Multiple sequence alignment - TraesCS4D01G281600

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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 TraesCS4D01G281600 chr4D 100.000 4690 0 0 1 4690 452799079 452794390 0.000000e+00 8661.0
1 TraesCS4D01G281600 chr4A 95.626 3704 119 10 1 3701 14261379 14265042 0.000000e+00 5903.0
2 TraesCS4D01G281600 chr4A 89.583 288 25 3 3267 3549 596705434 596705721 1.240000e-95 361.0
3 TraesCS4D01G281600 chr4A 92.683 82 6 0 3832 3913 14265547 14265628 8.240000e-23 119.0
4 TraesCS4D01G281600 chr4A 96.364 55 2 0 3706 3760 14265071 14265125 1.800000e-14 91.6
5 TraesCS4D01G281600 chr4A 98.077 52 1 0 3925 3976 14265769 14265820 1.800000e-14 91.6
6 TraesCS4D01G281600 chr4B 95.095 3099 125 11 620 3701 565864710 565861622 0.000000e+00 4855.0
7 TraesCS4D01G281600 chr4B 92.526 388 26 1 230 617 565865172 565864788 1.910000e-153 553.0
8 TraesCS4D01G281600 chr4B 91.870 246 17 2 1 245 565865432 565865189 1.620000e-89 340.0
9 TraesCS4D01G281600 chr4B 98.305 59 1 0 3702 3760 565861597 565861539 2.310000e-18 104.0
10 TraesCS4D01G281600 chr7D 92.224 733 35 2 3980 4690 2860548 2859816 0.000000e+00 1018.0
11 TraesCS4D01G281600 chr7D 91.132 733 43 9 3980 4690 635508086 635507354 0.000000e+00 974.0
12 TraesCS4D01G281600 chr6D 92.632 285 16 2 3270 3549 159236684 159236400 5.650000e-109 405.0
13 TraesCS4D01G281600 chr2A 92.281 285 16 3 3270 3549 611964740 611964457 2.630000e-107 399.0
14 TraesCS4D01G281600 chrUn 89.420 293 21 2 3267 3549 134109149 134109441 1.240000e-95 361.0
15 TraesCS4D01G281600 chr1B 90.335 269 16 2 3291 3549 31370318 31370050 1.250000e-90 344.0
16 TraesCS4D01G281600 chr7A 89.046 283 17 4 3267 3549 105211702 105211970 5.810000e-89 339.0


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 TraesCS4D01G281600 chr4D 452794390 452799079 4689 True 8661.0 8661 100.0000 1 4690 1 chr4D.!!$R1 4689
1 TraesCS4D01G281600 chr4A 14261379 14265820 4441 False 1551.3 5903 95.6875 1 3976 4 chr4A.!!$F2 3975
2 TraesCS4D01G281600 chr4B 565861539 565865432 3893 True 1463.0 4855 94.4490 1 3760 4 chr4B.!!$R1 3759
3 TraesCS4D01G281600 chr7D 2859816 2860548 732 True 1018.0 1018 92.2240 3980 4690 1 chr7D.!!$R1 710
4 TraesCS4D01G281600 chr7D 635507354 635508086 732 True 974.0 974 91.1320 3980 4690 1 chr7D.!!$R2 710

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
377 420 1.647334 AACCACCTCCGGGTTTTGGA 61.647 55.0 16.31 0.0 46.19 3.53 F
1483 1613 0.163788 GCTTGTCGTCCATTGTCGTG 59.836 55.0 0.00 0.0 0.00 4.35 F
1871 2013 0.389391 TAGAAGCAGTATGGCTCGGC 59.611 55.0 0.00 0.0 45.07 5.54 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1532 1662 0.911769 TCCACCTGAATTCGGCATCT 59.088 50.000 8.91 0.0 0.00 2.9 R
3081 3230 0.671781 CTGGTGTCTCCTTGCTTCCG 60.672 60.000 0.00 0.0 37.07 4.3 R
3809 4024 1.067142 GTTATCCTGTGGTGTCTCGCA 60.067 52.381 0.00 0.0 0.00 5.1 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
74 75 9.834628 CGGTAGCTTCATTTTCTATTGTTTAAA 57.165 29.630 0.00 0.00 0.00 1.52
139 152 7.103641 TGTTTTCCTACTCAAATCTCGCTAAT 58.896 34.615 0.00 0.00 0.00 1.73
200 213 5.864474 GGTAGACACTCTCACTGTACAATTG 59.136 44.000 3.24 3.24 0.00 2.32
377 420 1.647334 AACCACCTCCGGGTTTTGGA 61.647 55.000 16.31 0.00 46.19 3.53
459 502 5.858381 TGTTCTTCTTCTAGCATTCTGTGT 58.142 37.500 0.00 0.00 0.00 3.72
651 769 4.905412 AGAAACGAGCAACGAAATACTC 57.095 40.909 10.05 0.00 45.77 2.59
776 905 7.236674 TGTGAATTCTTTTGCACAAAATCTG 57.763 32.000 8.86 0.00 39.29 2.90
889 1018 6.019640 CACACACATTTGATGTCCTTTGTTTC 60.020 38.462 0.00 0.00 42.70 2.78
1037 1166 2.062971 TACCCACCGGATGACTACTC 57.937 55.000 9.46 0.00 0.00 2.59
1103 1232 0.685097 AGCTTAGACAACCTCGGCAA 59.315 50.000 0.00 0.00 0.00 4.52
1118 1247 1.303643 GCAACCTTGAGACCCCTGG 60.304 63.158 0.00 0.00 0.00 4.45
1153 1282 2.584418 CCGATGCCGTGAGCTCTG 60.584 66.667 16.19 7.42 44.23 3.35
1158 1287 1.841302 ATGCCGTGAGCTCTGGGAAA 61.841 55.000 22.74 12.66 44.23 3.13
1215 1344 4.280789 AGAGGGTCCTCCATTACATGTA 57.719 45.455 12.99 0.08 43.70 2.29
1224 1353 7.450634 GGTCCTCCATTACATGTAGATACTACA 59.549 40.741 12.83 12.83 0.00 2.74
1277 1406 6.349300 AGGAATGTAGTAACCATAAGCACAG 58.651 40.000 0.00 0.00 0.00 3.66
1289 1418 2.282040 GCACAGCCACAGCCTTCT 60.282 61.111 0.00 0.00 41.25 2.85
1323 1452 3.131046 CAGATTACCTGCCACCAAATTCC 59.869 47.826 0.00 0.00 35.89 3.01
1329 1458 1.911269 GCCACCAAATTCCCCGGTT 60.911 57.895 0.00 0.00 0.00 4.44
1456 1585 3.120923 CGAACAACGGTGGTATGTTACAC 60.121 47.826 4.97 0.00 37.41 2.90
1483 1613 0.163788 GCTTGTCGTCCATTGTCGTG 59.836 55.000 0.00 0.00 0.00 4.35
1532 1662 4.083003 GGTGTAACGATGCCTGAAATTTGA 60.083 41.667 0.00 0.00 38.12 2.69
1613 1743 1.380524 TCTTCGAGGTAGAGAAGCCG 58.619 55.000 0.00 0.00 42.48 5.52
1694 1824 7.281100 GTCACTTTAAGCTAACCATATTCTGCT 59.719 37.037 0.00 0.00 0.00 4.24
1695 1825 7.280876 TCACTTTAAGCTAACCATATTCTGCTG 59.719 37.037 0.00 0.00 0.00 4.41
1696 1826 7.280876 CACTTTAAGCTAACCATATTCTGCTGA 59.719 37.037 0.00 0.00 0.00 4.26
1697 1827 7.829211 ACTTTAAGCTAACCATATTCTGCTGAA 59.171 33.333 8.59 8.59 36.54 3.02
1698 1828 8.574251 TTTAAGCTAACCATATTCTGCTGAAA 57.426 30.769 10.27 0.00 35.63 2.69
1699 1829 8.752005 TTAAGCTAACCATATTCTGCTGAAAT 57.248 30.769 10.27 3.21 35.63 2.17
1700 1830 6.630444 AGCTAACCATATTCTGCTGAAATG 57.370 37.500 10.27 13.46 35.63 2.32
1701 1831 6.359804 AGCTAACCATATTCTGCTGAAATGA 58.640 36.000 19.91 8.40 35.63 2.57
1702 1832 7.002879 AGCTAACCATATTCTGCTGAAATGAT 58.997 34.615 19.91 14.24 35.63 2.45
1703 1833 7.040617 AGCTAACCATATTCTGCTGAAATGATG 60.041 37.037 19.91 17.18 35.63 3.07
1704 1834 5.449107 ACCATATTCTGCTGAAATGATGC 57.551 39.130 19.91 0.00 35.63 3.91
1871 2013 0.389391 TAGAAGCAGTATGGCTCGGC 59.611 55.000 0.00 0.00 45.07 5.54
1893 2035 5.221126 GGCAACATTCTCTTCAAACACTCTT 60.221 40.000 0.00 0.00 0.00 2.85
1894 2036 5.684626 GCAACATTCTCTTCAAACACTCTTG 59.315 40.000 0.00 0.00 0.00 3.02
2239 2381 1.394917 GCTGCGACCTGTAGAACAATG 59.605 52.381 0.00 0.00 30.84 2.82
2339 2485 7.119116 GTCACATATCTGAACATGGTGTTGTTA 59.881 37.037 0.00 0.00 41.28 2.41
2362 2508 0.979665 TGTGCAGAAAGAGAGGGAGG 59.020 55.000 0.00 0.00 0.00 4.30
2436 2582 3.360340 GTCGACACGTCCGAGGGT 61.360 66.667 11.55 0.00 36.66 4.34
2500 2646 1.108776 TCTGTACATAGGCACGGTCC 58.891 55.000 0.00 0.00 0.00 4.46
2544 2690 5.768662 ACTTGTCAGCAGTACTTCACTAGTA 59.231 40.000 0.00 0.00 38.33 1.82
2758 2904 9.936759 TTTATGTTTAGAATTCCAAATTCACCC 57.063 29.630 13.29 0.00 0.00 4.61
2792 2938 1.374758 CCACCGTCTTCAGGCTGTC 60.375 63.158 15.27 3.35 0.00 3.51
2929 3075 3.561143 TCCTTTGGCTGCTAAAGAACAA 58.439 40.909 31.85 15.85 37.33 2.83
2958 3104 8.006298 ACATTATGTTGGTGTTTTTCTCTGAA 57.994 30.769 0.00 0.00 0.00 3.02
2969 3115 7.416777 GGTGTTTTTCTCTGAAAGAAGGAACAT 60.417 37.037 15.49 0.00 46.34 2.71
2970 3116 7.976175 GTGTTTTTCTCTGAAAGAAGGAACATT 59.024 33.333 15.49 0.00 46.34 2.71
3127 3276 1.674322 CCCCTCGCGGTGACAAAAT 60.674 57.895 6.13 0.00 0.00 1.82
3128 3277 1.644786 CCCCTCGCGGTGACAAAATC 61.645 60.000 6.13 0.00 0.00 2.17
3138 3287 4.981674 GCGGTGACAAAATCAAGATCAAAA 59.018 37.500 0.00 0.00 39.72 2.44
3140 3289 5.976534 CGGTGACAAAATCAAGATCAAAACA 59.023 36.000 0.00 0.00 39.72 2.83
3212 3361 2.367202 GGGGATGAAGCGGTCCTCA 61.367 63.158 0.00 0.00 34.99 3.86
3266 3415 0.674895 GGCTGACGGTGAGCAAGAAT 60.675 55.000 20.81 0.00 38.27 2.40
3452 3601 0.944311 CGCACAAGTCGTACCAGCTT 60.944 55.000 0.00 0.00 0.00 3.74
3741 3914 1.523711 CTGCCACCTCGTGTGTTGT 60.524 57.895 6.99 0.00 43.85 3.32
3769 3942 2.186903 CATTGCGCCCTCGTAGGT 59.813 61.111 4.18 0.00 38.14 3.08
3778 3993 2.344025 GCCCTCGTAGGTTTTGTACAG 58.656 52.381 0.00 0.00 31.93 2.74
3798 4013 2.305927 AGGAGGGACGAACACAAATGAT 59.694 45.455 0.00 0.00 0.00 2.45
3809 4024 5.120208 CGAACACAAATGATAGTCCTCGTTT 59.880 40.000 0.00 0.00 35.29 3.60
3813 4028 3.520290 AATGATAGTCCTCGTTTGCGA 57.480 42.857 0.00 0.00 45.79 5.10
3822 4037 1.142097 TCGTTTGCGAGACACCACA 59.858 52.632 0.00 0.00 42.81 4.17
3827 4042 1.262417 TTGCGAGACACCACAGGATA 58.738 50.000 0.00 0.00 0.00 2.59
3838 4361 7.500992 AGACACCACAGGATAACATTATACAG 58.499 38.462 0.00 0.00 0.00 2.74
3896 4419 2.033550 CGTCTGATTAGAACTCCCTCCG 59.966 54.545 0.00 0.00 34.01 4.63
3913 4436 5.834742 TCCCTCCGTAAATATTAGCACAGTA 59.165 40.000 0.00 0.00 0.00 2.74
3914 4437 6.324512 TCCCTCCGTAAATATTAGCACAGTAA 59.675 38.462 0.00 0.00 0.00 2.24
3915 4438 6.645415 CCCTCCGTAAATATTAGCACAGTAAG 59.355 42.308 0.00 0.00 0.00 2.34
3916 4439 6.645415 CCTCCGTAAATATTAGCACAGTAAGG 59.355 42.308 0.00 0.00 0.00 2.69
3917 4440 6.518493 TCCGTAAATATTAGCACAGTAAGGG 58.482 40.000 0.00 0.00 0.00 3.95
3919 4442 6.987992 CCGTAAATATTAGCACAGTAAGGGAA 59.012 38.462 0.00 0.00 0.00 3.97
3921 4444 9.701098 CGTAAATATTAGCACAGTAAGGGAATA 57.299 33.333 0.00 0.00 0.00 1.75
3936 4588 2.290134 GGGAATATTAAGTCCGGCCCTC 60.290 54.545 0.00 0.00 40.93 4.30
3976 4628 5.530176 TTCTGGGCCCTACTAAAAATTCT 57.470 39.130 25.70 0.00 0.00 2.40
3977 4629 4.855340 TCTGGGCCCTACTAAAAATTCTG 58.145 43.478 25.70 0.00 0.00 3.02
3978 4630 3.954258 CTGGGCCCTACTAAAAATTCTGG 59.046 47.826 25.70 0.00 0.00 3.86
4005 4657 1.941209 GCATTTGACTCCGTCAGCTGA 60.941 52.381 13.74 13.74 43.69 4.26
4117 4791 1.612199 GCCCCCGTTTGAACATCAGTA 60.612 52.381 0.00 0.00 0.00 2.74
4125 4799 4.816385 CGTTTGAACATCAGTATGGGCTAT 59.184 41.667 0.00 0.00 37.43 2.97
4203 4877 4.326504 AAAATTCTGGACAAGGCAACAG 57.673 40.909 0.00 0.00 41.41 3.16
4207 4881 0.820891 CTGGACAAGGCAACAGCTGT 60.821 55.000 15.25 15.25 41.41 4.40
4264 4938 4.734398 CTCTCAGAGCCAACTTCTATGT 57.266 45.455 0.00 0.00 0.00 2.29
4289 4963 2.094659 CGCGGCTCTGTTCGTCAAT 61.095 57.895 0.00 0.00 0.00 2.57
4305 4979 1.022735 CAATCCTGTGCATGAGGAGC 58.977 55.000 19.15 0.00 43.02 4.70
4317 4991 3.580084 AGGAGCTTGTTGCCCTCA 58.420 55.556 0.00 0.00 44.23 3.86
4353 5027 0.605319 CTTTGGCAGTGCTTCGGGTA 60.605 55.000 16.11 0.00 0.00 3.69
4365 5039 3.452990 TGCTTCGGGTATGAGGATAAACA 59.547 43.478 0.00 0.00 0.00 2.83
4468 5142 4.207165 GGCAGCTTCCCTTGTCAATATTA 58.793 43.478 0.00 0.00 0.00 0.98
4485 5159 1.475403 TTAGGGACTTCCGCTCTCAG 58.525 55.000 0.00 0.00 41.75 3.35
4628 5302 1.884579 ACAGCAACTGCCATCTTCTTG 59.115 47.619 0.00 0.00 43.38 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
48 49 9.834628 TTTAAACAATAGAAAATGAAGCTACCG 57.165 29.630 0.00 0.00 0.00 4.02
77 78 8.413229 GGCATCCACATTTGTTATTGTTAGTAT 58.587 33.333 0.00 0.00 0.00 2.12
78 79 7.613801 AGGCATCCACATTTGTTATTGTTAGTA 59.386 33.333 0.00 0.00 0.00 1.82
79 80 6.437162 AGGCATCCACATTTGTTATTGTTAGT 59.563 34.615 0.00 0.00 0.00 2.24
80 81 6.866480 AGGCATCCACATTTGTTATTGTTAG 58.134 36.000 0.00 0.00 0.00 2.34
81 82 6.663093 AGAGGCATCCACATTTGTTATTGTTA 59.337 34.615 0.00 0.00 0.00 2.41
82 83 5.481473 AGAGGCATCCACATTTGTTATTGTT 59.519 36.000 0.00 0.00 0.00 2.83
83 84 5.018809 AGAGGCATCCACATTTGTTATTGT 58.981 37.500 0.00 0.00 0.00 2.71
84 85 5.125900 TGAGAGGCATCCACATTTGTTATTG 59.874 40.000 0.00 0.00 0.00 1.90
200 213 8.934507 AAATAGTAAGACATGTCTAGCAGAAC 57.065 34.615 28.10 17.58 39.39 3.01
300 343 6.245408 AGGTTTGAGGTGCATAAATGTTCTA 58.755 36.000 0.00 0.00 0.00 2.10
377 420 1.228862 GTGGAAAGGGGGCACATGT 60.229 57.895 0.00 0.00 0.00 3.21
459 502 1.830587 ATGAGAGGCGTGTGAAGGCA 61.831 55.000 0.00 0.00 36.55 4.75
776 905 2.435372 TATCAAGGCCCACCAATCAC 57.565 50.000 0.00 0.00 39.06 3.06
1037 1166 0.376152 GTTGTCATCATCTGCTGGCG 59.624 55.000 0.00 0.00 0.00 5.69
1103 1232 1.481056 CGAACCAGGGGTCTCAAGGT 61.481 60.000 1.30 0.00 33.12 3.50
1118 1247 1.500396 GACATTTCCGGTGGCGAAC 59.500 57.895 0.00 0.00 0.00 3.95
1153 1282 0.881796 CCTTTTCTCGCAGGTTTCCC 59.118 55.000 0.00 0.00 0.00 3.97
1158 1287 1.128188 AGGACCCTTTTCTCGCAGGT 61.128 55.000 0.00 0.00 0.00 4.00
1164 1293 4.086457 TGGCATTTAAGGACCCTTTTCTC 58.914 43.478 6.62 0.00 37.47 2.87
1215 1344 4.172807 TCACCCTGGGTTTTGTAGTATCT 58.827 43.478 17.76 0.00 31.02 1.98
1224 1353 2.127651 TAGGACTCACCCTGGGTTTT 57.872 50.000 17.76 2.52 40.05 2.43
1261 1390 2.039746 TGTGGCTGTGCTTATGGTTACT 59.960 45.455 0.00 0.00 0.00 2.24
1277 1406 2.360165 CCATATTTCAGAAGGCTGTGGC 59.640 50.000 0.00 0.00 42.84 5.01
1289 1418 4.728772 CAGGTAATCTGCCCCATATTTCA 58.271 43.478 0.00 0.00 36.60 2.69
1329 1458 3.399181 GGGCTGACCATCCCGACA 61.399 66.667 0.00 0.00 39.85 4.35
1456 1585 1.511850 TGGACGACAAGCACATGAAG 58.488 50.000 0.00 0.00 0.00 3.02
1483 1613 4.515191 TGACAAAGAGCCACTGTATCAAAC 59.485 41.667 0.00 0.00 0.00 2.93
1532 1662 0.911769 TCCACCTGAATTCGGCATCT 59.088 50.000 8.91 0.00 0.00 2.90
1613 1743 2.420687 CCATCTTGTTAGGGCAGTCTCC 60.421 54.545 0.00 0.00 0.00 3.71
1700 1830 9.508567 GGTCATTAAGAAAATCTAAACAGCATC 57.491 33.333 0.00 0.00 0.00 3.91
1701 1831 9.023962 TGGTCATTAAGAAAATCTAAACAGCAT 57.976 29.630 0.00 0.00 0.00 3.79
1702 1832 8.402798 TGGTCATTAAGAAAATCTAAACAGCA 57.597 30.769 0.00 0.00 0.00 4.41
1703 1833 9.860898 AATGGTCATTAAGAAAATCTAAACAGC 57.139 29.630 0.00 0.00 0.00 4.40
1871 2013 6.789262 ACAAGAGTGTTTGAAGAGAATGTTG 58.211 36.000 0.00 0.00 32.58 3.33
1921 2063 5.248020 TGCCCATGAAACACTATGGAATTTT 59.752 36.000 4.89 0.00 45.32 1.82
2064 2206 7.487829 GCTTGTTTTTGTTGATCTAGTTCACAA 59.512 33.333 2.89 8.33 0.00 3.33
2239 2381 9.017669 CATTTTCTAATTTGAGATTACAGCTGC 57.982 33.333 15.27 0.00 0.00 5.25
2339 2485 2.439507 TCCCTCTCTTTCTGCACAAAGT 59.560 45.455 13.28 0.00 35.25 2.66
2436 2582 2.619697 TCCATTTTGCATCCTTGGGA 57.380 45.000 0.00 0.00 35.55 4.37
2500 2646 2.668457 GTGACAACTGCCACTATTCTCG 59.332 50.000 0.00 0.00 0.00 4.04
2607 2753 1.531423 AGCTGGAGTGCTGAAATGTG 58.469 50.000 0.00 0.00 42.33 3.21
2758 2904 2.618053 GGTGGGTAACTGAATCAGACG 58.382 52.381 18.20 0.00 35.18 4.18
2844 2990 5.656480 GTTCCTCTTCCTGAGATACTTCAC 58.344 45.833 0.00 0.00 45.39 3.18
2929 3075 7.233348 AGAGAAAAACACCAACATAATGTCCAT 59.767 33.333 0.00 0.00 0.00 3.41
3081 3230 0.671781 CTGGTGTCTCCTTGCTTCCG 60.672 60.000 0.00 0.00 37.07 4.30
3127 3276 1.266718 GCACGGCTGTTTTGATCTTGA 59.733 47.619 0.00 0.00 0.00 3.02
3128 3277 1.666888 GGCACGGCTGTTTTGATCTTG 60.667 52.381 0.00 0.00 0.00 3.02
3266 3415 4.373116 GCGCCCTTGTCCAGACGA 62.373 66.667 0.00 0.00 0.00 4.20
3741 3914 3.422122 GCGCAATGCCATTCTCAAA 57.578 47.368 0.30 0.00 37.76 2.69
3760 3933 3.368116 CCTCCTGTACAAAACCTACGAGG 60.368 52.174 0.00 0.00 42.49 4.63
3762 3935 2.564062 CCCTCCTGTACAAAACCTACGA 59.436 50.000 0.00 0.00 0.00 3.43
3763 3936 2.564062 TCCCTCCTGTACAAAACCTACG 59.436 50.000 0.00 0.00 0.00 3.51
3764 3937 3.615834 CGTCCCTCCTGTACAAAACCTAC 60.616 52.174 0.00 0.00 0.00 3.18
3765 3938 2.564062 CGTCCCTCCTGTACAAAACCTA 59.436 50.000 0.00 0.00 0.00 3.08
3766 3939 1.346722 CGTCCCTCCTGTACAAAACCT 59.653 52.381 0.00 0.00 0.00 3.50
3767 3940 1.345415 TCGTCCCTCCTGTACAAAACC 59.655 52.381 0.00 0.00 0.00 3.27
3769 3942 2.435069 TGTTCGTCCCTCCTGTACAAAA 59.565 45.455 0.00 0.00 0.00 2.44
3778 3993 2.178912 TCATTTGTGTTCGTCCCTCC 57.821 50.000 0.00 0.00 0.00 4.30
3809 4024 1.067142 GTTATCCTGTGGTGTCTCGCA 60.067 52.381 0.00 0.00 0.00 5.10
3813 4028 7.125811 ACTGTATAATGTTATCCTGTGGTGTCT 59.874 37.037 0.00 0.00 0.00 3.41
3913 4436 2.107726 GGGCCGGACTTAATATTCCCTT 59.892 50.000 7.57 0.00 0.00 3.95
3914 4437 1.703513 GGGCCGGACTTAATATTCCCT 59.296 52.381 7.57 0.00 0.00 4.20
3915 4438 1.703513 AGGGCCGGACTTAATATTCCC 59.296 52.381 7.57 2.14 0.00 3.97
3916 4439 2.370849 TGAGGGCCGGACTTAATATTCC 59.629 50.000 7.57 0.00 0.00 3.01
3917 4440 3.764237 TGAGGGCCGGACTTAATATTC 57.236 47.619 7.57 0.00 0.00 1.75
3919 4442 2.305927 CCATGAGGGCCGGACTTAATAT 59.694 50.000 7.57 0.00 0.00 1.28
3921 4444 0.474184 CCATGAGGGCCGGACTTAAT 59.526 55.000 7.57 0.00 0.00 1.40
3923 4446 0.912487 AACCATGAGGGCCGGACTTA 60.912 55.000 7.57 0.00 42.05 2.24
3976 4628 0.899717 GAGTCAAATGCCTTGGCCCA 60.900 55.000 9.35 0.00 40.80 5.36
3977 4629 1.607801 GGAGTCAAATGCCTTGGCCC 61.608 60.000 9.35 0.00 40.80 5.80
3978 4630 1.893062 GGAGTCAAATGCCTTGGCC 59.107 57.895 9.35 0.00 40.80 5.36
4005 4657 3.135530 GGAGGACCTGAAGCAAGTATGAT 59.864 47.826 0.00 0.00 0.00 2.45
4117 4791 1.701847 GATCACCCTGTCATAGCCCAT 59.298 52.381 0.00 0.00 0.00 4.00
4203 4877 0.463474 GGGGAGAGAATGCTCACAGC 60.463 60.000 2.79 0.00 43.81 4.40
4207 4881 0.914644 CAAGGGGGAGAGAATGCTCA 59.085 55.000 2.79 0.00 43.81 4.26
4264 4938 1.005037 AACAGAGCCGCGTCATCAA 60.005 52.632 4.92 0.00 0.00 2.57
4289 4963 0.035725 CAAGCTCCTCATGCACAGGA 60.036 55.000 14.30 14.30 37.75 3.86
4317 4991 2.044946 GGCCAGAAGGATGCGGTT 60.045 61.111 0.00 0.00 36.89 4.44
4353 5027 4.702131 GCACTTGTCCTTGTTTATCCTCAT 59.298 41.667 0.00 0.00 0.00 2.90
4365 5039 1.764571 TAGGCCACGCACTTGTCCTT 61.765 55.000 5.01 0.00 0.00 3.36
4468 5142 2.355193 GCTGAGAGCGGAAGTCCCT 61.355 63.158 0.00 0.00 0.00 4.20
4628 5302 3.435186 GGCGCAAAGGAGGTGAGC 61.435 66.667 10.83 0.00 40.61 4.26


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

AutoCloner maintained by Alex Coulton.