400 chr2B 89.948 1940 102 40 823 2693 235062474 235064389 0.000000e+00 2416.0
5 TraesCS2A01G209400 chr2B 83.491 1163 98 40 1579 2693 235906872 235907988 0.000000e+00 998.0
6 TraesCS2A01G209400 chr2B 90.426 752 39 15 840 1582 235905909 235906636 0.000000e+00 959.0
7 TraesCS2A01G209400 chr2B 83.279 616 69 18 914 1497 383355294 383355907 1.160000e-148 536.0
8 TraesCS2A01G209400 chr2B 96.970 33 1 0 2809 2841 731038688 731038656 3.970000e-04 56.5
9 TraesCS2A01G209400 chr2D 91.319 1152 63 18 785 1907 178696575 178697718 0.000000e+00 1539.0
10 TraesCS2A01G209400 chr2D 92.099 886 40 10 785 1642 178528842 178529725 0.000000e+00 1221.0
11 TraesCS2A01G209400 chr2D 91.646 802 61 5 2008 2806 178920888 178921686 0.000000e+00 1105.0
12 TraesCS2A01G209400 chr2D 81.591 1081 132 30 1637 2684 178534498 178535544 0.000000e+00 832.0
13 TraesCS2A01G209400 chr2D 82.179 982 110 28 1733 2684 178697790 178698736 0.000000e+00 784.0
14 TraesCS2A01G209400 chr2D 87.500 400 39 7 1126 1519 315425059 315425453 4.330000e-123 451.0
15 TraesCS2A01G209400 chr1A 98.981 785 7 1 1 785 535338722 535339505 0.000000e+00 1404.0
16 TraesCS2A01G209400 chr1A 79.498 478 87 9 2036 2508 449845517 449845988 2.120000e-86 329.0
17 TraesCS2A01G209400 chr6D 93.383 801 35 5 1 791 310390211 310389419 0.000000e+00 1170.0
18 TraesCS2A01G209400 chr6D 91.787 207 10 2 575 774 55898019 55897813 6.020000e-72 281.0
19 TraesCS2A01G209400 chr6D 76.334 431 87 13 2048 2471 409739239 409738817 1.720000e-52 217.0
20 TraesCS2A01G209400 chr7D 92.991 799 39 4 1 789 597029469 597030260 0.000000e+00 1149.0
21 TraesCS2A01G209400 chr7D 75.139 539 96 30 1965 2483 419383589 419383069 4.790000e-53 219.0
22 TraesCS2A01G209400 chr5D 92.875 800 39 5 1 790 378959088 378958297 0.000000e+00 1146.0
23 TraesCS2A01G209400 chr5D 75.304 494 90 23 2048 2534 461043542 461043074 1.040000e-49 207.0
24 TraesCS2A01G209400 chr1D 92.453 795 42 7 1 785 41578655 41577869 0.000000e+00 1120.0
25 TraesCS2A01G209400 chrUn 82.425 569 54 24 961 1495 27634819 27635375 3.350000e-124 455.0
26 TraesCS2A01G209400 chr7B 84.946 372 36 10 3 371 680774755 680775109 2.700000e-95 359.0
27 TraesCS2A01G209400 chr7B 96.774 31 1 0 2814 2844 558982813 558982783 5.000000e-03 52.8
28 TraesCS2A01G209400 chr3A 75.879 626 134 15 1915 2529 561065182 561065801 1.280000e-78 303.0
29 TraesCS2A01G209400 chr4B 77.515 507 101 11 2036 2534 515139283 515139784 2.780000e-75 292.0
30 TraesCS2A01G209400 chr7A 79.202 351 65 8 2051 2395 280020086 280020434 1.320000e-58 237.0
31 TraesCS2A01G209400 chr6B 85.366 205 20 6 1538 1735 79797133 79796932 1.340000e-48 204.0
32 TraesCS2A01G209400 chr4A 90.476 42 1 2 2814 2852 197220799 197220840 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 TraesCS2A01G209400 chr2A 193583965 193586817 2852 False 5269.0 5269 100.0000 1 2853 1 chr2A.!!$F1 2852
1 TraesCS2A01G209400 chr2A 572709564 572710344 780 True 1387.0 1387 98.7200 1 781 1 chr2A.!!$R1 780
2 TraesCS2A01G209400 chr2A 674186360 674187150 790 False 1345.0 1345 97.4750 1 786 1 chr2A.!!$F2 785
3 TraesCS2A01G209400 chr2A 705552279 705552978 699 True 1133.0 1133 96.0000 104 797 1 chr2A.!!$R2 693
4 TraesCS2A01G209400 chr2B 235062474 235064389 1915 False 2416.0 2416 89.9480 823 2693 1 chr2B.!!$F1 1870
5 TraesCS2A01G209400 chr2B 235905909 235907988 2079 False 978.5 998 86.9585 840 2693 2 chr2B.!!$F3 1853
6 TraesCS2A01G209400 chr2B 383355294 383355907 613 False 536.0 536 83.2790 914 1497 1 chr2B.!!$F2 583
7 TraesCS2A01G209400 chr2D 178528842 178529725 883 False 1221.0 1221 92.0990 785 1642 1 chr2D.!!$F1 857
8 TraesCS2A01G209400 chr2D 178696575 178698736 2161 False 1161.5 1539 86.7490 785 2684 2 chr2D.!!$F5 1899
9 TraesCS2A01G209400 chr2D 178920888 178921686 798 False 1105.0 1105 91.6460 2008 2806 1 chr2D.!!$F3 798
10 TraesCS2A01G209400 chr2D 178534498 178535544 1046 False 832.0 832 81.5910 1637 2684 1 chr2D.!!$F2 1047
11 TraesCS2A01G209400 chr1A 535338722 535339505 783 False 1404.0 1404 98.9810 1 785 1 chr1A.!!$F2 784
12 TraesCS2A01G209400 chr6D 310389419 310390211 792 True 1170.0 1170 93.3830 1 791 1 chr6D.!!$R2 790
13 TraesCS2A01G209400 chr7D 597029469 597030260 791 False 1149.0 1149 92.9910 1 789 1 chr7D.!!$F1 788
14 TraesCS2A01G209400 chr7D 419383069 419383589 520 True 219.0 219 75.1390 1965 2483 1 chr7D.!!$R1 518
15 TraesCS2A01G209400 chr5D 378958297 378959088 791 True 1146.0 1146 92.8750 1 790 1 chr5D.!!$R1 789
16 TraesCS2A01G209400 chr1D 41577869 41578655 786 True 1120.0 1120 92.4530 1 785 1 chr1D.!!$R1 784
17 TraesCS2A01G209400 chrUn 27634819 27635375 556 False 455.0 455 82.4250 961 1495 1 chrUn.!!$F1 534
18 TraesCS2A01G209400 chr3A 561065182 561065801 619 False 303.0 303 75.8790 1915 2529 1 chr3A.!!$F1 614
19 TraesCS2A01G209400 chr4B 515139283 515139784 501 False 292.0 292 77.5150 2036 2534 1 chr4B.!!$F1 498

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
231 232 0.660488 CTCTCCCATGACGTCTCTCG 59.34 60.0 17.92 2.09 46.0 4.04 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1932 2573 0.320697 AGAGTTTGCCGTAGTCACCC 59.679 55.0 0.0 0.0 0.0 4.61 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
102 103 5.181748 CGTCTCTTGGATGATCTTCCTTTT 58.818 41.667 23.94 0.00 36.68 2.27
231 232 0.660488 CTCTCCCATGACGTCTCTCG 59.340 60.000 17.92 2.09 46.00 4.04
296 300 4.554036 GGCGCCTCCCAGATGACC 62.554 72.222 22.15 0.00 0.00 4.02
392 396 3.888930 GGTGATTTGTTGTCCAGGAAAGA 59.111 43.478 0.00 0.00 0.00 2.52
799 812 2.675348 CAGTCCCAAGAAGAAAGATCGC 59.325 50.000 0.00 0.00 0.00 4.58
808 821 5.096443 AGAAGAAAGATCGCAGAGGAAAT 57.904 39.130 0.00 0.00 43.63 2.17
939 962 0.751643 AAAAGGCCACGACACAAGCT 60.752 50.000 5.01 0.00 0.00 3.74
1499 1590 0.627451 AGATGGCCAGGATTTGAGCA 59.373 50.000 13.05 0.00 0.00 4.26
1518 1614 3.699538 AGCACTTCTATCCACGACATGTA 59.300 43.478 0.00 0.00 0.00 2.29
1519 1615 4.342378 AGCACTTCTATCCACGACATGTAT 59.658 41.667 0.00 0.00 0.00 2.29
1520 1616 5.050490 GCACTTCTATCCACGACATGTATT 58.950 41.667 0.00 0.00 0.00 1.89
1521 1617 5.050769 GCACTTCTATCCACGACATGTATTG 60.051 44.000 0.00 0.00 0.00 1.90
1522 1618 6.042777 CACTTCTATCCACGACATGTATTGT 58.957 40.000 0.00 0.00 42.79 2.71
1523 1619 7.200455 CACTTCTATCCACGACATGTATTGTA 58.800 38.462 0.00 0.00 39.18 2.41
1573 1671 4.020543 GAGACCCTAGAGATGAACTGTGT 58.979 47.826 0.00 0.00 0.00 3.72
1628 1970 1.268899 CTACCTTTGTGACGACGAGGT 59.731 52.381 0.00 5.30 41.58 3.85
1665 2007 2.805671 TGCGCCTGTATTTATTCCATCG 59.194 45.455 4.18 0.00 0.00 3.84
1779 2145 1.878088 CATTCAGATCCAATCGGCCAG 59.122 52.381 2.24 0.00 0.00 4.85
1800 2423 6.536941 GCCAGTCTTCTTTTTCTATCACTAGG 59.463 42.308 0.00 0.00 0.00 3.02
1809 2441 6.594788 TTTTCTATCACTAGGTACCACGTT 57.405 37.500 15.94 0.00 0.00 3.99
1815 2447 8.159447 TCTATCACTAGGTACCACGTTATACAT 58.841 37.037 15.94 3.91 0.00 2.29
1876 2515 4.021719 ACAAGATTTTGATCACCTTGCCAG 60.022 41.667 18.51 2.28 38.13 4.85
1932 2573 7.445402 TCAAGAAATTCTCCTTGTCTAACCTTG 59.555 37.037 0.00 0.00 40.32 3.61
1941 2582 4.562963 CCTTGTCTAACCTTGGGTGACTAC 60.563 50.000 8.10 0.00 35.34 2.73
1955 2604 0.896226 GACTACGGCAAACTCTCCCT 59.104 55.000 0.00 0.00 0.00 4.20
1959 2608 2.677848 GGCAAACTCTCCCTCCCC 59.322 66.667 0.00 0.00 0.00 4.81
1975 2624 2.571216 CCCAACCTCACCGACGAGT 61.571 63.158 0.00 0.00 0.00 4.18
2008 2657 0.318441 TCCCTTCTGTCTGCTGTTCG 59.682 55.000 0.00 0.00 0.00 3.95
2010 2659 0.034059 CCTTCTGTCTGCTGTTCGGT 59.966 55.000 0.00 0.00 0.00 4.69
2011 2660 1.272490 CCTTCTGTCTGCTGTTCGGTA 59.728 52.381 0.00 0.00 0.00 4.02
2099 2769 1.216977 CATAGGTGTGGCGTTCGGA 59.783 57.895 0.00 0.00 0.00 4.55
2151 2824 1.045350 CCCGGCTCTGATCCTTCTCA 61.045 60.000 0.00 0.00 0.00 3.27
2177 2861 2.340577 CGTTTGTCTGGACGTAATCGAC 59.659 50.000 0.00 0.00 40.62 4.20
2276 2979 6.798427 AAGGTGCTTCAGATCTATGTAAGA 57.202 37.500 0.00 0.00 39.02 2.10
2659 3371 7.984617 CCTAATTATGGAGAGCTATTAAGAGGC 59.015 40.741 0.00 0.00 0.00 4.70
2661 3373 4.888326 ATGGAGAGCTATTAAGAGGCAG 57.112 45.455 0.00 0.00 0.00 4.85
2732 3444 4.980434 GTGTTAACATCACACGTGTCTAGT 59.020 41.667 20.49 14.09 35.50 2.57
2741 3453 8.301720 ACATCACACGTGTCTAGTAAAATAGAA 58.698 33.333 20.49 0.00 33.66 2.10
2764 3476 9.905713 AGAAGATGTGGCAAGTAATTAATTAGA 57.094 29.630 8.18 0.00 0.00 2.10
2812 3524 7.887381 AGTATGTTACTCACACTATAGATGGC 58.113 38.462 6.78 0.00 38.61 4.40
2813 3525 6.731292 ATGTTACTCACACTATAGATGGCA 57.269 37.500 6.78 0.00 38.61 4.92
2814 3526 5.902681 TGTTACTCACACTATAGATGGCAC 58.097 41.667 6.78 1.60 0.00 5.01
2815 3527 5.163447 TGTTACTCACACTATAGATGGCACC 60.163 44.000 6.78 0.00 0.00 5.01
2816 3528 3.374764 ACTCACACTATAGATGGCACCA 58.625 45.455 6.78 0.00 0.00 4.17
2817 3529 3.133003 ACTCACACTATAGATGGCACCAC 59.867 47.826 6.78 0.00 0.00 4.16
2818 3530 3.103742 TCACACTATAGATGGCACCACA 58.896 45.455 6.78 0.00 0.00 4.17
2819 3531 3.118775 TCACACTATAGATGGCACCACAC 60.119 47.826 6.78 0.00 0.00 3.82
2820 3532 2.837591 ACACTATAGATGGCACCACACA 59.162 45.455 6.78 0.00 0.00 3.72
2821 3533 3.455910 ACACTATAGATGGCACCACACAT 59.544 43.478 6.78 0.00 0.00 3.21
2822 3534 4.653801 ACACTATAGATGGCACCACACATA 59.346 41.667 6.78 0.00 0.00 2.29
2823 3535 5.307976 ACACTATAGATGGCACCACACATAT 59.692 40.000 6.78 0.00 0.00 1.78
2824 3536 5.640783 CACTATAGATGGCACCACACATATG 59.359 44.000 6.78 0.00 0.00 1.78
2825 3537 4.712051 ATAGATGGCACCACACATATGT 57.288 40.909 1.41 1.41 40.80 2.29
2826 3538 3.370840 AGATGGCACCACACATATGTT 57.629 42.857 5.37 0.00 36.72 2.71
2827 3539 4.502105 AGATGGCACCACACATATGTTA 57.498 40.909 5.37 0.00 36.72 2.41
2828 3540 4.199310 AGATGGCACCACACATATGTTAC 58.801 43.478 5.37 0.00 36.72 2.50
2829 3541 3.712016 TGGCACCACACATATGTTACT 57.288 42.857 5.37 0.00 36.72 2.24
2830 3542 3.605634 TGGCACCACACATATGTTACTC 58.394 45.455 5.37 0.00 36.72 2.59
2831 3543 2.943033 GGCACCACACATATGTTACTCC 59.057 50.000 5.37 0.00 36.72 3.85
2832 3544 2.943033 GCACCACACATATGTTACTCCC 59.057 50.000 5.37 0.00 36.72 4.30
2833 3545 3.621214 GCACCACACATATGTTACTCCCA 60.621 47.826 5.37 0.00 36.72 4.37
2834 3546 4.584874 CACCACACATATGTTACTCCCAA 58.415 43.478 5.37 0.00 36.72 4.12
2835 3547 4.394920 CACCACACATATGTTACTCCCAAC 59.605 45.833 5.37 0.00 36.72 3.77
2836 3548 4.288626 ACCACACATATGTTACTCCCAACT 59.711 41.667 5.37 0.00 36.72 3.16
2837 3549 5.486063 ACCACACATATGTTACTCCCAACTA 59.514 40.000 5.37 0.00 36.72 2.24
2838 3550 6.157994 ACCACACATATGTTACTCCCAACTAT 59.842 38.462 5.37 0.00 36.72 2.12
2839 3551 7.346175 ACCACACATATGTTACTCCCAACTATA 59.654 37.037 5.37 0.00 36.72 1.31
2840 3552 7.872993 CCACACATATGTTACTCCCAACTATAG 59.127 40.741 5.37 0.00 36.72 1.31
2841 3553 8.421784 CACACATATGTTACTCCCAACTATAGT 58.578 37.037 5.37 0.00 36.72 2.12
2842 3554 8.421784 ACACATATGTTACTCCCAACTATAGTG 58.578 37.037 5.37 0.94 34.46 2.74
2843 3555 7.872993 CACATATGTTACTCCCAACTATAGTGG 59.127 40.741 5.37 9.87 0.00 4.00
2844 3556 7.787904 ACATATGTTACTCCCAACTATAGTGGA 59.212 37.037 17.84 14.48 0.00 4.02
2845 3557 8.647796 CATATGTTACTCCCAACTATAGTGGAA 58.352 37.037 17.84 2.67 0.00 3.53
2846 3558 6.938698 TGTTACTCCCAACTATAGTGGAAA 57.061 37.500 17.84 7.33 0.00 3.13
2847 3559 6.704310 TGTTACTCCCAACTATAGTGGAAAC 58.296 40.000 17.84 15.99 0.00 2.78
2848 3560 6.270463 TGTTACTCCCAACTATAGTGGAAACA 59.730 38.462 17.52 17.52 38.70 2.83
2849 3561 7.037873 TGTTACTCCCAACTATAGTGGAAACAT 60.038 37.037 17.52 7.35 46.14 2.71
2850 3562 8.480501 GTTACTCCCAACTATAGTGGAAACATA 58.519 37.037 17.84 5.88 46.14 2.29
2851 3563 7.125792 ACTCCCAACTATAGTGGAAACATAG 57.874 40.000 17.84 7.34 46.14 2.23
2852 3564 6.672657 ACTCCCAACTATAGTGGAAACATAGT 59.327 38.462 17.84 7.82 46.14 2.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
102 103 5.887598 CAGATCTGAATAATTGGTGGTGGAA 59.112 40.000 18.34 0.00 0.00 3.53
231 232 8.608844 TGAGAAGAAAGAGTAGAAAAACATCC 57.391 34.615 0.00 0.00 0.00 3.51
296 300 4.083110 CCTCCTTTAACTTGCATCACACAG 60.083 45.833 0.00 0.00 0.00 3.66
799 812 2.009774 CGGGCTGTGTTATTTCCTCTG 58.990 52.381 0.00 0.00 0.00 3.35
856 869 1.648467 GGAATCCGACCAGTGCAAGC 61.648 60.000 0.00 0.00 0.00 4.01
889 902 8.522542 ACTATACTACCTTCTCATTCTCGTTT 57.477 34.615 0.00 0.00 0.00 3.60
1057 1109 0.375454 CGAGAGATCGAGCGAGTTGT 59.625 55.000 0.00 0.00 34.64 3.32
1058 1110 0.927994 GCGAGAGATCGAGCGAGTTG 60.928 60.000 1.17 0.00 34.64 3.16
1166 1236 0.610174 TGTAGCACTTGGAGCAGAGG 59.390 55.000 0.00 0.00 0.00 3.69
1256 1326 1.298157 CTCCGGCTTTCGTCAATGCA 61.298 55.000 0.00 0.00 34.93 3.96
1259 1329 0.673644 CACCTCCGGCTTTCGTCAAT 60.674 55.000 0.00 0.00 37.11 2.57
1277 1347 3.997400 CTCGGGCGTCTCCTCCTCA 62.997 68.421 0.00 0.00 34.39 3.86
1499 1590 6.222038 ACAATACATGTCGTGGATAGAAGT 57.778 37.500 0.00 0.00 37.96 3.01
1518 1614 4.023291 CAGCCCTGGGTTACAATTACAAT 58.977 43.478 15.56 0.00 0.00 2.71
1519 1615 3.074687 TCAGCCCTGGGTTACAATTACAA 59.925 43.478 15.56 0.00 0.00 2.41
1520 1616 2.645297 TCAGCCCTGGGTTACAATTACA 59.355 45.455 15.56 0.00 0.00 2.41
1521 1617 3.014623 GTCAGCCCTGGGTTACAATTAC 58.985 50.000 15.56 0.00 0.00 1.89
1522 1618 2.916934 AGTCAGCCCTGGGTTACAATTA 59.083 45.455 15.56 0.00 0.00 1.40
1523 1619 1.710809 AGTCAGCCCTGGGTTACAATT 59.289 47.619 15.56 0.00 0.00 2.32
1677 2019 8.723311 CCAAGAACGTAATGGAAATTTGTAGTA 58.277 33.333 8.13 0.00 36.27 1.82
1678 2020 7.590279 CCAAGAACGTAATGGAAATTTGTAGT 58.410 34.615 8.13 0.00 36.27 2.73
1679 2021 6.526674 GCCAAGAACGTAATGGAAATTTGTAG 59.473 38.462 15.97 0.00 36.27 2.74
1702 2052 1.094785 ATGATGCGTACCAACTTGCC 58.905 50.000 0.00 0.00 0.00 4.52
1779 2145 8.529476 TGGTACCTAGTGATAGAAAAAGAAGAC 58.471 37.037 14.36 0.00 0.00 3.01
1800 2423 6.897259 ACAATCACATGTATAACGTGGTAC 57.103 37.500 0.00 0.00 39.36 3.34
1902 2541 9.145865 GTTAGACAAGGAGAATTTCTTGAGTAG 57.854 37.037 17.91 0.00 41.94 2.57
1932 2573 0.320697 AGAGTTTGCCGTAGTCACCC 59.679 55.000 0.00 0.00 0.00 4.61
1941 2582 2.269241 GGGAGGGAGAGTTTGCCG 59.731 66.667 0.00 0.00 43.23 5.69
1955 2604 3.307906 CGTCGGTGAGGTTGGGGA 61.308 66.667 0.00 0.00 0.00 4.81
1959 2608 1.080705 GGACTCGTCGGTGAGGTTG 60.081 63.158 9.19 0.00 40.39 3.77
1975 2624 1.497309 AAGGGAGGCAAATCCACGGA 61.497 55.000 4.47 0.00 41.52 4.69
2008 2657 1.562672 TTGCCTCCCTTCTGCCTACC 61.563 60.000 0.00 0.00 0.00 3.18
2010 2659 1.298953 ATTTGCCTCCCTTCTGCCTA 58.701 50.000 0.00 0.00 0.00 3.93
2011 2660 0.411058 AATTTGCCTCCCTTCTGCCT 59.589 50.000 0.00 0.00 0.00 4.75
2099 2769 2.350458 AAAAAGCGCCGCCATCCAT 61.350 52.632 4.98 0.00 0.00 3.41
2129 2800 1.002274 AAGGATCAGAGCCGGGAGT 59.998 57.895 2.18 0.00 0.00 3.85
2151 2824 2.304751 ACGTCCAGACAAACGAACTT 57.695 45.000 1.52 0.00 41.29 2.66
2177 2861 2.884207 GAACTACGCCGAAGCCCG 60.884 66.667 0.00 0.00 34.57 6.13
2276 2979 1.677576 TGTAGTCGTCACCGTTGAACT 59.322 47.619 0.00 0.00 31.90 3.01
2300 3003 0.984230 CCTAAAGACCAGTGCCCTGA 59.016 55.000 0.00 0.00 41.50 3.86
2378 3085 2.515901 GTGCCACTGTCACCCCTT 59.484 61.111 0.00 0.00 0.00 3.95
2407 3114 2.159282 CGACCACTACAACCGCTAGAAT 60.159 50.000 0.00 0.00 0.00 2.40
2534 3244 6.459670 TGACAATAATCGCTTGGACTAGTA 57.540 37.500 0.00 0.00 0.00 1.82
2580 3291 1.850755 TCCCCTCCCAAAGACCACC 60.851 63.158 0.00 0.00 0.00 4.61
2659 3371 9.424319 TCTTAGTGTTTAAGATGAAAGTAGCTG 57.576 33.333 0.00 0.00 0.00 4.24
2661 3373 9.425577 AGTCTTAGTGTTTAAGATGAAAGTAGC 57.574 33.333 0.51 0.00 36.16 3.58
2705 3417 6.220930 AGACACGTGTGATGTTAACACTTAT 58.779 36.000 28.82 0.00 44.64 1.73
2712 3424 8.821147 ATTTTACTAGACACGTGTGATGTTAA 57.179 30.769 28.82 16.82 0.00 2.01
2716 3428 8.683550 TTCTATTTTACTAGACACGTGTGATG 57.316 34.615 28.82 16.91 0.00 3.07
2724 3436 7.764443 TGCCACATCTTCTATTTTACTAGACAC 59.236 37.037 0.00 0.00 0.00 3.67
2761 3473 6.530120 TGTTACAACATGCCTCTCTTTTCTA 58.470 36.000 0.00 0.00 33.17 2.10
2795 3507 3.133003 GTGGTGCCATCTATAGTGTGAGT 59.867 47.826 0.00 0.00 0.00 3.41
2806 3518 3.370840 AACATATGTGTGGTGCCATCT 57.629 42.857 9.63 0.00 38.92 2.90
2807 3519 4.199310 AGTAACATATGTGTGGTGCCATC 58.801 43.478 9.63 0.00 38.92 3.51
2808 3520 4.199310 GAGTAACATATGTGTGGTGCCAT 58.801 43.478 9.63 0.00 38.92 4.40
2809 3521 3.605634 GAGTAACATATGTGTGGTGCCA 58.394 45.455 9.63 0.00 38.92 4.92
2810 3522 2.943033 GGAGTAACATATGTGTGGTGCC 59.057 50.000 9.63 3.29 38.92 5.01
2811 3523 2.943033 GGGAGTAACATATGTGTGGTGC 59.057 50.000 9.63 0.00 38.92 5.01
2812 3524 4.214986 TGGGAGTAACATATGTGTGGTG 57.785 45.455 9.63 0.00 38.92 4.17
2813 3525 4.288626 AGTTGGGAGTAACATATGTGTGGT 59.711 41.667 9.63 0.00 38.92 4.16
2814 3526 4.843728 AGTTGGGAGTAACATATGTGTGG 58.156 43.478 9.63 0.00 38.92 4.17
2815 3527 8.421784 ACTATAGTTGGGAGTAACATATGTGTG 58.578 37.037 9.63 0.00 38.92 3.82
2816 3528 8.421784 CACTATAGTTGGGAGTAACATATGTGT 58.578 37.037 9.63 2.63 41.28 3.72
2817 3529 7.872993 CCACTATAGTTGGGAGTAACATATGTG 59.127 40.741 9.63 0.00 33.02 3.21
2818 3530 7.787904 TCCACTATAGTTGGGAGTAACATATGT 59.212 37.037 16.55 1.41 33.02 2.29
2819 3531 8.190326 TCCACTATAGTTGGGAGTAACATATG 57.810 38.462 16.55 0.00 33.02 1.78
2820 3532 8.792830 TTCCACTATAGTTGGGAGTAACATAT 57.207 34.615 16.55 0.00 33.02 1.78
2821 3533 8.480501 GTTTCCACTATAGTTGGGAGTAACATA 58.519 37.037 15.51 0.42 33.02 2.29
2822 3534 7.037873 TGTTTCCACTATAGTTGGGAGTAACAT 60.038 37.037 17.52 0.00 29.68 2.71
2823 3535 6.270463 TGTTTCCACTATAGTTGGGAGTAACA 59.730 38.462 17.52 17.52 31.28 2.41
2824 3536 6.704310 TGTTTCCACTATAGTTGGGAGTAAC 58.296 40.000 16.55 15.41 0.00 2.50
2825 3537 6.938698 TGTTTCCACTATAGTTGGGAGTAA 57.061 37.500 16.55 6.81 0.00 2.24
2826 3538 7.842743 ACTATGTTTCCACTATAGTTGGGAGTA 59.157 37.037 16.55 6.73 34.82 2.59
2827 3539 6.672657 ACTATGTTTCCACTATAGTTGGGAGT 59.327 38.462 16.55 7.32 34.82 3.85
2828 3540 7.125792 ACTATGTTTCCACTATAGTTGGGAG 57.874 40.000 16.55 6.84 34.82 4.30


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

AutoCloner maintained by Alex Coulton.