Multiple sequence alignment - TraesCS2A01G265400

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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 TraesCS2A01G265400 chr2A 100.000 3303 0 0 1 3303 421565869 421569171 0.000000e+00 6100.0
1 TraesCS2A01G265400 chr2A 96.448 1661 54 5 1 1659 421910364 421912021 0.000000e+00 2736.0
2 TraesCS2A01G265400 chr2A 93.841 1299 42 13 2002 3298 421914968 421916230 0.000000e+00 1921.0
3 TraesCS2A01G265400 chr2A 97.753 267 6 0 1656 1922 421914705 421914971 8.350000e-126 460.0
4 TraesCS2A01G265400 chr2A 96.875 96 1 2 1917 2012 342544300 342544207 3.410000e-35 159.0
5 TraesCS2A01G265400 chr2D 94.967 1530 52 4 396 1912 314169826 314168309 0.000000e+00 2375.0
6 TraesCS2A01G265400 chr2D 88.551 559 35 12 2005 2561 314168311 314167780 0.000000e+00 651.0
7 TraesCS2A01G265400 chr2D 97.895 95 1 1 1918 2011 22958479 22958385 2.640000e-36 163.0
8 TraesCS2A01G265400 chr2D 92.424 66 3 2 216 281 591576315 591576378 3.510000e-15 93.5
9 TraesCS2A01G265400 chr2B 94.747 1485 53 4 448 1919 381924686 381923214 0.000000e+00 2287.0
10 TraesCS2A01G265400 chr2B 91.859 1388 80 9 396 1769 382253572 382252204 0.000000e+00 1906.0
11 TraesCS2A01G265400 chr2B 94.471 416 17 3 2004 2419 381923215 381922806 1.290000e-178 636.0
12 TraesCS2A01G265400 chr2B 94.302 351 18 1 2004 2354 382246595 382246247 1.350000e-148 536.0
13 TraesCS2A01G265400 chr2B 93.500 200 7 5 2363 2561 382235135 382234941 3.220000e-75 292.0
14 TraesCS2A01G265400 chr2B 94.444 162 8 1 1759 1919 382246755 382246594 7.080000e-62 248.0
15 TraesCS2A01G265400 chr2B 95.862 145 5 1 2417 2561 381922666 381922523 1.980000e-57 233.0
16 TraesCS2A01G265400 chr3D 85.915 284 38 2 1 283 607252709 607252427 5.360000e-78 302.0
17 TraesCS2A01G265400 chr3D 90.909 55 3 1 2128 2182 516197318 516197266 4.570000e-09 73.1
18 TraesCS2A01G265400 chr7D 100.000 89 0 0 1918 2006 350149420 350149332 7.330000e-37 165.0
19 TraesCS2A01G265400 chr7D 87.209 86 9 2 194 278 528126387 528126303 2.710000e-16 97.1
20 TraesCS2A01G265400 chr7D 84.000 75 10 1 2103 2177 179191289 179191217 1.640000e-08 71.3
21 TraesCS2A01G265400 chr1D 98.913 92 1 0 1918 2009 296532096 296532005 7.330000e-37 165.0
22 TraesCS2A01G265400 chr4A 96.907 97 3 0 1914 2010 422945199 422945103 2.640000e-36 163.0
23 TraesCS2A01G265400 chr4A 97.849 93 2 0 1918 2010 650851299 650851207 9.490000e-36 161.0
24 TraesCS2A01G265400 chr4A 85.075 67 6 3 216 281 26669440 26669377 7.650000e-07 65.8
25 TraesCS2A01G265400 chrUn 97.849 93 2 0 1917 2009 27476043 27475951 9.490000e-36 161.0
26 TraesCS2A01G265400 chr7B 96.907 97 2 1 1911 2006 695952684 695952588 9.490000e-36 161.0
27 TraesCS2A01G265400 chr7B 83.333 84 10 4 2094 2176 153324927 153325007 1.270000e-09 75.0
28 TraesCS2A01G265400 chr7A 94.175 103 4 2 1918 2019 257695622 257695723 4.410000e-34 156.0
29 TraesCS2A01G265400 chr3B 90.909 88 7 1 194 280 676955616 676955703 2.080000e-22 117.0
30 TraesCS2A01G265400 chr5A 85.417 96 8 6 194 286 395906543 395906635 9.760000e-16 95.3
31 TraesCS2A01G265400 chr5B 87.671 73 6 2 2104 2176 62042988 62043057 7.600000e-12 82.4
32 TraesCS2A01G265400 chr4D 92.453 53 2 2 230 281 46140825 46140876 1.270000e-09 75.0
33 TraesCS2A01G265400 chr5D 83.333 78 12 1 2103 2180 538176609 538176533 1.640000e-08 71.3
34 TraesCS2A01G265400 chr1B 84.416 77 7 4 2102 2178 544785537 544785608 1.640000e-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 TraesCS2A01G265400 chr2A 421565869 421569171 3302 False 6100.000000 6100 100.000000 1 3303 1 chr2A.!!$F1 3302
1 TraesCS2A01G265400 chr2A 421910364 421916230 5866 False 1705.666667 2736 96.014000 1 3298 3 chr2A.!!$F2 3297
2 TraesCS2A01G265400 chr2D 314167780 314169826 2046 True 1513.000000 2375 91.759000 396 2561 2 chr2D.!!$R2 2165
3 TraesCS2A01G265400 chr2B 382252204 382253572 1368 True 1906.000000 1906 91.859000 396 1769 1 chr2B.!!$R2 1373
4 TraesCS2A01G265400 chr2B 381922523 381924686 2163 True 1052.000000 2287 95.026667 448 2561 3 chr2B.!!$R3 2113
5 TraesCS2A01G265400 chr2B 382246247 382246755 508 True 392.000000 536 94.373000 1759 2354 2 chr2B.!!$R4 595

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
112 113 1.888436 TTGGACTAGTGCAGGGCTCG 61.888 60.000 17.04 0.0 31.08 5.03 F
192 193 2.229792 GAGTGGTGTTTGCCATCTTGA 58.770 47.619 0.00 0.0 41.08 3.02 F
1243 1257 2.813908 CGTTCGCCTGCACCTACC 60.814 66.667 0.00 0.0 0.00 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1417 1431 1.402968 GTAGTATTCGTGCTGGGACGA 59.597 52.381 12.85 12.85 46.33 4.20 R
1431 1445 2.688958 GAGGACGGTGCAAGAGTAGTAT 59.311 50.000 1.61 0.00 0.00 2.12 R
3199 6048 0.311165 ATGTCGACCGATCTAAGCCG 59.689 55.000 14.12 0.00 0.00 5.52 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
39 40 3.276846 GTGTTCAACAGGCCGCGT 61.277 61.111 4.92 0.00 0.00 6.01
70 71 2.291043 CCTCCCCAACTGGTAGCGT 61.291 63.158 0.00 0.00 0.00 5.07
87 88 3.182967 AGCGTCAATTCGTTCTGAGATC 58.817 45.455 0.00 0.00 0.00 2.75
112 113 1.888436 TTGGACTAGTGCAGGGCTCG 61.888 60.000 17.04 0.00 31.08 5.03
136 137 4.223032 GTGTTGGAGGTCTAGATCCTTTCA 59.777 45.833 12.58 11.61 36.50 2.69
149 150 8.424918 TCTAGATCCTTTCATGAGAATGTAACC 58.575 37.037 0.00 0.00 32.89 2.85
151 152 3.938963 TCCTTTCATGAGAATGTAACCGC 59.061 43.478 0.00 0.00 32.89 5.68
192 193 2.229792 GAGTGGTGTTTGCCATCTTGA 58.770 47.619 0.00 0.00 41.08 3.02
206 207 3.624410 CCATCTTGAATGTTCGCATCTCA 59.376 43.478 0.00 0.00 36.70 3.27
234 235 7.377766 TGGTCTCTTGTAAATATTGTTCTGC 57.622 36.000 0.00 0.00 0.00 4.26
273 274 3.153024 GCCATTGGCGTACTCTTGA 57.847 52.632 12.82 0.00 39.62 3.02
1243 1257 2.813908 CGTTCGCCTGCACCTACC 60.814 66.667 0.00 0.00 0.00 3.18
1581 1595 3.866066 GCAGAGTTATCCAGCACAAGACA 60.866 47.826 0.00 0.00 0.00 3.41
1738 4439 3.126001 CCTGCAGGTCAAGAAACTACA 57.874 47.619 25.53 0.00 0.00 2.74
1746 4447 5.236478 CAGGTCAAGAAACTACAACGTCATT 59.764 40.000 0.00 0.00 0.00 2.57
1774 4475 2.355513 CCCTACATGAGCTTCTGCACTT 60.356 50.000 0.00 0.00 42.74 3.16
1920 4621 0.983378 CCTTGCCCCTACTGCCTAGT 60.983 60.000 0.00 0.00 40.99 2.57
1921 4622 1.691482 CCTTGCCCCTACTGCCTAGTA 60.691 57.143 0.00 0.00 38.36 1.82
1922 4623 1.413077 CTTGCCCCTACTGCCTAGTAC 59.587 57.143 0.00 0.00 38.36 2.73
1923 4624 0.635009 TGCCCCTACTGCCTAGTACT 59.365 55.000 0.00 0.00 38.36 2.73
1924 4625 1.330234 GCCCCTACTGCCTAGTACTC 58.670 60.000 0.00 0.00 38.36 2.59
1925 4626 1.998222 CCCCTACTGCCTAGTACTCC 58.002 60.000 0.00 0.00 38.36 3.85
1926 4627 1.480869 CCCCTACTGCCTAGTACTCCC 60.481 61.905 0.00 0.00 38.36 4.30
1927 4628 1.499870 CCCTACTGCCTAGTACTCCCT 59.500 57.143 0.00 0.00 38.36 4.20
1928 4629 2.489437 CCCTACTGCCTAGTACTCCCTC 60.489 59.091 0.00 0.00 38.36 4.30
1929 4630 2.489437 CCTACTGCCTAGTACTCCCTCC 60.489 59.091 0.00 0.00 38.36 4.30
1930 4631 0.106619 ACTGCCTAGTACTCCCTCCG 60.107 60.000 0.00 0.00 34.74 4.63
1931 4632 0.106619 CTGCCTAGTACTCCCTCCGT 60.107 60.000 0.00 0.00 0.00 4.69
1932 4633 1.142465 CTGCCTAGTACTCCCTCCGTA 59.858 57.143 0.00 0.00 0.00 4.02
1933 4634 1.565759 TGCCTAGTACTCCCTCCGTAA 59.434 52.381 0.00 0.00 0.00 3.18
1934 4635 2.025037 TGCCTAGTACTCCCTCCGTAAA 60.025 50.000 0.00 0.00 0.00 2.01
1935 4636 2.360483 GCCTAGTACTCCCTCCGTAAAC 59.640 54.545 0.00 0.00 0.00 2.01
1936 4637 3.895998 CCTAGTACTCCCTCCGTAAACT 58.104 50.000 0.00 0.00 0.00 2.66
1937 4638 4.687219 GCCTAGTACTCCCTCCGTAAACTA 60.687 50.000 0.00 0.00 0.00 2.24
1938 4639 5.440610 CCTAGTACTCCCTCCGTAAACTAA 58.559 45.833 0.00 0.00 0.00 2.24
1939 4640 6.067350 CCTAGTACTCCCTCCGTAAACTAAT 58.933 44.000 0.00 0.00 0.00 1.73
1940 4641 7.227156 CCTAGTACTCCCTCCGTAAACTAATA 58.773 42.308 0.00 0.00 0.00 0.98
1941 4642 7.887495 CCTAGTACTCCCTCCGTAAACTAATAT 59.113 40.741 0.00 0.00 0.00 1.28
1942 4643 9.950496 CTAGTACTCCCTCCGTAAACTAATATA 57.050 37.037 0.00 0.00 0.00 0.86
1944 4645 9.294614 AGTACTCCCTCCGTAAACTAATATAAG 57.705 37.037 0.00 0.00 0.00 1.73
1945 4646 9.289782 GTACTCCCTCCGTAAACTAATATAAGA 57.710 37.037 0.00 0.00 0.00 2.10
1946 4647 8.406730 ACTCCCTCCGTAAACTAATATAAGAG 57.593 38.462 0.00 0.00 0.00 2.85
1947 4648 8.003629 ACTCCCTCCGTAAACTAATATAAGAGT 58.996 37.037 0.00 0.00 0.00 3.24
1948 4649 8.174733 TCCCTCCGTAAACTAATATAAGAGTG 57.825 38.462 0.00 0.00 0.00 3.51
1949 4650 7.781693 TCCCTCCGTAAACTAATATAAGAGTGT 59.218 37.037 0.00 0.00 0.00 3.55
1950 4651 8.419442 CCCTCCGTAAACTAATATAAGAGTGTT 58.581 37.037 0.00 0.00 0.00 3.32
1951 4652 9.813446 CCTCCGTAAACTAATATAAGAGTGTTT 57.187 33.333 0.00 0.00 0.00 2.83
1978 4679 9.733219 AGAATACTAAAGTAGTGATCTAAACGC 57.267 33.333 0.00 0.00 39.81 4.84
1979 4680 9.733219 GAATACTAAAGTAGTGATCTAAACGCT 57.267 33.333 0.00 0.00 39.81 5.07
1980 4681 9.733219 AATACTAAAGTAGTGATCTAAACGCTC 57.267 33.333 0.00 0.00 39.81 5.03
1981 4682 7.393841 ACTAAAGTAGTGATCTAAACGCTCT 57.606 36.000 0.00 0.00 37.69 4.09
1982 4683 7.828712 ACTAAAGTAGTGATCTAAACGCTCTT 58.171 34.615 0.00 0.00 37.69 2.85
1983 4684 8.954350 ACTAAAGTAGTGATCTAAACGCTCTTA 58.046 33.333 0.00 0.00 37.69 2.10
1984 4685 9.953697 CTAAAGTAGTGATCTAAACGCTCTTAT 57.046 33.333 0.00 0.00 0.00 1.73
1999 4700 9.530633 AAACGCTCTTATATTAGTTTACAGAGG 57.469 33.333 0.00 0.00 31.14 3.69
2000 4701 7.659186 ACGCTCTTATATTAGTTTACAGAGGG 58.341 38.462 8.36 8.36 42.53 4.30
2001 4702 7.504911 ACGCTCTTATATTAGTTTACAGAGGGA 59.495 37.037 14.96 0.00 40.49 4.20
2002 4703 8.024285 CGCTCTTATATTAGTTTACAGAGGGAG 58.976 40.741 4.76 0.00 40.49 4.30
2018 4719 8.783660 ACAGAGGGAGTATATGTAATCTTCAA 57.216 34.615 0.00 0.00 0.00 2.69
2428 5274 8.871629 ACCATGGTCAATGTTAGTATGTTTAA 57.128 30.769 13.00 0.00 34.11 1.52
2429 5275 9.474313 ACCATGGTCAATGTTAGTATGTTTAAT 57.526 29.630 13.00 0.00 34.11 1.40
2473 5322 9.744468 AAACAAGGACAAAAGTTATGTAATCAC 57.256 29.630 0.00 0.00 0.00 3.06
2529 5378 4.367386 AGCTTAAGCAAGACAATGATGC 57.633 40.909 28.39 0.00 45.16 3.91
2592 5441 4.148128 AGCTCCTGTGGAATTGATACTG 57.852 45.455 0.00 0.00 0.00 2.74
2644 5493 7.574607 TGATCTACTCTCCAGTTGTGACTATA 58.425 38.462 0.00 0.00 33.90 1.31
2716 5565 4.114794 ACATTTGCTGCTTGTTTGAGTTC 58.885 39.130 0.00 0.00 0.00 3.01
2784 5633 6.057321 TCGGAACAAGGTTATCCAAGTAAT 57.943 37.500 0.00 0.00 35.89 1.89
2785 5634 7.185318 TCGGAACAAGGTTATCCAAGTAATA 57.815 36.000 0.00 0.00 35.89 0.98
2786 5635 7.798071 TCGGAACAAGGTTATCCAAGTAATAT 58.202 34.615 0.00 0.00 35.89 1.28
2841 5690 3.781079 TTTAGCCGCTTTGAATCATGG 57.219 42.857 0.00 0.00 0.00 3.66
2842 5691 2.708216 TAGCCGCTTTGAATCATGGA 57.292 45.000 0.00 0.00 0.00 3.41
2843 5692 1.838112 AGCCGCTTTGAATCATGGAA 58.162 45.000 0.00 0.00 0.00 3.53
2844 5693 2.170166 AGCCGCTTTGAATCATGGAAA 58.830 42.857 0.00 0.00 0.00 3.13
2845 5694 2.762327 AGCCGCTTTGAATCATGGAAAT 59.238 40.909 0.00 0.00 0.00 2.17
2846 5695 3.953612 AGCCGCTTTGAATCATGGAAATA 59.046 39.130 0.00 0.00 0.00 1.40
2847 5696 4.586001 AGCCGCTTTGAATCATGGAAATAT 59.414 37.500 0.00 0.00 0.00 1.28
2848 5697 5.069516 AGCCGCTTTGAATCATGGAAATATT 59.930 36.000 0.00 0.00 0.00 1.28
2849 5698 5.754890 GCCGCTTTGAATCATGGAAATATTT 59.245 36.000 0.00 0.00 0.00 1.40
2850 5699 6.258507 GCCGCTTTGAATCATGGAAATATTTT 59.741 34.615 1.43 0.00 0.00 1.82
2851 5700 7.201635 GCCGCTTTGAATCATGGAAATATTTTT 60.202 33.333 1.43 0.00 0.00 1.94
2910 5759 4.621068 TGCTGCACAATATTGCTCTTAC 57.379 40.909 15.48 2.17 43.41 2.34
3018 5867 5.419471 TCATTCTTGATTGTGCCATCATTGA 59.581 36.000 0.00 0.00 0.00 2.57
3033 5882 1.068055 CATTGAAGTTCCAGTGGCAGC 60.068 52.381 3.51 0.00 0.00 5.25
3072 5921 2.438434 GACTGTGGATTGGCCCCG 60.438 66.667 0.00 0.00 34.97 5.73
3116 5965 3.403558 GAAGGAGGAGCCGCCCTT 61.404 66.667 13.51 13.51 42.53 3.95
3127 5976 4.148825 CGCCCTTCCTGCGCTACT 62.149 66.667 9.73 0.00 46.01 2.57
3141 5990 2.268298 CGCTACTGTGGCGTCTAAATT 58.732 47.619 27.16 0.00 46.37 1.82
3151 6000 0.921347 CGTCTAAATTGGACTCCGCG 59.079 55.000 7.84 0.00 0.00 6.46
3199 6048 2.100216 CCGCGCAACACATTAGGC 59.900 61.111 8.75 0.00 0.00 3.93
3208 6057 3.206150 CAACACATTAGGCGGCTTAGAT 58.794 45.455 19.76 6.59 0.00 1.98
3237 6086 0.108804 TCACCGCCGAGACATCTTTC 60.109 55.000 0.00 0.00 0.00 2.62
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 2.735134 CTGTTGAACACCCTAGCGTTAC 59.265 50.000 0.00 0.00 0.00 2.50
39 40 1.203300 TGGGGAGGTGTCTTCTGATCA 60.203 52.381 0.00 0.00 0.00 2.92
70 71 5.813080 TCTACGATCTCAGAACGAATTGA 57.187 39.130 11.83 0.98 32.39 2.57
87 88 2.223829 CCCTGCACTAGTCCAATCTACG 60.224 54.545 0.00 0.00 0.00 3.51
112 113 2.753247 AGGATCTAGACCTCCAACACC 58.247 52.381 13.68 0.00 33.75 4.16
136 137 2.094182 ACTCACGCGGTTACATTCTCAT 60.094 45.455 12.47 0.00 0.00 2.90
149 150 2.637025 CCAACCCAAACTCACGCG 59.363 61.111 3.53 3.53 0.00 6.01
151 152 1.152839 ACCCCAACCCAAACTCACG 60.153 57.895 0.00 0.00 0.00 4.35
192 193 3.149196 ACCAAACTGAGATGCGAACATT 58.851 40.909 0.00 0.00 36.35 2.71
206 207 9.574516 AGAACAATATTTACAAGAGACCAAACT 57.425 29.630 0.00 0.00 0.00 2.66
352 353 3.349006 GGTGCGGCTGCCATATCG 61.349 66.667 20.29 5.12 41.78 2.92
360 361 1.519455 GTAGCTACTGGTGCGGCTG 60.519 63.158 16.88 0.00 36.40 4.85
1417 1431 1.402968 GTAGTATTCGTGCTGGGACGA 59.597 52.381 12.85 12.85 46.33 4.20
1431 1445 2.688958 GAGGACGGTGCAAGAGTAGTAT 59.311 50.000 1.61 0.00 0.00 2.12
1738 4439 3.811083 TGTAGGGAACAACAATGACGTT 58.189 40.909 0.00 0.00 34.29 3.99
1746 4447 3.327757 AGAAGCTCATGTAGGGAACAACA 59.672 43.478 0.00 0.00 42.70 3.33
1774 4475 2.804647 CGTGCATCAATACGTACCTGA 58.195 47.619 10.67 10.67 35.70 3.86
1920 4621 9.512588 CTCTTATATTAGTTTACGGAGGGAGTA 57.487 37.037 0.00 0.00 0.00 2.59
1921 4622 8.003629 ACTCTTATATTAGTTTACGGAGGGAGT 58.996 37.037 0.00 0.00 0.00 3.85
1922 4623 8.298140 CACTCTTATATTAGTTTACGGAGGGAG 58.702 40.741 0.00 0.00 0.00 4.30
1923 4624 7.781693 ACACTCTTATATTAGTTTACGGAGGGA 59.218 37.037 0.00 0.00 0.00 4.20
1924 4625 7.949434 ACACTCTTATATTAGTTTACGGAGGG 58.051 38.462 0.00 0.00 0.00 4.30
1925 4626 9.813446 AAACACTCTTATATTAGTTTACGGAGG 57.187 33.333 0.00 0.00 0.00 4.30
1952 4653 9.733219 GCGTTTAGATCACTACTTTAGTATTCT 57.267 33.333 0.00 0.00 37.23 2.40
1953 4654 9.733219 AGCGTTTAGATCACTACTTTAGTATTC 57.267 33.333 0.00 0.00 37.23 1.75
1954 4655 9.733219 GAGCGTTTAGATCACTACTTTAGTATT 57.267 33.333 0.00 0.00 37.23 1.89
1955 4656 9.122779 AGAGCGTTTAGATCACTACTTTAGTAT 57.877 33.333 0.00 0.00 37.82 2.12
1956 4657 8.503458 AGAGCGTTTAGATCACTACTTTAGTA 57.497 34.615 0.00 0.00 37.82 1.82
1957 4658 7.393841 AGAGCGTTTAGATCACTACTTTAGT 57.606 36.000 0.00 0.00 37.82 2.24
1958 4659 9.953697 ATAAGAGCGTTTAGATCACTACTTTAG 57.046 33.333 0.00 0.00 37.82 1.85
1973 4674 9.530633 CCTCTGTAAACTAATATAAGAGCGTTT 57.469 33.333 0.00 0.00 0.00 3.60
1974 4675 8.142551 CCCTCTGTAAACTAATATAAGAGCGTT 58.857 37.037 0.00 0.00 0.00 4.84
1975 4676 7.504911 TCCCTCTGTAAACTAATATAAGAGCGT 59.495 37.037 0.00 0.00 0.00 5.07
1976 4677 7.883217 TCCCTCTGTAAACTAATATAAGAGCG 58.117 38.462 0.00 0.00 0.00 5.03
1977 4678 8.862085 ACTCCCTCTGTAAACTAATATAAGAGC 58.138 37.037 0.00 0.00 0.00 4.09
1988 4689 9.884814 AGATTACATATACTCCCTCTGTAAACT 57.115 33.333 0.00 0.00 36.29 2.66
1991 4692 9.877222 TGAAGATTACATATACTCCCTCTGTAA 57.123 33.333 0.00 0.00 36.89 2.41
1992 4693 9.877222 TTGAAGATTACATATACTCCCTCTGTA 57.123 33.333 0.00 0.00 0.00 2.74
1993 4694 8.783660 TTGAAGATTACATATACTCCCTCTGT 57.216 34.615 0.00 0.00 0.00 3.41
1994 4695 8.865090 ACTTGAAGATTACATATACTCCCTCTG 58.135 37.037 0.00 0.00 0.00 3.35
1995 4696 9.440761 AACTTGAAGATTACATATACTCCCTCT 57.559 33.333 0.00 0.00 0.00 3.69
1996 4697 9.482627 CAACTTGAAGATTACATATACTCCCTC 57.517 37.037 0.00 0.00 0.00 4.30
1997 4698 8.993424 ACAACTTGAAGATTACATATACTCCCT 58.007 33.333 0.00 0.00 0.00 4.20
1998 4699 9.614792 AACAACTTGAAGATTACATATACTCCC 57.385 33.333 0.00 0.00 0.00 4.30
2018 4719 5.783111 AGAAGCTGAAACAAACAAACAACT 58.217 33.333 0.00 0.00 0.00 3.16
2145 4849 6.013639 CCCTCCGTCCCATAATATAAGAGTTT 60.014 42.308 0.00 0.00 0.00 2.66
2146 4850 5.484290 CCCTCCGTCCCATAATATAAGAGTT 59.516 44.000 0.00 0.00 0.00 3.01
2147 4851 5.024118 CCCTCCGTCCCATAATATAAGAGT 58.976 45.833 0.00 0.00 0.00 3.24
2428 5274 4.400884 TGTTTCAACTGCCACACTGTAAAT 59.599 37.500 0.00 0.00 0.00 1.40
2429 5275 3.759086 TGTTTCAACTGCCACACTGTAAA 59.241 39.130 0.00 0.00 0.00 2.01
2473 5322 5.326200 AGAGAACATACTAAACTGACCGG 57.674 43.478 0.00 0.00 0.00 5.28
2592 5441 6.428385 AATCTGCATTGTAACTTACTCTGC 57.572 37.500 14.47 14.47 37.33 4.26
2644 5493 4.578928 ACTTTCTTTTGCGGTGACAGTATT 59.421 37.500 0.00 0.00 0.00 1.89
2658 5507 8.375506 TGACCAGTATCATAGTCACTTTCTTTT 58.624 33.333 0.00 0.00 34.44 2.27
2670 5519 4.816385 ACGCCAAAATGACCAGTATCATAG 59.184 41.667 0.00 0.00 38.40 2.23
2732 5581 9.511022 GAAAAATTAAACAAACGCACATGTATC 57.489 29.630 0.00 0.00 0.00 2.24
2742 5591 8.321716 TGTTCCGAATGAAAAATTAAACAAACG 58.678 29.630 0.00 0.00 33.94 3.60
2848 5697 4.219507 TCCATGATTCAAAGCGGCTAAAAA 59.780 37.500 1.35 0.00 0.00 1.94
2849 5698 3.761218 TCCATGATTCAAAGCGGCTAAAA 59.239 39.130 1.35 0.00 0.00 1.52
2850 5699 3.351740 TCCATGATTCAAAGCGGCTAAA 58.648 40.909 1.35 0.00 0.00 1.85
2851 5700 2.997980 TCCATGATTCAAAGCGGCTAA 58.002 42.857 1.35 0.00 0.00 3.09
2852 5701 2.708216 TCCATGATTCAAAGCGGCTA 57.292 45.000 1.35 0.00 0.00 3.93
2853 5702 1.838112 TTCCATGATTCAAAGCGGCT 58.162 45.000 0.00 0.00 0.00 5.52
2854 5703 2.652941 TTTCCATGATTCAAAGCGGC 57.347 45.000 0.00 0.00 0.00 6.53
2855 5704 7.775397 AAAATATTTCCATGATTCAAAGCGG 57.225 32.000 0.10 0.00 0.00 5.52
3018 5867 4.488790 CAGCTGCCACTGGAACTT 57.511 55.556 0.00 0.00 33.85 2.66
3033 5882 2.039084 ACAAAGCAACTAGGACCTCCAG 59.961 50.000 0.00 0.00 38.89 3.86
3072 5921 1.724582 ATTTAGGCGGCGACAATGGC 61.725 55.000 18.30 0.00 0.00 4.40
3080 5929 4.675404 CCTCCTATTTAGGCGGCG 57.325 61.111 0.51 0.51 41.08 6.46
3127 5976 2.695359 GAGTCCAATTTAGACGCCACA 58.305 47.619 0.81 0.00 39.31 4.17
3141 5990 1.380785 ATCCCTTACGCGGAGTCCA 60.381 57.895 12.47 0.00 31.41 4.02
3151 6000 2.403561 AGCTCCTCCTTCATCCCTTAC 58.596 52.381 0.00 0.00 0.00 2.34
3158 6007 2.095604 GAGGGTAGCTCCTCCTTCAT 57.904 55.000 9.85 0.00 45.75 2.57
3186 6035 1.064060 CTAAGCCGCCTAATGTGTTGC 59.936 52.381 0.00 0.00 0.00 4.17
3199 6048 0.311165 ATGTCGACCGATCTAAGCCG 59.689 55.000 14.12 0.00 0.00 5.52
3201 6050 2.386249 GTGATGTCGACCGATCTAAGC 58.614 52.381 14.12 0.00 0.00 3.09


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

AutoCloner maintained by Alex Coulton.