Multiple sequence alignment - TraesCS7D01G378500

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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 TraesCS7D01G378500 chr7D 100.000 2103 0 0 1 2103 489723089 489720987 0.000000e+00 3884.0
1 TraesCS7D01G378500 chr7D 100.000 1498 0 0 2514 4011 489720576 489719079 0.000000e+00 2767.0
2 TraesCS7D01G378500 chr7B 91.365 2096 117 35 42 2103 518389784 518387719 0.000000e+00 2809.0
3 TraesCS7D01G378500 chr7B 95.682 1297 49 5 2722 4011 518387467 518386171 0.000000e+00 2078.0
4 TraesCS7D01G378500 chr7B 92.611 203 11 2 2524 2723 518387712 518387511 5.070000e-74 289.0
5 TraesCS7D01G378500 chr7A 88.034 2131 127 57 1 2079 556507420 556505366 0.000000e+00 2405.0
6 TraesCS7D01G378500 chr7A 91.095 539 44 2 3476 4011 556504511 556503974 0.000000e+00 726.0
7 TraesCS7D01G378500 chr7A 84.430 745 64 24 2722 3423 556505233 556504498 0.000000e+00 686.0
8 TraesCS7D01G378500 chr7A 88.636 88 6 2 2639 2723 556505357 556505271 1.970000e-18 104.0
9 TraesCS7D01G378500 chr6B 88.128 219 26 0 1520 1738 223571472 223571254 1.110000e-65 261.0
10 TraesCS7D01G378500 chr6A 87.671 219 27 0 1520 1738 155224781 155224999 5.140000e-64 255.0
11 TraesCS7D01G378500 chr6D 86.547 223 29 1 1520 1741 125246960 125246738 1.110000e-60 244.0
12 TraesCS7D01G378500 chr5B 94.340 53 3 0 3428 3480 562467376 562467324 9.240000e-12 82.4
13 TraesCS7D01G378500 chr3D 88.525 61 4 1 3423 3480 131807453 131807393 2.000000e-08 71.3
14 TraesCS7D01G378500 chr3B 90.741 54 3 2 3428 3480 202583411 202583359 2.000000e-08 71.3


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 TraesCS7D01G378500 chr7D 489719079 489723089 4010 True 3325.500000 3884 100.000000 1 4011 2 chr7D.!!$R1 4010
1 TraesCS7D01G378500 chr7B 518386171 518389784 3613 True 1725.333333 2809 93.219333 42 4011 3 chr7B.!!$R1 3969
2 TraesCS7D01G378500 chr7A 556503974 556507420 3446 True 980.250000 2405 88.048750 1 4011 4 chr7A.!!$R1 4010

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
989 1040 0.106708 TGAGTTGTGGGCACTGAGTC 59.893 55.0 0.0 0.0 0.0 3.36 F
2588 2662 0.738389 ACAAAAAGGTCTGGCACACG 59.262 50.0 0.0 0.0 0.0 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2892 3017 0.107800 CTCCTCTGGTGCCATGTGAG 60.108 60.0 0.0 0.0 0.0 3.51 R
3646 3815 0.467384 CAGGGCGATCTGGTTCATCT 59.533 55.0 0.0 0.0 0.0 2.90 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
21 22 0.972983 CCCATCACTCCCTGACGTCT 60.973 60.000 17.92 0.00 0.00 4.18
55 56 4.415150 CGCCCCCACATGTCAGCT 62.415 66.667 0.00 0.00 0.00 4.24
74 75 3.039202 GCACCAAACCATCCTCGCG 62.039 63.158 0.00 0.00 0.00 5.87
79 80 3.894547 AAACCATCCTCGCGCGGTT 62.895 57.895 31.69 21.22 43.55 4.44
204 210 4.115199 CCCAGGGGCGAAGAAGGG 62.115 72.222 0.00 0.00 0.00 3.95
221 227 1.202651 AGGGAAAATATCGCACCTCCG 60.203 52.381 0.00 0.00 43.19 4.63
248 254 2.095252 GGTCGAAGCTCGTGCCTTC 61.095 63.158 5.73 8.39 41.35 3.46
390 397 1.302192 GGTGTTCTTGCGGCTGGTA 60.302 57.895 0.00 0.00 0.00 3.25
494 502 0.603569 GAGAACTCAACTGAGCCCGA 59.396 55.000 6.63 0.00 45.79 5.14
495 503 0.605589 AGAACTCAACTGAGCCCGAG 59.394 55.000 6.63 0.00 45.79 4.63
496 504 1.004440 AACTCAACTGAGCCCGAGC 60.004 57.895 6.63 0.00 45.79 5.03
541 549 4.295141 TGGTACTTGGTTGGTAGGATTG 57.705 45.455 0.00 0.00 0.00 2.67
565 574 1.560146 GGGGTCTTGCTTAGGTTAGCT 59.440 52.381 0.00 0.00 41.76 3.32
654 665 0.248054 CTTGTTGTTGTTGTCGCGCT 60.248 50.000 5.56 0.00 0.00 5.92
683 695 1.136147 GCTGCCACTGCTGATTTCG 59.864 57.895 0.00 0.00 38.61 3.46
714 726 4.996758 TCATTTCAGATTCAGTCTTTGCGA 59.003 37.500 0.00 0.00 34.00 5.10
717 729 6.653273 TTTCAGATTCAGTCTTTGCGATAG 57.347 37.500 0.00 0.00 34.00 2.08
731 743 1.472276 CGATAGCGTGCCGTCTTGTC 61.472 60.000 0.00 0.00 0.00 3.18
749 761 7.185453 GTCTTGTCATTAGCTGATTGATTGAC 58.815 38.462 0.00 0.00 35.97 3.18
773 792 5.743872 CGATTGTGACGATGAAATACTGAGA 59.256 40.000 0.00 0.00 0.00 3.27
775 794 5.644977 TGTGACGATGAAATACTGAGAGT 57.355 39.130 0.00 0.00 0.00 3.24
776 795 5.641709 TGTGACGATGAAATACTGAGAGTC 58.358 41.667 0.00 0.00 0.00 3.36
778 797 6.127619 TGTGACGATGAAATACTGAGAGTCAT 60.128 38.462 0.00 0.00 38.19 3.06
780 799 6.319911 TGACGATGAAATACTGAGAGTCATCT 59.680 38.462 9.53 0.00 41.50 2.90
781 800 7.106439 ACGATGAAATACTGAGAGTCATCTT 57.894 36.000 9.53 0.00 41.50 2.40
782 801 7.199766 ACGATGAAATACTGAGAGTCATCTTC 58.800 38.462 9.53 0.00 41.50 2.87
783 802 7.068103 ACGATGAAATACTGAGAGTCATCTTCT 59.932 37.037 9.53 0.00 41.50 2.85
794 818 5.226396 AGAGTCATCTTCTTTCGTGTGAAG 58.774 41.667 0.00 0.00 40.53 3.02
838 870 1.134995 TGACTCTGAATGCGGTAGCTG 60.135 52.381 0.00 0.00 45.42 4.24
914 950 3.142174 AGCAGTTACCAAAGCTTGAGAC 58.858 45.455 0.00 0.00 32.52 3.36
917 953 3.499918 CAGTTACCAAAGCTTGAGACCTG 59.500 47.826 0.00 0.00 0.00 4.00
926 962 2.233431 AGCTTGAGACCTGATCTGACAC 59.767 50.000 0.38 0.00 38.00 3.67
989 1040 0.106708 TGAGTTGTGGGCACTGAGTC 59.893 55.000 0.00 0.00 0.00 3.36
1067 1118 4.793071 CATGGTATGAAGCTAGAGTCGAG 58.207 47.826 0.00 0.00 0.00 4.04
1146 1197 9.489084 TTCAATAGTATTATCATGAAGTTCCCG 57.511 33.333 0.00 0.00 0.00 5.14
1161 1212 0.966875 TCCCGAAAATCGACGAGGGA 60.967 55.000 15.76 15.76 43.74 4.20
1234 1285 2.346847 CGCTCTTTGTGTGCTAGTCATC 59.653 50.000 0.00 0.00 33.42 2.92
1254 1307 8.871125 AGTCATCTTTCTTGTCCTTCTAAGTTA 58.129 33.333 0.00 0.00 0.00 2.24
1267 1320 7.919621 GTCCTTCTAAGTTAATAGCTAGCGAAA 59.080 37.037 9.55 0.00 0.00 3.46
1319 1372 7.554959 TTGAAGTTACTAATGAAGGAGGAGT 57.445 36.000 0.00 0.00 0.00 3.85
1335 1388 7.451731 AGGAGGAGTGGATCAATAAATTGTA 57.548 36.000 0.00 0.00 38.84 2.41
1336 1389 7.872138 AGGAGGAGTGGATCAATAAATTGTAA 58.128 34.615 0.00 0.00 38.84 2.41
1373 1447 8.621286 ACTTAATAAACTGTTGAGTTCAAGTGG 58.379 33.333 0.00 0.00 41.87 4.00
1380 1454 4.804108 TGTTGAGTTCAAGTGGTGTTTTG 58.196 39.130 0.00 0.00 36.39 2.44
1506 1580 3.944087 ACTAACAGATCCAGAACTTGCC 58.056 45.455 0.00 0.00 0.00 4.52
1513 1587 2.327325 TCCAGAACTTGCCTCCTACT 57.673 50.000 0.00 0.00 0.00 2.57
1574 1648 5.711036 AGAAGAGCTGAAGAATTGCTTTCAT 59.289 36.000 0.00 0.00 36.83 2.57
1737 1811 4.509600 CAGAAGCGGTATCCTTCATTCTTC 59.490 45.833 6.89 0.00 40.83 2.87
1752 1826 4.935205 TCATTCTTCATACACTGTTTCCCG 59.065 41.667 0.00 0.00 0.00 5.14
1773 1847 7.458397 TCCCGTTAAAAGGATATCATAGCATT 58.542 34.615 4.83 0.00 0.00 3.56
1826 1900 8.523915 AGATGGTATTCACAAAATTCTGCATA 57.476 30.769 0.00 0.00 0.00 3.14
1882 1956 6.817765 TGCAGGAGTTTTACTATTTCCTTG 57.182 37.500 0.00 0.00 36.15 3.61
1922 1996 6.269769 AGACAAAGATGGGATTAGGAGATCTC 59.730 42.308 14.75 14.75 0.00 2.75
1982 2056 6.801718 TTCTTGGATAAGAATAAGGACGGA 57.198 37.500 0.00 0.00 45.46 4.69
2073 2147 6.485313 CCGTATAGCCATGAAAAGATTTGGTA 59.515 38.462 0.00 0.00 0.00 3.25
2097 2171 9.751542 GTAAGTTCACATACTTCATAGTAGCAT 57.248 33.333 0.00 0.00 40.09 3.79
2100 2174 6.410942 TCACATACTTCATAGTAGCATGCT 57.589 37.500 25.99 25.99 40.09 3.79
2570 2644 6.206829 ACAGCTTTTTCTCATACCAAAGGTAC 59.793 38.462 0.00 0.00 41.31 3.34
2577 2651 7.519032 TTCTCATACCAAAGGTACAAAAAGG 57.481 36.000 0.00 0.00 41.31 3.11
2582 2656 3.958147 ACCAAAGGTACAAAAAGGTCTGG 59.042 43.478 0.00 0.00 32.11 3.86
2588 2662 0.738389 ACAAAAAGGTCTGGCACACG 59.262 50.000 0.00 0.00 0.00 4.49
2636 2710 4.406648 TTGACTGGACATATGCCTACTG 57.593 45.455 14.63 5.30 0.00 2.74
2699 2773 6.817270 TTTTAACGTTCACTCTACACTCAC 57.183 37.500 2.82 0.00 0.00 3.51
2746 2868 6.567959 TCTGAATGTAGCTACTTGATGTCAG 58.432 40.000 23.84 22.61 0.00 3.51
2778 2900 6.600350 CAGAATCATCTGTGAACAAACTCTG 58.400 40.000 0.00 0.00 46.60 3.35
2779 2901 5.180868 AGAATCATCTGTGAACAAACTCTGC 59.819 40.000 0.00 0.00 38.01 4.26
2780 2902 3.807553 TCATCTGTGAACAAACTCTGCA 58.192 40.909 0.00 0.00 0.00 4.41
2781 2903 4.198530 TCATCTGTGAACAAACTCTGCAA 58.801 39.130 0.00 0.00 0.00 4.08
2782 2904 4.639755 TCATCTGTGAACAAACTCTGCAAA 59.360 37.500 0.00 0.00 0.00 3.68
2842 2966 5.412594 TCCAAAACTGATAATCTGCACTGTC 59.587 40.000 0.00 0.00 0.00 3.51
2854 2978 1.273606 TGCACTGTCAGTCTAGAAGCC 59.726 52.381 1.37 0.00 0.00 4.35
2887 3012 9.139734 TCTTATTCGGTAACTAATGTATGTCCT 57.860 33.333 0.00 0.00 33.46 3.85
2892 3017 8.483307 TCGGTAACTAATGTATGTCCTTTTTC 57.517 34.615 0.00 0.00 0.00 2.29
3013 3140 2.731027 CGAGGACGACGATGAATGAACA 60.731 50.000 0.00 0.00 42.66 3.18
3043 3172 1.869767 CGACAGCTGAAGAATATGGCC 59.130 52.381 23.35 0.00 0.00 5.36
3090 3219 9.113876 GTGGTTTTATCTTCTTTTATGTTCGTG 57.886 33.333 0.00 0.00 0.00 4.35
3124 3268 3.849911 ACATGTCTGAACACCTGTATCG 58.150 45.455 0.00 0.00 38.48 2.92
3166 3311 2.867975 GCCTCCATTGCACAAATTATGC 59.132 45.455 7.51 7.51 43.68 3.14
3170 3315 5.163530 CCTCCATTGCACAAATTATGCTGTA 60.164 40.000 13.95 2.93 43.77 2.74
3211 3377 1.608590 CCCGTGCTGATTTGTTCTTGT 59.391 47.619 0.00 0.00 0.00 3.16
3242 3408 9.546428 CTTATACTTGTTGACATACATCATCCA 57.454 33.333 0.00 0.00 0.00 3.41
3256 3422 8.618677 CATACATCATCCAATATTCATGCCTAC 58.381 37.037 0.00 0.00 0.00 3.18
3291 3457 4.718858 TGTGAAATCAGTTTAACGACCG 57.281 40.909 0.00 0.00 32.20 4.79
3294 3460 3.742369 TGAAATCAGTTTAACGACCGGAC 59.258 43.478 9.46 0.00 0.00 4.79
3311 3477 1.243902 GACACCGAGCCCAAAATCAA 58.756 50.000 0.00 0.00 0.00 2.57
3382 3548 5.116180 TCCAGATCGTTAACATCACAATCC 58.884 41.667 6.39 0.00 0.00 3.01
3426 3592 7.857885 CCTCTGACAGAATAAACACAAGTTTTC 59.142 37.037 6.61 0.00 45.32 2.29
3567 3736 3.961408 ACCAATAGCTCTACCGACTGATT 59.039 43.478 0.00 0.00 0.00 2.57
3605 3774 4.538490 ACCCTAATCAAACATCACTACCCA 59.462 41.667 0.00 0.00 0.00 4.51
3682 3851 0.036952 CTGTGCCGGATGAGAACACT 60.037 55.000 5.05 0.00 32.49 3.55
3728 3900 0.514691 GCTCGATTCCGGAATGATGC 59.485 55.000 33.84 26.26 36.24 3.91
3774 3946 2.202395 GGCCAAGGCTGTTGCTGAA 61.202 57.895 11.40 0.00 41.60 3.02
3812 3984 1.077429 CTGGGGCTGTTTAGGAGGC 60.077 63.158 0.00 0.00 35.29 4.70
3937 4109 3.716006 CCACTTGCAGTCACGGCG 61.716 66.667 4.80 4.80 0.00 6.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
55 56 1.971167 GCGAGGATGGTTTGGTGCA 60.971 57.895 0.00 0.00 0.00 4.57
204 210 0.586802 GGCGGAGGTGCGATATTTTC 59.413 55.000 0.00 0.00 35.06 2.29
231 237 2.095252 GGAAGGCACGAGCTTCGAC 61.095 63.158 4.48 4.39 43.74 4.20
332 338 2.091555 GGAGACTGGGAGTGGATAGAGT 60.092 54.545 0.00 0.00 0.00 3.24
496 504 3.522731 CTCGGTCTCGGGCTGGAG 61.523 72.222 0.00 0.00 36.95 3.86
541 549 1.303282 CCTAAGCAAGACCCCACCC 59.697 63.158 0.00 0.00 0.00 4.61
604 614 8.165239 ACTTGACAGTTGACAGCAATAATTAA 57.835 30.769 0.00 0.00 36.22 1.40
606 616 6.639632 ACTTGACAGTTGACAGCAATAATT 57.360 33.333 0.00 0.00 36.22 1.40
608 618 5.176774 CGTACTTGACAGTTGACAGCAATAA 59.823 40.000 0.00 0.00 36.22 1.40
610 620 3.494626 CGTACTTGACAGTTGACAGCAAT 59.505 43.478 0.00 0.00 36.22 3.56
611 621 2.863740 CGTACTTGACAGTTGACAGCAA 59.136 45.455 0.00 0.00 34.06 3.91
613 623 1.192534 GCGTACTTGACAGTTGACAGC 59.807 52.381 0.00 0.00 34.06 4.40
614 624 2.726760 GAGCGTACTTGACAGTTGACAG 59.273 50.000 0.00 0.00 34.06 3.51
615 625 2.361119 AGAGCGTACTTGACAGTTGACA 59.639 45.455 0.00 0.00 34.06 3.58
616 626 3.014604 AGAGCGTACTTGACAGTTGAC 57.985 47.619 0.00 0.00 34.06 3.18
617 627 3.181479 ACAAGAGCGTACTTGACAGTTGA 60.181 43.478 22.91 0.00 46.85 3.18
618 628 3.123804 ACAAGAGCGTACTTGACAGTTG 58.876 45.455 22.91 3.87 46.85 3.16
619 629 3.454371 ACAAGAGCGTACTTGACAGTT 57.546 42.857 22.91 4.97 46.85 3.16
620 630 3.123804 CAACAAGAGCGTACTTGACAGT 58.876 45.455 22.91 5.25 46.85 3.55
683 695 6.426328 AGACTGAATCTGAAATGAACAGTGAC 59.574 38.462 0.00 0.00 37.58 3.67
720 732 1.275010 TCAGCTAATGACAAGACGGCA 59.725 47.619 0.00 0.00 31.12 5.69
723 735 5.980698 ATCAATCAGCTAATGACAAGACG 57.019 39.130 0.00 0.00 41.91 4.18
731 743 6.631636 CACAATCGTCAATCAATCAGCTAATG 59.368 38.462 0.00 0.00 0.00 1.90
749 761 5.743872 TCTCAGTATTTCATCGTCACAATCG 59.256 40.000 0.00 0.00 0.00 3.34
773 792 5.201713 TCTTCACACGAAAGAAGATGACT 57.798 39.130 11.92 0.00 43.74 3.41
775 794 5.842907 TCTTCTTCACACGAAAGAAGATGA 58.157 37.500 19.21 20.41 46.72 2.92
776 795 6.530913 TTCTTCTTCACACGAAAGAAGATG 57.469 37.500 22.13 20.37 46.72 2.90
778 797 6.280643 TCATTCTTCTTCACACGAAAGAAGA 58.719 36.000 19.21 19.21 46.09 2.87
780 799 8.777865 ATATCATTCTTCTTCACACGAAAGAA 57.222 30.769 0.00 0.00 34.22 2.52
781 800 8.777865 AATATCATTCTTCTTCACACGAAAGA 57.222 30.769 0.00 0.00 0.00 2.52
782 801 8.877779 AGAATATCATTCTTCTTCACACGAAAG 58.122 33.333 0.00 0.00 0.00 2.62
783 802 8.777865 AGAATATCATTCTTCTTCACACGAAA 57.222 30.769 0.00 0.00 0.00 3.46
794 818 9.809096 TCACAACTCACTAGAATATCATTCTTC 57.191 33.333 6.72 0.00 0.00 2.87
838 870 2.709475 CAAACTATGCTCGCCGCC 59.291 61.111 0.00 0.00 38.05 6.13
914 950 4.186926 CCATAGTTGTGTGTCAGATCAGG 58.813 47.826 0.00 0.00 0.00 3.86
917 953 5.237815 TGAACCATAGTTGTGTGTCAGATC 58.762 41.667 0.00 0.00 35.94 2.75
926 962 6.151691 CACCTGAAAATGAACCATAGTTGTG 58.848 40.000 0.00 0.00 35.94 3.33
989 1040 2.050350 CCTCCCATGCCAGCACTTG 61.050 63.158 0.00 0.00 0.00 3.16
1050 1101 4.075682 CCATCCTCGACTCTAGCTTCATA 58.924 47.826 0.00 0.00 0.00 2.15
1067 1118 1.748591 GCTTCATGGACTCCACCATCC 60.749 57.143 0.00 0.00 46.24 3.51
1098 1149 2.767505 GACTTGACCGAAGTTCCATGT 58.232 47.619 0.00 0.00 45.48 3.21
1146 1197 3.782046 TCTCAATCCCTCGTCGATTTTC 58.218 45.455 0.00 0.00 0.00 2.29
1161 1212 9.017509 TCAAAGATAGTCTTGCATTTTCTCAAT 57.982 29.630 0.00 0.00 36.71 2.57
1234 1285 9.660180 AGCTATTAACTTAGAAGGACAAGAAAG 57.340 33.333 0.00 0.00 0.00 2.62
1254 1307 4.568359 CACTGTCACATTTCGCTAGCTATT 59.432 41.667 13.93 0.00 0.00 1.73
1267 1320 5.157940 AGCAAGTAAGATCACTGTCACAT 57.842 39.130 0.00 0.00 0.00 3.21
1304 1357 5.620738 TTGATCCACTCCTCCTTCATTAG 57.379 43.478 0.00 0.00 0.00 1.73
1373 1447 0.179129 ACTGCTGCACTGCAAAACAC 60.179 50.000 4.99 0.00 42.83 3.32
1380 1454 1.748122 ATAGGCACTGCTGCACTGC 60.748 57.895 21.23 21.23 46.28 4.40
1506 1580 7.710475 GGAATCTTCATCTGAGAAAAGTAGGAG 59.290 40.741 7.54 0.00 0.00 3.69
1513 1587 6.950041 ACCATTGGAATCTTCATCTGAGAAAA 59.050 34.615 10.37 0.00 0.00 2.29
1574 1648 6.053632 TCTGTGAATGAGATTTCCAGCTTA 57.946 37.500 0.00 0.00 30.46 3.09
1721 1795 7.275920 ACAGTGTATGAAGAATGAAGGATACC 58.724 38.462 0.00 0.00 37.17 2.73
1737 1811 5.470777 TCCTTTTAACGGGAAACAGTGTATG 59.529 40.000 0.00 0.00 39.29 2.39
1882 1956 6.422776 TCTTTGTCTTCTGTGTTTTCAGTC 57.577 37.500 0.00 0.00 36.85 3.51
1922 1996 3.248602 CCAAGGTCTCAAAAGTTGACTCG 59.751 47.826 0.00 0.00 35.46 4.18
1982 2056 9.097946 TGAATCATCTCATCCTTACTCACATAT 57.902 33.333 0.00 0.00 0.00 1.78
2073 2147 7.225538 GCATGCTACTATGAAGTATGTGAACTT 59.774 37.037 11.37 0.00 42.36 2.66
2513 2587 9.936759 TTCACAAATATATATATGACTGCGGAA 57.063 29.630 6.00 8.68 0.00 4.30
2544 2618 5.598417 ACCTTTGGTATGAGAAAAAGCTGTT 59.402 36.000 0.00 0.00 32.11 3.16
2548 2622 6.569179 TGTACCTTTGGTATGAGAAAAAGC 57.431 37.500 0.00 0.00 40.54 3.51
2570 2644 1.021202 TCGTGTGCCAGACCTTTTTG 58.979 50.000 0.00 0.00 0.00 2.44
2577 2651 0.244994 AGAGACATCGTGTGCCAGAC 59.755 55.000 0.00 0.00 0.00 3.51
2582 2656 3.433274 TCATTTGAAGAGACATCGTGTGC 59.567 43.478 0.00 0.00 0.00 4.57
2680 2754 2.615447 TCGTGAGTGTAGAGTGAACGTT 59.385 45.455 0.00 0.00 0.00 3.99
2699 2773 7.431960 CAGAGTTTTCTTCATCTAGATGACTCG 59.568 40.741 30.73 21.83 46.49 4.18
2757 2879 4.823442 TGCAGAGTTTGTTCACAGATGATT 59.177 37.500 0.00 0.00 33.85 2.57
2779 2901 7.011669 AGAGAAGGCAAAACATTCACAATTTTG 59.988 33.333 4.67 4.67 43.20 2.44
2780 2902 7.011669 CAGAGAAGGCAAAACATTCACAATTTT 59.988 33.333 0.00 0.00 0.00 1.82
2781 2903 6.480981 CAGAGAAGGCAAAACATTCACAATTT 59.519 34.615 0.00 0.00 0.00 1.82
2782 2904 5.987347 CAGAGAAGGCAAAACATTCACAATT 59.013 36.000 0.00 0.00 0.00 2.32
2842 2966 2.468831 GAAGATGCGGCTTCTAGACTG 58.531 52.381 17.45 0.00 40.80 3.51
2854 2978 7.169308 ACATTAGTTACCGAATAAGAAGATGCG 59.831 37.037 0.00 0.00 0.00 4.73
2883 3008 2.029918 GGTGCCATGTGAGAAAAAGGAC 60.030 50.000 0.00 0.00 0.00 3.85
2887 3012 2.886523 CTCTGGTGCCATGTGAGAAAAA 59.113 45.455 1.11 0.00 0.00 1.94
2892 3017 0.107800 CTCCTCTGGTGCCATGTGAG 60.108 60.000 0.00 0.00 0.00 3.51
3013 3140 0.035317 TCAGCTGTCGCTTCCACATT 59.965 50.000 14.67 0.00 46.47 2.71
3038 3167 3.317993 GCAACCAATTTATAGTCGGCCAT 59.682 43.478 2.24 0.00 0.00 4.40
3039 3168 2.685897 GCAACCAATTTATAGTCGGCCA 59.314 45.455 2.24 0.00 0.00 5.36
3043 3172 5.273170 CACCATGCAACCAATTTATAGTCG 58.727 41.667 0.00 0.00 0.00 4.18
3090 3219 7.009999 GTGTTCAGACATGTCAGTCATTCTATC 59.990 40.741 27.02 7.30 40.98 2.08
3124 3268 2.726760 CGAAGCTGTTACAGACACTGTC 59.273 50.000 17.40 0.38 41.21 3.51
3166 3311 5.444218 GCGGTCTCTTTTGTTTACGATACAG 60.444 44.000 0.00 0.00 0.00 2.74
3170 3315 2.740447 GGCGGTCTCTTTTGTTTACGAT 59.260 45.455 0.00 0.00 0.00 3.73
3211 3377 9.529325 GATGTATGTCAACAAGTATAAGCTACA 57.471 33.333 0.00 0.00 32.02 2.74
3242 3408 7.611467 TCTGTTGTCAAAGTAGGCATGAATATT 59.389 33.333 0.00 0.00 0.00 1.28
3256 3422 7.198390 ACTGATTTCACAATCTGTTGTCAAAG 58.802 34.615 2.59 0.00 45.14 2.77
3291 3457 0.608035 TGATTTTGGGCTCGGTGTCC 60.608 55.000 0.00 0.00 41.87 4.02
3294 3460 1.247567 ACTTGATTTTGGGCTCGGTG 58.752 50.000 0.00 0.00 0.00 4.94
3311 3477 4.196971 GTTATTGGGCTTCGGATTGTACT 58.803 43.478 0.00 0.00 0.00 2.73
3382 3548 4.024556 CAGAGGCTCCATGCTATTTTAACG 60.025 45.833 11.71 0.00 42.39 3.18
3433 3601 6.753744 GGATCAATAAAGTGTTGGCAAATCTC 59.246 38.462 0.00 0.00 0.00 2.75
3567 3736 1.776662 AGGGTTCGCTAGCTGTATCA 58.223 50.000 13.93 0.00 0.00 2.15
3646 3815 0.467384 CAGGGCGATCTGGTTCATCT 59.533 55.000 0.00 0.00 0.00 2.90
3682 3851 1.002773 TCTGATTTGCAGCTGAGCTCA 59.997 47.619 20.43 17.19 44.52 4.26
3728 3900 3.755404 CGAGTTCGCACTTCCTCG 58.245 61.111 0.00 0.00 40.54 4.63
3774 3946 1.410882 GAGATAGCAAGAGGGCTCGTT 59.589 52.381 0.00 0.00 44.54 3.85
3812 3984 2.721231 CAGTTGTGGTGCCGGTTG 59.279 61.111 1.90 0.00 0.00 3.77


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

AutoCloner maintained by Alex Coulton.