Multiple sequence alignment - TraesCS1B01G066100

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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 TraesCS1B01G066100 chr1B 100.000 2816 0 0 1 2816 50272523 50275338 0.000000e+00 5201.0
1 TraesCS1B01G066100 chr1B 96.429 644 23 0 2173 2816 50300685 50301328 0.000000e+00 1062.0
2 TraesCS1B01G066100 chr1B 89.922 645 59 4 2174 2816 221890584 221891224 0.000000e+00 826.0
3 TraesCS1B01G066100 chr1B 87.283 346 37 6 57 396 436690913 436691257 3.400000e-104 388.0
4 TraesCS1B01G066100 chr1B 97.368 38 1 0 403 440 436691286 436691323 6.510000e-07 65.8
5 TraesCS1B01G066100 chr5B 92.703 1110 76 4 1062 2171 590998819 590999923 0.000000e+00 1596.0
6 TraesCS1B01G066100 chr5B 91.047 1117 90 7 1062 2173 35772715 35771604 0.000000e+00 1500.0
7 TraesCS1B01G066100 chr5B 90.528 644 55 3 2174 2816 155570087 155569449 0.000000e+00 846.0
8 TraesCS1B01G066100 chr5B 93.671 474 26 3 580 1051 10419548 10419077 0.000000e+00 706.0
9 TraesCS1B01G066100 chr5B 92.585 472 31 3 2345 2816 485300420 485299953 0.000000e+00 675.0
10 TraesCS1B01G066100 chr5B 88.690 336 33 3 423 753 35773325 35772990 3.380000e-109 405.0
11 TraesCS1B01G066100 chr5B 89.950 199 17 2 57 252 10419751 10419553 1.290000e-63 254.0
12 TraesCS1B01G066100 chr5B 88.439 173 19 1 57 228 35773498 35773326 1.020000e-49 207.0
13 TraesCS1B01G066100 chr5B 98.276 58 1 0 1 58 35773871 35773814 4.960000e-18 102.0
14 TraesCS1B01G066100 chr2D 92.183 1113 83 3 1062 2173 340329757 340328648 0.000000e+00 1570.0
15 TraesCS1B01G066100 chr2D 92.537 469 31 4 581 1046 340332618 340332151 0.000000e+00 669.0
16 TraesCS1B01G066100 chr2D 91.327 196 16 1 559 753 2169749 2169944 1.660000e-67 267.0
17 TraesCS1B01G066100 chr2D 89.944 179 12 3 749 927 2170094 2170266 2.820000e-55 226.0
18 TraesCS1B01G066100 chr2D 92.857 140 8 2 124 262 340332752 340332614 4.760000e-48 202.0
19 TraesCS1B01G066100 chr4D 91.868 1119 82 5 1062 2173 216246872 216245756 0.000000e+00 1554.0
20 TraesCS1B01G066100 chr4D 91.778 1119 83 5 1062 2173 216211884 216210768 0.000000e+00 1548.0
21 TraesCS1B01G066100 chr4D 89.286 336 30 5 423 753 216212500 216212166 1.560000e-112 416.0
22 TraesCS1B01G066100 chr4D 89.286 336 31 4 423 753 216247489 216247154 1.560000e-112 416.0
23 TraesCS1B01G066100 chr4D 90.173 173 16 1 57 228 216212673 216212501 1.020000e-54 224.0
24 TraesCS1B01G066100 chr4D 89.474 171 17 1 57 226 216247662 216247492 6.110000e-52 215.0
25 TraesCS1B01G066100 chr4D 93.443 61 4 0 749 809 216247007 216246947 1.070000e-14 91.6
26 TraesCS1B01G066100 chr4B 91.824 1113 83 3 1062 2173 120260443 120259338 0.000000e+00 1544.0
27 TraesCS1B01G066100 chr4B 91.644 1113 84 4 1062 2173 40494940 40496044 0.000000e+00 1531.0
28 TraesCS1B01G066100 chr4B 91.105 1113 92 2 1062 2173 222597165 222598271 0.000000e+00 1500.0
29 TraesCS1B01G066100 chr4B 93.671 474 27 3 580 1051 222594300 222594772 0.000000e+00 706.0
30 TraesCS1B01G066100 chr4B 93.249 474 30 2 580 1051 120263306 120262833 0.000000e+00 697.0
31 TraesCS1B01G066100 chr4B 91.729 399 31 2 654 1051 268425096 268425493 1.140000e-153 553.0
32 TraesCS1B01G066100 chr4B 83.709 577 63 8 210 758 592246034 592246607 1.500000e-142 516.0
33 TraesCS1B01G066100 chr4B 91.089 303 20 5 749 1047 592246749 592247048 1.210000e-108 403.0
34 TraesCS1B01G066100 chr4B 88.995 209 20 2 57 262 120263509 120263301 3.600000e-64 255.0
35 TraesCS1B01G066100 chr4B 97.143 70 2 0 749 818 653934250 653934319 4.930000e-23 119.0
36 TraesCS1B01G066100 chr4B 100.000 33 0 0 1 33 120263672 120263640 8.420000e-06 62.1
37 TraesCS1B01G066100 chr7A 91.562 1114 85 4 1062 2173 492425248 492424142 0.000000e+00 1528.0
38 TraesCS1B01G066100 chr7A 93.038 474 28 5 580 1051 492428112 492427642 0.000000e+00 688.0
39 TraesCS1B01G066100 chr7A 85.781 647 78 10 2174 2816 68427661 68428297 0.000000e+00 673.0
40 TraesCS1B01G066100 chr2A 90.980 643 53 2 2174 2816 764180614 764179977 0.000000e+00 861.0
41 TraesCS1B01G066100 chr7D 91.008 645 46 8 2174 2816 578284964 578285598 0.000000e+00 859.0
42 TraesCS1B01G066100 chr7D 83.217 572 65 8 210 753 26329620 26330188 1.950000e-136 496.0
43 TraesCS1B01G066100 chr7D 91.722 302 20 4 749 1047 26330335 26330634 5.610000e-112 414.0
44 TraesCS1B01G066100 chr3D 90.108 647 56 7 2173 2816 470842513 470841872 0.000000e+00 833.0
45 TraesCS1B01G066100 chr3D 89.407 236 24 1 519 753 555156832 555156597 2.120000e-76 296.0
46 TraesCS1B01G066100 chr3D 95.833 72 3 0 749 820 555156450 555156379 1.770000e-22 117.0
47 TraesCS1B01G066100 chr6B 93.460 474 28 3 580 1051 706358209 706357737 0.000000e+00 701.0
48 TraesCS1B01G066100 chr6B 93.038 474 31 2 580 1051 706417357 706416884 0.000000e+00 691.0
49 TraesCS1B01G066100 chr6B 92.533 375 25 3 580 951 122827431 122827057 4.130000e-148 534.0
50 TraesCS1B01G066100 chr6B 89.952 209 18 2 57 262 706358412 706358204 1.660000e-67 267.0
51 TraesCS1B01G066100 chr6B 89.952 209 18 2 57 262 706417560 706417352 1.660000e-67 267.0
52 TraesCS1B01G066100 chr6B 90.955 199 15 2 57 252 122827634 122827436 5.980000e-67 265.0
53 TraesCS1B01G066100 chr6B 100.000 33 0 0 1 33 706358575 706358543 8.420000e-06 62.1
54 TraesCS1B01G066100 chr6B 100.000 33 0 0 1 33 706417723 706417691 8.420000e-06 62.1
55 TraesCS1B01G066100 chrUn 96.244 426 16 0 2174 2599 79052001 79051576 0.000000e+00 699.0
56 TraesCS1B01G066100 chr3A 93.249 474 29 3 580 1051 91837647 91838119 0.000000e+00 695.0
57 TraesCS1B01G066100 chr3A 94.118 51 3 0 1 51 198181727 198181777 8.360000e-11 78.7
58 TraesCS1B01G066100 chr2B 93.053 475 27 6 580 1051 758244627 758244156 0.000000e+00 689.0
59 TraesCS1B01G066100 chr2B 88.995 209 20 2 57 262 758244830 758244622 3.600000e-64 255.0
60 TraesCS1B01G066100 chr4A 91.772 474 35 4 580 1051 531951788 531952259 0.000000e+00 656.0
61 TraesCS1B01G066100 chr4A 90.452 199 15 3 57 252 531951586 531951783 2.780000e-65 259.0
62 TraesCS1B01G066100 chr3B 85.016 634 84 8 2183 2813 451756846 451757471 3.960000e-178 634.0
63 TraesCS1B01G066100 chr1A 83.160 576 62 17 205 753 60189786 60190353 7.010000e-136 494.0
64 TraesCS1B01G066100 chr1A 86.705 346 39 5 57 396 420515219 420514875 7.360000e-101 377.0
65 TraesCS1B01G066100 chr1D 86.705 346 39 6 57 396 324414181 324414525 7.360000e-101 377.0
66 TraesCS1B01G066100 chr1D 97.778 45 1 0 396 440 324414547 324414591 8.360000e-11 78.7
67 TraesCS1B01G066100 chr7B 89.474 209 19 2 57 262 504086518 504086310 7.740000e-66 261.0
68 TraesCS1B01G066100 chr5A 94.118 51 3 0 1 51 349134415 349134465 8.360000e-11 78.7


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 TraesCS1B01G066100 chr1B 50272523 50275338 2815 False 5201.000000 5201 100.000000 1 2816 1 chr1B.!!$F1 2815
1 TraesCS1B01G066100 chr1B 50300685 50301328 643 False 1062.000000 1062 96.429000 2173 2816 1 chr1B.!!$F2 643
2 TraesCS1B01G066100 chr1B 221890584 221891224 640 False 826.000000 826 89.922000 2174 2816 1 chr1B.!!$F3 642
3 TraesCS1B01G066100 chr5B 590998819 590999923 1104 False 1596.000000 1596 92.703000 1062 2171 1 chr5B.!!$F1 1109
4 TraesCS1B01G066100 chr5B 155569449 155570087 638 True 846.000000 846 90.528000 2174 2816 1 chr5B.!!$R1 642
5 TraesCS1B01G066100 chr5B 35771604 35773871 2267 True 553.500000 1500 91.613000 1 2173 4 chr5B.!!$R4 2172
6 TraesCS1B01G066100 chr5B 10419077 10419751 674 True 480.000000 706 91.810500 57 1051 2 chr5B.!!$R3 994
7 TraesCS1B01G066100 chr2D 340328648 340332752 4104 True 813.666667 1570 92.525667 124 2173 3 chr2D.!!$R1 2049
8 TraesCS1B01G066100 chr2D 2169749 2170266 517 False 246.500000 267 90.635500 559 927 2 chr2D.!!$F1 368
9 TraesCS1B01G066100 chr4D 216210768 216212673 1905 True 729.333333 1548 90.412333 57 2173 3 chr4D.!!$R1 2116
10 TraesCS1B01G066100 chr4D 216245756 216247662 1906 True 569.150000 1554 91.017750 57 2173 4 chr4D.!!$R2 2116
11 TraesCS1B01G066100 chr4B 40494940 40496044 1104 False 1531.000000 1531 91.644000 1062 2173 1 chr4B.!!$F1 1111
12 TraesCS1B01G066100 chr4B 222594300 222598271 3971 False 1103.000000 1500 92.388000 580 2173 2 chr4B.!!$F4 1593
13 TraesCS1B01G066100 chr4B 120259338 120263672 4334 True 639.525000 1544 93.517000 1 2173 4 chr4B.!!$R1 2172
14 TraesCS1B01G066100 chr4B 592246034 592247048 1014 False 459.500000 516 87.399000 210 1047 2 chr4B.!!$F5 837
15 TraesCS1B01G066100 chr7A 492424142 492428112 3970 True 1108.000000 1528 92.300000 580 2173 2 chr7A.!!$R1 1593
16 TraesCS1B01G066100 chr7A 68427661 68428297 636 False 673.000000 673 85.781000 2174 2816 1 chr7A.!!$F1 642
17 TraesCS1B01G066100 chr2A 764179977 764180614 637 True 861.000000 861 90.980000 2174 2816 1 chr2A.!!$R1 642
18 TraesCS1B01G066100 chr7D 578284964 578285598 634 False 859.000000 859 91.008000 2174 2816 1 chr7D.!!$F1 642
19 TraesCS1B01G066100 chr7D 26329620 26330634 1014 False 455.000000 496 87.469500 210 1047 2 chr7D.!!$F2 837
20 TraesCS1B01G066100 chr3D 470841872 470842513 641 True 833.000000 833 90.108000 2173 2816 1 chr3D.!!$R1 643
21 TraesCS1B01G066100 chr6B 122827057 122827634 577 True 399.500000 534 91.744000 57 951 2 chr6B.!!$R1 894
22 TraesCS1B01G066100 chr6B 706357737 706358575 838 True 343.366667 701 94.470667 1 1051 3 chr6B.!!$R2 1050
23 TraesCS1B01G066100 chr6B 706416884 706417723 839 True 340.033333 691 94.330000 1 1051 3 chr6B.!!$R3 1050
24 TraesCS1B01G066100 chr2B 758244156 758244830 674 True 472.000000 689 91.024000 57 1051 2 chr2B.!!$R1 994
25 TraesCS1B01G066100 chr4A 531951586 531952259 673 False 457.500000 656 91.112000 57 1051 2 chr4A.!!$F1 994
26 TraesCS1B01G066100 chr3B 451756846 451757471 625 False 634.000000 634 85.016000 2183 2813 1 chr3B.!!$F1 630
27 TraesCS1B01G066100 chr1A 60189786 60190353 567 False 494.000000 494 83.160000 205 753 1 chr1A.!!$F1 548

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
458 805 0.884259 TCATTGGCACACTGGACACG 60.884 55.0 0.0 0.0 39.59 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2195 5263 0.040067 CCCTCAAAAGCTGTTGCGAC 60.04 55.0 12.11 0.0 45.42 5.19 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
63 381 7.607991 ACAGACCTTAAACTGGTTAATCATGAG 59.392 37.037 0.09 0.00 38.03 2.90
83 401 2.373502 AGCAAACCCTACTCTGCTCTTT 59.626 45.455 0.00 0.00 41.18 2.52
88 406 4.917906 ACCCTACTCTGCTCTTTGATTT 57.082 40.909 0.00 0.00 0.00 2.17
94 412 3.442977 ACTCTGCTCTTTGATTTGATGCC 59.557 43.478 0.00 0.00 0.00 4.40
118 436 3.242518 CGATCTACTGCAACAGTTTCGA 58.757 45.455 16.01 8.26 42.59 3.71
136 454 2.477375 TCGACTGCGTAAATTGAACCAC 59.523 45.455 0.00 0.00 38.98 4.16
142 461 5.351465 ACTGCGTAAATTGAACCACTAGATG 59.649 40.000 0.00 0.00 0.00 2.90
218 539 7.169982 CCTGATGATCCTATGTACTTTCGTTTC 59.830 40.741 0.00 0.00 0.00 2.78
253 574 3.341823 GGAAGCAGTCAACATCATCAGT 58.658 45.455 0.00 0.00 0.00 3.41
256 577 3.341823 AGCAGTCAACATCATCAGTTCC 58.658 45.455 0.00 0.00 0.00 3.62
271 592 4.017808 TCAGTTCCTCTACTTGTAGGAGC 58.982 47.826 7.81 3.72 42.74 4.70
272 593 3.764434 CAGTTCCTCTACTTGTAGGAGCA 59.236 47.826 7.81 0.00 43.45 4.26
298 619 8.092521 TCTAGCTTCTTTGAAGATTTTGACAG 57.907 34.615 11.03 0.00 34.49 3.51
302 623 5.348418 TCTTTGAAGATTTTGACAGCTCG 57.652 39.130 0.00 0.00 0.00 5.03
385 706 2.817844 GTGATGGGTTTTATATCGCCCC 59.182 50.000 0.00 0.00 40.36 5.80
432 775 1.935873 CATGGCGAACATCCACACTAG 59.064 52.381 0.00 0.00 37.84 2.57
441 784 6.700081 GCGAACATCCACACTAGTATTATTCA 59.300 38.462 0.00 0.00 0.00 2.57
454 801 5.754782 AGTATTATTCATTGGCACACTGGA 58.245 37.500 0.00 0.00 39.59 3.86
458 805 0.884259 TCATTGGCACACTGGACACG 60.884 55.000 0.00 0.00 39.59 4.49
463 813 1.817941 GCACACTGGACACGGTTGT 60.818 57.895 0.00 0.00 39.32 3.32
490 840 5.414789 TCTTGAACGACTTATTGGGATGA 57.585 39.130 0.00 0.00 0.00 2.92
517 868 1.580845 GGCAACATGTCGCTGCTCTT 61.581 55.000 17.96 0.00 36.32 2.85
524 875 2.859526 TGTCGCTGCTCTTCTATCAG 57.140 50.000 0.00 0.00 0.00 2.90
590 942 8.165239 TCAGTTTGCATAATCTGTACACTTTT 57.835 30.769 0.00 0.00 35.85 2.27
606 958 8.623030 TGTACACTTTTAACTTAAACATGTCCC 58.377 33.333 0.00 6.43 31.85 4.46
618 970 2.783135 ACATGTCCCGAATCCATATGC 58.217 47.619 0.00 0.00 0.00 3.14
722 1074 1.714794 AGTGCATTGACGTGCTACTC 58.285 50.000 0.00 0.00 45.27 2.59
726 1078 1.656095 GCATTGACGTGCTACTCTGTC 59.344 52.381 0.00 0.00 41.82 3.51
731 1083 1.540267 GACGTGCTACTCTGTCCTTCA 59.460 52.381 0.00 0.00 0.00 3.02
732 1084 2.164624 GACGTGCTACTCTGTCCTTCAT 59.835 50.000 0.00 0.00 0.00 2.57
853 1511 1.475403 ATATCTAGGATGGCGACGGG 58.525 55.000 0.00 0.00 0.00 5.28
912 1572 8.785946 CAAATCAGGAAGCCAAAATTTTACAAT 58.214 29.630 2.44 0.00 0.00 2.71
930 1590 2.469274 ATGATCCATGATGAGGCGTC 57.531 50.000 0.00 0.00 0.00 5.19
947 1607 6.291648 AGGCGTCATGTCTCATATTATGAT 57.708 37.500 6.82 0.00 38.85 2.45
1047 1713 6.036191 GCAGCTCCTACTTAGTTCACATTTAC 59.964 42.308 0.00 0.00 0.00 2.01
1051 1717 7.167801 GCTCCTACTTAGTTCACATTTACGATC 59.832 40.741 0.00 0.00 0.00 3.69
1052 1718 7.486647 TCCTACTTAGTTCACATTTACGATCC 58.513 38.462 0.00 0.00 0.00 3.36
1053 1719 6.700520 CCTACTTAGTTCACATTTACGATCCC 59.299 42.308 0.00 0.00 0.00 3.85
1054 1720 6.295719 ACTTAGTTCACATTTACGATCCCT 57.704 37.500 0.00 0.00 0.00 4.20
1055 1721 6.708285 ACTTAGTTCACATTTACGATCCCTT 58.292 36.000 0.00 0.00 0.00 3.95
1059 1725 5.643777 AGTTCACATTTACGATCCCTTTCTG 59.356 40.000 0.00 0.00 0.00 3.02
1060 1726 5.160607 TCACATTTACGATCCCTTTCTGT 57.839 39.130 0.00 0.00 0.00 3.41
1281 4341 1.723067 GCTCGCTCAAAAAGAAGACGC 60.723 52.381 0.00 0.00 0.00 5.19
1350 4410 2.054021 CCCAAATTCCCAACCCAAACT 58.946 47.619 0.00 0.00 0.00 2.66
1351 4411 2.224499 CCCAAATTCCCAACCCAAACTG 60.224 50.000 0.00 0.00 0.00 3.16
1358 4419 2.830923 TCCCAACCCAAACTGCATTATG 59.169 45.455 0.00 0.00 0.00 1.90
1494 4556 5.957842 TGTTGCCAGGTCTAGTTTATTTG 57.042 39.130 0.00 0.00 0.00 2.32
1642 4704 6.126863 AGACTTCAACATATCCCAACAAGA 57.873 37.500 0.00 0.00 0.00 3.02
1673 4735 4.821260 TGCGTATGGTACTATTCGGAGTAA 59.179 41.667 17.43 0.00 33.74 2.24
1746 4812 4.864704 TGTGCGCATAGATCAACCTATA 57.135 40.909 15.91 0.00 0.00 1.31
1747 4813 4.809673 TGTGCGCATAGATCAACCTATAG 58.190 43.478 15.91 0.00 0.00 1.31
1792 4858 4.219288 GGGAAGTTTCTGATTGCAAGACAT 59.781 41.667 4.94 0.00 0.00 3.06
1795 4861 7.370383 GGAAGTTTCTGATTGCAAGACATTTA 58.630 34.615 4.94 0.00 0.00 1.40
1823 4889 7.334421 TGAGGCTTTCACTTCATGATACTTAAC 59.666 37.037 0.00 0.00 37.11 2.01
1837 4903 1.144913 ACTTAACTGCCTGGCCTTCAA 59.855 47.619 17.53 4.55 0.00 2.69
2072 5140 7.250569 TCATCCACAAGATATTTTTCTTTCGC 58.749 34.615 0.00 0.00 33.69 4.70
2079 5147 8.455682 ACAAGATATTTTTCTTTCGCCGAATTA 58.544 29.630 0.00 0.00 33.69 1.40
2209 5277 2.200337 GGGGGTCGCAACAGCTTTT 61.200 57.895 0.00 0.00 0.00 2.27
2253 5321 7.312154 CCAAATTTATTGATTCGACACAAGGA 58.688 34.615 8.90 0.00 0.00 3.36
2459 5528 6.718388 CGAAGCACAATATATGAAAAGCTCA 58.282 36.000 0.00 0.00 38.81 4.26
2545 5615 3.243724 AGGGTGAAACAGAACTAGCTCT 58.756 45.455 0.00 0.00 39.98 4.09
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
63 381 2.481289 AAGAGCAGAGTAGGGTTTGC 57.519 50.000 0.00 0.00 36.83 3.68
83 401 0.179048 AGATCGGCGGCATCAAATCA 60.179 50.000 10.53 0.00 0.00 2.57
88 406 1.363807 CAGTAGATCGGCGGCATCA 59.636 57.895 10.53 0.00 0.00 3.07
94 412 0.458543 ACTGTTGCAGTAGATCGGCG 60.459 55.000 0.00 0.00 43.46 6.46
142 461 8.553459 TCTCTGTTCCTAATTTCAGTCATTTC 57.447 34.615 0.00 0.00 0.00 2.17
253 574 4.873010 AGATGCTCCTACAAGTAGAGGAA 58.127 43.478 8.76 0.00 41.37 3.36
256 577 5.371115 GCTAGATGCTCCTACAAGTAGAG 57.629 47.826 8.76 5.79 38.95 2.43
271 592 8.509690 TGTCAAAATCTTCAAAGAAGCTAGATG 58.490 33.333 0.00 0.00 38.77 2.90
272 593 8.627208 TGTCAAAATCTTCAAAGAAGCTAGAT 57.373 30.769 0.00 0.00 38.77 1.98
298 619 5.691754 CCAAATAATTTAAAGATGGGCGAGC 59.308 40.000 0.00 0.00 0.00 5.03
335 656 4.792068 AGGGACACTGAAAAATTGACTGA 58.208 39.130 0.00 0.00 0.00 3.41
360 681 4.387862 GGCGATATAAAACCCATCACTACG 59.612 45.833 0.00 0.00 0.00 3.51
370 691 4.572909 ACTATTCGGGGCGATATAAAACC 58.427 43.478 0.00 0.00 35.23 3.27
371 692 5.106830 CCAACTATTCGGGGCGATATAAAAC 60.107 44.000 0.00 0.00 35.23 2.43
385 706 2.802816 GCTACATCAGGCCAACTATTCG 59.197 50.000 5.01 0.00 0.00 3.34
432 775 5.356751 TGTCCAGTGTGCCAATGAATAATAC 59.643 40.000 4.51 0.00 30.53 1.89
441 784 1.600636 CCGTGTCCAGTGTGCCAAT 60.601 57.895 0.00 0.00 0.00 3.16
454 801 1.745232 TCAAGAAGCAACAACCGTGT 58.255 45.000 0.00 0.00 40.75 4.49
458 805 2.354821 AGTCGTTCAAGAAGCAACAACC 59.645 45.455 0.00 0.00 0.00 3.77
463 813 4.215399 CCCAATAAGTCGTTCAAGAAGCAA 59.785 41.667 0.00 0.00 0.00 3.91
524 875 7.011482 ACAGCTAACATTATGTTAAGCACTAGC 59.989 37.037 25.66 21.06 41.70 3.42
538 889 7.466725 GCATTATTCAACCGACAGCTAACATTA 60.467 37.037 0.00 0.00 0.00 1.90
590 942 5.806818 TGGATTCGGGACATGTTTAAGTTA 58.193 37.500 0.00 0.00 0.00 2.24
606 958 0.792640 GCTGTCGGCATATGGATTCG 59.207 55.000 4.56 0.00 41.35 3.34
618 970 3.243101 ACACTCAGATATAACGCTGTCGG 60.243 47.826 0.00 0.00 40.69 4.79
722 1074 1.407989 GGAGAGGGCAATGAAGGACAG 60.408 57.143 0.00 0.00 0.00 3.51
726 1078 2.305009 GAATGGAGAGGGCAATGAAGG 58.695 52.381 0.00 0.00 0.00 3.46
731 1083 2.024655 ACATGTGAATGGAGAGGGCAAT 60.025 45.455 0.00 0.00 0.00 3.56
732 1084 1.355381 ACATGTGAATGGAGAGGGCAA 59.645 47.619 0.00 0.00 0.00 4.52
853 1511 3.904136 GCAGGTATATGGTCAACATGC 57.096 47.619 0.00 0.00 42.65 4.06
912 1572 1.122227 TGACGCCTCATCATGGATCA 58.878 50.000 0.00 0.00 0.00 2.92
947 1607 7.280876 CCAACTTCCTCGATCATCAAGATTAAA 59.719 37.037 0.00 0.00 37.00 1.52
1047 1713 3.611766 ACAAGGTACAGAAAGGGATCG 57.388 47.619 0.00 0.00 0.00 3.69
1051 1717 7.703058 AATCAATAACAAGGTACAGAAAGGG 57.297 36.000 0.00 0.00 0.00 3.95
1055 1721 9.391006 GGACATAATCAATAACAAGGTACAGAA 57.609 33.333 0.00 0.00 0.00 3.02
1080 4133 6.590234 AAAGGCACAAAAATTACCTCTAGG 57.410 37.500 0.00 0.00 42.17 3.02
1281 4341 7.391554 TGAATCTTTACCTTGATGGAAGAAGTG 59.608 37.037 0.00 0.00 39.71 3.16
1326 4386 0.835971 GGGTTGGGAATTTGGGTGCT 60.836 55.000 0.00 0.00 0.00 4.40
1358 4419 3.598019 TCCATTTTTCAAGCAGGCATC 57.402 42.857 0.00 0.00 0.00 3.91
1642 4704 3.906720 AGTACCATACGCAACATTCCT 57.093 42.857 0.00 0.00 0.00 3.36
1673 4735 5.256474 CACCAACCTTAGTTCTTGGATCAT 58.744 41.667 2.69 0.00 38.29 2.45
1746 4812 6.353082 CCCTTACCAACTCCTCATTATCAACT 60.353 42.308 0.00 0.00 0.00 3.16
1747 4813 5.823045 CCCTTACCAACTCCTCATTATCAAC 59.177 44.000 0.00 0.00 0.00 3.18
1813 4879 2.196595 AGGCCAGGCAGTTAAGTATCA 58.803 47.619 15.19 0.00 0.00 2.15
1823 4889 1.043022 AAAAGTTGAAGGCCAGGCAG 58.957 50.000 15.19 0.00 0.00 4.85
1911 4979 9.467258 TCTTGAATCTGTAAAAGAAAATTGCAG 57.533 29.630 0.00 0.00 40.51 4.41
2060 5128 5.866633 TGCATTAATTCGGCGAAAGAAAAAT 59.133 32.000 27.40 16.96 0.00 1.82
2072 5140 5.403166 CACCATAGCATTTGCATTAATTCGG 59.597 40.000 5.20 0.00 45.16 4.30
2079 5147 8.863086 AGAATATTACACCATAGCATTTGCATT 58.137 29.630 5.20 0.00 45.16 3.56
2167 5235 5.902613 ACACTTGTGGGTTATCAATGATG 57.097 39.130 5.91 0.00 0.00 3.07
2195 5263 0.040067 CCCTCAAAAGCTGTTGCGAC 60.040 55.000 12.11 0.00 45.42 5.19
2459 5528 3.654321 TCCATCACTGATCCAATGCCTAT 59.346 43.478 0.00 0.00 0.00 2.57
2545 5615 7.992608 ACATGCCTACATTACATTGATGAACTA 59.007 33.333 0.00 0.00 32.87 2.24
2594 5664 8.839543 AATATCCCTTAGTTTCCCCCTATAAA 57.160 34.615 0.00 0.00 0.00 1.40


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

AutoCloner maintained by Alex Coulton.