Multiple sequence alignment - TraesCS1A01G189900

Loading Multiple Alignment...

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 TraesCS1A01G189900 chr1A 100.000 4129 0 0 1 4129 343615053 343619181 0.000000e+00 7625.0
1 TraesCS1A01G189900 chr1A 97.917 48 0 1 4082 4129 313324705 313324659 9.510000e-12 82.4
2 TraesCS1A01G189900 chr1A 94.340 53 1 2 4076 4128 244970933 244970883 3.420000e-11 80.5
3 TraesCS1A01G189900 chr1D 95.567 3316 113 20 5 3315 270018332 270021618 0.000000e+00 5278.0
4 TraesCS1A01G189900 chr1D 96.774 744 22 1 3346 4089 270021617 270022358 0.000000e+00 1240.0
5 TraesCS1A01G189900 chr1B 96.469 2209 66 8 1891 4089 343660952 343663158 0.000000e+00 3637.0
6 TraesCS1A01G189900 chr1B 94.275 1904 73 14 5 1892 343658984 343660867 0.000000e+00 2880.0
7 TraesCS1A01G189900 chr5A 94.465 542 30 0 3548 4089 430642518 430641977 0.000000e+00 835.0
8 TraesCS1A01G189900 chr5D 94.280 542 28 3 3548 4089 325956363 325956901 0.000000e+00 826.0
9 TraesCS1A01G189900 chr7B 93.199 544 31 3 3548 4089 5917113 5917652 0.000000e+00 795.0
10 TraesCS1A01G189900 chr7B 97.778 45 1 0 4085 4129 390609017 390608973 1.230000e-10 78.7
11 TraesCS1A01G189900 chr2A 96.296 54 2 0 4076 4129 5813714 5813767 5.690000e-14 89.8
12 TraesCS1A01G189900 chr5B 100.000 47 0 0 4083 4129 658742476 658742430 2.040000e-13 87.9
13 TraesCS1A01G189900 chr6B 100.000 46 0 0 4084 4129 383845914 383845959 7.350000e-13 86.1
14 TraesCS1A01G189900 chr3B 94.643 56 0 2 4076 4129 166323299 166323245 2.650000e-12 84.2
15 TraesCS1A01G189900 chr2D 96.154 52 0 2 4078 4129 133032834 133032883 2.650000e-12 84.2
16 TraesCS1A01G189900 chr7A 97.917 48 0 1 4082 4129 698747116 698747070 9.510000e-12 82.4


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 TraesCS1A01G189900 chr1A 343615053 343619181 4128 False 7625.0 7625 100.0000 1 4129 1 chr1A.!!$F1 4128
1 TraesCS1A01G189900 chr1D 270018332 270022358 4026 False 3259.0 5278 96.1705 5 4089 2 chr1D.!!$F1 4084
2 TraesCS1A01G189900 chr1B 343658984 343663158 4174 False 3258.5 3637 95.3720 5 4089 2 chr1B.!!$F1 4084
3 TraesCS1A01G189900 chr5A 430641977 430642518 541 True 835.0 835 94.4650 3548 4089 1 chr5A.!!$R1 541
4 TraesCS1A01G189900 chr5D 325956363 325956901 538 False 826.0 826 94.2800 3548 4089 1 chr5D.!!$F1 541
5 TraesCS1A01G189900 chr7B 5917113 5917652 539 False 795.0 795 93.1990 3548 4089 1 chr7B.!!$F1 541

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
481 501 0.107312 AGCAGTGATGGTCATGCTCC 60.107 55.0 0.00 0.0 36.94 4.70 F
1170 1190 0.832135 TCAAGGTCGGGACAGCTCTT 60.832 55.0 0.75 0.0 0.00 2.85 F
1221 1241 1.047801 CTTTGTTCAAAGGGGTGGGG 58.952 55.0 15.08 0.0 0.00 4.96 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1395 1415 1.806623 GCCGCTATGACTGTTCCGAAT 60.807 52.381 0.00 0.0 0.0 3.34 R
3054 3160 1.277557 TCTCTTCTCCTCCTTGCAAGC 59.722 52.381 21.43 0.0 0.0 4.01 R
3204 3310 6.825721 AGTTATTGAAATCCACCACTCATCTC 59.174 38.462 0.00 0.0 0.0 2.75 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
32 33 3.058160 ATCACCGCAGCTGGCAAC 61.058 61.111 17.12 0.00 45.17 4.17
128 130 1.448540 CATGTCGCTCTCCACCACC 60.449 63.158 0.00 0.00 0.00 4.61
321 325 1.103803 AGTGCGTATCGTCCTGTGAT 58.896 50.000 0.00 0.00 0.00 3.06
347 351 1.264288 GAGTTGCTCAACAAACGGGAG 59.736 52.381 14.32 0.00 43.47 4.30
403 415 2.436646 CTACACCTGCGGCAAGGG 60.437 66.667 18.39 13.40 42.11 3.95
481 501 0.107312 AGCAGTGATGGTCATGCTCC 60.107 55.000 0.00 0.00 36.94 4.70
517 537 4.843728 TGAAGCGGAGAATTCAAATAGGT 58.156 39.130 8.44 0.00 33.07 3.08
522 542 6.831976 AGCGGAGAATTCAAATAGGTAGAAT 58.168 36.000 8.44 0.00 33.68 2.40
523 543 7.963532 AGCGGAGAATTCAAATAGGTAGAATA 58.036 34.615 8.44 0.00 32.11 1.75
524 544 8.598041 AGCGGAGAATTCAAATAGGTAGAATAT 58.402 33.333 8.44 0.00 32.11 1.28
591 611 4.770795 AGGGATAACAGCATTGTCTACAC 58.229 43.478 0.00 0.00 36.23 2.90
663 683 5.823209 AGTTAGTTGGTTGTTTACACCAC 57.177 39.130 0.00 0.00 32.63 4.16
664 684 5.254901 AGTTAGTTGGTTGTTTACACCACA 58.745 37.500 0.00 0.00 32.63 4.17
790 810 6.656003 ACTTACTTTTAAAGTCATGCACGAC 58.344 36.000 14.03 4.38 41.77 4.34
842 862 5.623264 CACTTTTCGCAACATCGTTGAATTA 59.377 36.000 10.92 0.00 0.00 1.40
870 890 8.863049 CGAAATTTAGTATGTGTAAGGTTACGT 58.137 33.333 0.00 0.00 36.45 3.57
899 919 9.740710 ATTATTGAAGCCCAGACCTTATATAAC 57.259 33.333 0.00 0.00 0.00 1.89
905 925 4.262506 GCCCAGACCTTATATAACGAGCTT 60.263 45.833 0.00 0.00 0.00 3.74
919 939 4.363034 GCTTATGGCGTAGGGAGC 57.637 61.111 0.00 0.00 0.00 4.70
934 954 1.134670 GGGAGCGAGCATCACTTACTT 60.135 52.381 0.00 0.00 33.17 2.24
935 955 2.100916 GGGAGCGAGCATCACTTACTTA 59.899 50.000 0.00 0.00 33.17 2.24
936 956 3.243907 GGGAGCGAGCATCACTTACTTAT 60.244 47.826 0.00 0.00 33.17 1.73
937 957 3.738282 GGAGCGAGCATCACTTACTTATG 59.262 47.826 0.00 0.00 33.17 1.90
958 978 2.497273 GGTTGGTAGCATTGCCATCTTT 59.503 45.455 4.70 0.00 38.96 2.52
982 1002 3.883669 AGGAACCTGAGCATTCATCTTC 58.116 45.455 0.00 0.00 31.68 2.87
985 1005 2.641305 ACCTGAGCATTCATCTTCAGC 58.359 47.619 0.00 0.00 31.68 4.26
1076 1096 4.949238 TCCTGAGAGAGTGAAGAAGATCAG 59.051 45.833 0.00 0.00 34.18 2.90
1158 1178 1.674962 GCCATTCATGCTCTCAAGGTC 59.325 52.381 0.00 0.00 0.00 3.85
1170 1190 0.832135 TCAAGGTCGGGACAGCTCTT 60.832 55.000 0.75 0.00 0.00 2.85
1182 1202 2.558795 GACAGCTCTTACACTGGTCTCA 59.441 50.000 0.00 0.00 38.25 3.27
1203 1223 9.563748 GTCTCACTCTTGTATATACTAGAACCT 57.436 37.037 22.01 9.48 37.55 3.50
1221 1241 1.047801 CTTTGTTCAAAGGGGTGGGG 58.952 55.000 15.08 0.00 0.00 4.96
1248 1268 1.536940 CAATGTGGGCTGTCATGACA 58.463 50.000 26.33 26.33 39.32 3.58
1395 1415 6.464892 CCATATGCAAAGGTCTGAATAGAGGA 60.465 42.308 0.00 0.00 32.48 3.71
1485 1505 1.597027 CCGTGGTTTCTTCGTGGCT 60.597 57.895 0.00 0.00 0.00 4.75
1498 1518 5.305585 TCTTCGTGGCTTCTTCAGTATTTT 58.694 37.500 0.00 0.00 0.00 1.82
1500 1520 6.932400 TCTTCGTGGCTTCTTCAGTATTTTTA 59.068 34.615 0.00 0.00 0.00 1.52
1587 1607 3.848272 TTTTCAATGACAGGATTCGCC 57.152 42.857 0.00 0.00 0.00 5.54
1737 1757 3.866651 AGATCGCTTGAGTACAATTGCT 58.133 40.909 5.05 0.00 35.37 3.91
1758 1778 2.110753 TAGGGTGTGCCATATGCCTA 57.889 50.000 0.00 0.00 40.16 3.93
1845 1865 4.644103 ATTTGAAGGATTGGCAAGATCG 57.356 40.909 5.96 0.00 0.00 3.69
2736 2842 5.468746 GCCAATAGTCGTATGCTAATGGAAA 59.531 40.000 17.64 0.00 40.28 3.13
2894 3000 6.072618 GGACGCTAAGTAAGATAGCTATCACA 60.073 42.308 30.52 17.36 42.84 3.58
3054 3160 4.886579 TGACCATCTGACCATTGATATCG 58.113 43.478 0.00 0.00 0.00 2.92
3234 3341 6.779860 AGTGGTGGATTTCAATAACTACTGT 58.220 36.000 4.13 0.00 32.21 3.55
3315 3462 0.749649 GATGTCCCAGCGATCAGACT 59.250 55.000 0.00 0.00 0.00 3.24
3316 3463 1.137872 GATGTCCCAGCGATCAGACTT 59.862 52.381 0.00 0.00 0.00 3.01
3317 3464 0.247460 TGTCCCAGCGATCAGACTTG 59.753 55.000 0.00 0.00 0.00 3.16
3318 3465 0.460987 GTCCCAGCGATCAGACTTGG 60.461 60.000 0.00 0.00 0.00 3.61
3319 3466 0.614697 TCCCAGCGATCAGACTTGGA 60.615 55.000 0.00 0.00 0.00 3.53
3320 3467 0.250234 CCCAGCGATCAGACTTGGAA 59.750 55.000 0.00 0.00 0.00 3.53
3321 3468 1.649664 CCAGCGATCAGACTTGGAAG 58.350 55.000 0.00 0.00 0.00 3.46
3322 3469 1.649664 CAGCGATCAGACTTGGAAGG 58.350 55.000 0.00 0.00 0.00 3.46
3323 3470 1.205655 CAGCGATCAGACTTGGAAGGA 59.794 52.381 0.00 0.00 0.00 3.36
3324 3471 2.114616 AGCGATCAGACTTGGAAGGAT 58.885 47.619 0.00 0.00 0.00 3.24
3325 3472 2.503356 AGCGATCAGACTTGGAAGGATT 59.497 45.455 0.00 0.00 0.00 3.01
3326 3473 3.706594 AGCGATCAGACTTGGAAGGATTA 59.293 43.478 0.00 0.00 0.00 1.75
3327 3474 4.346418 AGCGATCAGACTTGGAAGGATTAT 59.654 41.667 0.00 0.00 0.00 1.28
3328 3475 4.688413 GCGATCAGACTTGGAAGGATTATC 59.312 45.833 0.00 0.00 0.00 1.75
3329 3476 5.740224 GCGATCAGACTTGGAAGGATTATCA 60.740 44.000 0.00 0.00 0.00 2.15
3330 3477 6.283694 CGATCAGACTTGGAAGGATTATCAA 58.716 40.000 0.00 0.00 0.00 2.57
3331 3478 6.423302 CGATCAGACTTGGAAGGATTATCAAG 59.577 42.308 0.00 0.00 41.87 3.02
3333 3480 6.409704 TCAGACTTGGAAGGATTATCAAGTG 58.590 40.000 11.54 0.57 45.86 3.16
3334 3481 6.213397 TCAGACTTGGAAGGATTATCAAGTGA 59.787 38.462 11.54 2.66 45.86 3.41
3335 3482 6.881065 CAGACTTGGAAGGATTATCAAGTGAA 59.119 38.462 11.54 0.00 45.86 3.18
3336 3483 7.555554 CAGACTTGGAAGGATTATCAAGTGAAT 59.444 37.037 11.54 0.00 45.86 2.57
3337 3484 8.772250 AGACTTGGAAGGATTATCAAGTGAATA 58.228 33.333 11.54 0.00 45.86 1.75
3338 3485 8.970859 ACTTGGAAGGATTATCAAGTGAATAG 57.029 34.615 6.74 0.00 44.92 1.73
3339 3486 8.552296 ACTTGGAAGGATTATCAAGTGAATAGT 58.448 33.333 6.74 0.00 44.92 2.12
3451 3598 3.118592 GCTACTTCCTGCCTAACATCTGT 60.119 47.826 0.00 0.00 0.00 3.41
3461 3608 3.877508 GCCTAACATCTGTAACATGGTCC 59.122 47.826 0.00 0.00 0.00 4.46
3519 3666 5.700832 AGATTGAGTAATTTGACAGCGACAA 59.299 36.000 0.00 0.00 0.00 3.18
3563 3710 3.430042 TCAGCAGAAATCCTGAAAGCT 57.570 42.857 0.00 0.00 45.78 3.74
3650 3798 3.806521 CCTGAAAAGATGCTATGGTCTCG 59.193 47.826 0.00 0.00 0.00 4.04
3732 3880 6.773976 ATTAAAACATGGCAGCTAGCTAAA 57.226 33.333 18.86 6.27 44.79 1.85
3775 3923 7.970061 CCAAGAATTCGATGCTCTTAAAAATCA 59.030 33.333 0.00 0.00 0.00 2.57
3977 4126 2.907892 AGATTCAGGTTCTCCCACTCA 58.092 47.619 0.00 0.00 34.66 3.41
4000 4149 5.180492 CACTGCATTCCGTCCTTAAGTTAAA 59.820 40.000 0.97 0.00 0.00 1.52
4032 4181 5.591877 AGAAGGAATTGTGCAATCTCATACC 59.408 40.000 0.00 0.00 0.00 2.73
4089 4239 8.789825 AATAGAGGTGCATGAATCAGATAATC 57.210 34.615 0.00 0.00 0.00 1.75
4090 4240 6.436738 AGAGGTGCATGAATCAGATAATCT 57.563 37.500 0.00 0.00 0.00 2.40
4091 4241 6.839454 AGAGGTGCATGAATCAGATAATCTT 58.161 36.000 0.00 0.00 0.00 2.40
4092 4242 7.288560 AGAGGTGCATGAATCAGATAATCTTT 58.711 34.615 0.00 0.00 0.00 2.52
4093 4243 8.435187 AGAGGTGCATGAATCAGATAATCTTTA 58.565 33.333 0.00 0.00 0.00 1.85
4094 4244 8.388484 AGGTGCATGAATCAGATAATCTTTAC 57.612 34.615 0.00 0.00 0.00 2.01
4095 4245 7.446625 AGGTGCATGAATCAGATAATCTTTACC 59.553 37.037 0.00 0.00 0.00 2.85
4096 4246 7.446625 GGTGCATGAATCAGATAATCTTTACCT 59.553 37.037 0.00 0.00 0.00 3.08
4097 4247 9.494271 GTGCATGAATCAGATAATCTTTACCTA 57.506 33.333 0.00 0.00 0.00 3.08
4119 4269 9.884636 ACCTAATAATAAAGCAAATTGGGTTTC 57.115 29.630 13.18 0.00 39.36 2.78
4124 4274 7.420184 AATAAAGCAAATTGGGTTTCTTTCG 57.580 32.000 13.18 0.00 39.10 3.46
4125 4275 4.400529 AAGCAAATTGGGTTTCTTTCGT 57.599 36.364 0.00 0.00 0.00 3.85
4126 4276 3.977427 AGCAAATTGGGTTTCTTTCGTC 58.023 40.909 0.00 0.00 0.00 4.20
4127 4277 3.057019 GCAAATTGGGTTTCTTTCGTCC 58.943 45.455 0.00 0.00 0.00 4.79
4128 4278 3.305110 CAAATTGGGTTTCTTTCGTCCG 58.695 45.455 0.00 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.148825 GATGCTCTGCCGTCCGGT 62.149 66.667 7.66 0.00 37.65 5.28
1 2 4.147449 TGATGCTCTGCCGTCCGG 62.147 66.667 0.24 0.24 38.57 5.14
2 3 2.887568 GTGATGCTCTGCCGTCCG 60.888 66.667 0.00 0.00 0.00 4.79
3 4 2.512515 GGTGATGCTCTGCCGTCC 60.513 66.667 0.00 0.00 0.00 4.79
14 15 3.057548 TTGCCAGCTGCGGTGATG 61.058 61.111 8.66 0.00 45.60 3.07
46 47 0.953471 TTGTCGCCGGGTTCAGATTG 60.953 55.000 2.18 0.00 0.00 2.67
321 325 0.812014 TTGTTGAGCAACTCGCCGAA 60.812 50.000 13.80 0.00 44.04 4.30
347 351 2.579738 GAGAGGACGCCACCTTCC 59.420 66.667 0.00 0.00 40.73 3.46
425 437 3.002656 GGACACGCAATTCCACTGATATG 59.997 47.826 0.00 0.00 0.00 1.78
481 501 2.159467 GCTTCATTTTGCGACCTACG 57.841 50.000 0.00 0.00 45.66 3.51
522 542 6.015350 CCCCGCTCTAGTTTTCTTCAGATATA 60.015 42.308 0.00 0.00 0.00 0.86
523 543 5.221541 CCCCGCTCTAGTTTTCTTCAGATAT 60.222 44.000 0.00 0.00 0.00 1.63
524 544 4.099573 CCCCGCTCTAGTTTTCTTCAGATA 59.900 45.833 0.00 0.00 0.00 1.98
645 665 3.945285 CTCTGTGGTGTAAACAACCAACT 59.055 43.478 0.00 0.00 35.05 3.16
790 810 2.361757 TGTGGTTTCTGGAATGTTGCTG 59.638 45.455 0.00 0.00 0.00 4.41
870 890 2.025037 AGGTCTGGGCTTCAATAATGCA 60.025 45.455 0.00 0.00 0.00 3.96
899 919 0.039074 CTCCCTACGCCATAAGCTCG 60.039 60.000 0.00 0.00 40.39 5.03
905 925 2.561956 GCTCGCTCCCTACGCCATA 61.562 63.158 0.00 0.00 0.00 2.74
911 931 0.461961 AAGTGATGCTCGCTCCCTAC 59.538 55.000 0.67 0.00 35.97 3.18
912 932 1.681793 GTAAGTGATGCTCGCTCCCTA 59.318 52.381 0.67 0.00 35.97 3.53
913 933 0.461961 GTAAGTGATGCTCGCTCCCT 59.538 55.000 0.67 0.00 35.97 4.20
914 934 0.461961 AGTAAGTGATGCTCGCTCCC 59.538 55.000 0.67 0.00 35.97 4.30
918 938 3.458189 ACCATAAGTAAGTGATGCTCGC 58.542 45.455 0.00 0.00 0.00 5.03
919 939 4.271049 CCAACCATAAGTAAGTGATGCTCG 59.729 45.833 0.00 0.00 0.00 5.03
934 954 2.816777 TGGCAATGCTACCAACCATA 57.183 45.000 4.82 0.00 31.46 2.74
935 955 2.034124 GATGGCAATGCTACCAACCAT 58.966 47.619 4.82 0.00 39.96 3.55
936 956 1.005805 AGATGGCAATGCTACCAACCA 59.994 47.619 4.82 0.00 39.96 3.67
937 957 1.767759 AGATGGCAATGCTACCAACC 58.232 50.000 4.82 0.00 39.96 3.77
958 978 3.265221 AGATGAATGCTCAGGTTCCTTGA 59.735 43.478 0.00 0.00 34.23 3.02
985 1005 2.056223 CCATTCTTGCAGCCTGGGG 61.056 63.158 0.00 0.00 0.00 4.96
1158 1178 0.108615 CCAGTGTAAGAGCTGTCCCG 60.109 60.000 0.00 0.00 0.00 5.14
1170 1190 8.272889 AGTATATACAAGAGTGAGACCAGTGTA 58.727 37.037 15.18 0.00 0.00 2.90
1203 1223 0.637195 TCCCCACCCCTTTGAACAAA 59.363 50.000 0.17 0.17 0.00 2.83
1215 1235 1.205417 CACATTGCATTCTTCCCCACC 59.795 52.381 0.00 0.00 0.00 4.61
1221 1241 1.547372 ACAGCCCACATTGCATTCTTC 59.453 47.619 0.00 0.00 0.00 2.87
1248 1268 4.370364 AAATTCGAGCACAACAACAACT 57.630 36.364 0.00 0.00 0.00 3.16
1316 1336 6.655003 CAGAAACCCAAGAACTACATACACAT 59.345 38.462 0.00 0.00 0.00 3.21
1321 1341 6.428083 TGTCAGAAACCCAAGAACTACATA 57.572 37.500 0.00 0.00 0.00 2.29
1333 1353 4.058817 CAGTACTCACTTGTCAGAAACCC 58.941 47.826 0.00 0.00 30.46 4.11
1395 1415 1.806623 GCCGCTATGACTGTTCCGAAT 60.807 52.381 0.00 0.00 0.00 3.34
1510 1530 7.610580 TCCTGAATTCCAATTTTACAAGGTT 57.389 32.000 2.27 0.00 0.00 3.50
1587 1607 4.494199 GGGAAGAATCTCAAATACGTTGCG 60.494 45.833 0.00 0.00 37.13 4.85
1758 1778 4.757149 GGCAATACGAAGAGGCTCATAAAT 59.243 41.667 18.26 0.48 0.00 1.40
1845 1865 3.279434 GTGATGATACCCACCTTCAACC 58.721 50.000 0.00 0.00 0.00 3.77
2894 3000 2.105477 TGCTTCAGAGAACTCAAGGCTT 59.895 45.455 0.00 0.00 0.00 4.35
2942 3048 4.097589 AGTCGTACTACCATTTCTACCAGC 59.902 45.833 0.00 0.00 0.00 4.85
3054 3160 1.277557 TCTCTTCTCCTCCTTGCAAGC 59.722 52.381 21.43 0.00 0.00 4.01
3204 3310 6.825721 AGTTATTGAAATCCACCACTCATCTC 59.174 38.462 0.00 0.00 0.00 2.75
3234 3341 8.916628 TGCACCTAAATGTATATCATGCTAAA 57.083 30.769 0.00 0.00 36.81 1.85
3332 3479 6.373216 CCGGAAAACAGGTGAATTACTATTCA 59.627 38.462 0.00 0.00 45.99 2.57
3333 3480 6.596497 TCCGGAAAACAGGTGAATTACTATTC 59.404 38.462 0.00 0.00 40.50 1.75
3334 3481 6.373495 GTCCGGAAAACAGGTGAATTACTATT 59.627 38.462 5.23 0.00 0.00 1.73
3335 3482 5.878669 GTCCGGAAAACAGGTGAATTACTAT 59.121 40.000 5.23 0.00 0.00 2.12
3336 3483 5.012354 AGTCCGGAAAACAGGTGAATTACTA 59.988 40.000 5.23 0.00 0.00 1.82
3337 3484 4.070009 GTCCGGAAAACAGGTGAATTACT 58.930 43.478 5.23 0.00 0.00 2.24
3338 3485 4.070009 AGTCCGGAAAACAGGTGAATTAC 58.930 43.478 5.23 0.00 0.00 1.89
3339 3486 4.202377 TGAGTCCGGAAAACAGGTGAATTA 60.202 41.667 5.23 0.00 0.00 1.40
3340 3487 3.146847 GAGTCCGGAAAACAGGTGAATT 58.853 45.455 5.23 0.00 0.00 2.17
3341 3488 2.105821 TGAGTCCGGAAAACAGGTGAAT 59.894 45.455 5.23 0.00 0.00 2.57
3342 3489 1.487142 TGAGTCCGGAAAACAGGTGAA 59.513 47.619 5.23 0.00 0.00 3.18
3343 3490 1.070134 CTGAGTCCGGAAAACAGGTGA 59.930 52.381 5.23 0.00 0.00 4.02
3344 3491 1.202651 ACTGAGTCCGGAAAACAGGTG 60.203 52.381 26.26 11.73 33.57 4.00
3345 3492 1.129058 ACTGAGTCCGGAAAACAGGT 58.871 50.000 26.26 15.33 33.57 4.00
3346 3493 3.244112 ACTTACTGAGTCCGGAAAACAGG 60.244 47.826 26.26 16.56 31.20 4.00
3451 3598 5.381757 GCCATTATACCTTGGACCATGTTA 58.618 41.667 0.00 0.00 34.81 2.41
3519 3666 9.753674 TGAAACAATTGAGGATAGGAATAAACT 57.246 29.630 13.59 0.00 0.00 2.66
3563 3710 4.265893 TCCAGTTTACACACTTGCAGAAA 58.734 39.130 0.00 0.00 0.00 2.52
3650 3798 1.154654 CGTTCGTCAAGCGCTTTCC 60.155 57.895 22.51 12.82 41.07 3.13
3718 3866 3.206150 GCATACTTTTAGCTAGCTGCCA 58.794 45.455 27.68 4.26 44.23 4.92
3732 3880 4.910195 TCTTGGTTCTGACATGCATACTT 58.090 39.130 0.00 0.00 0.00 2.24
3977 4126 3.418684 AACTTAAGGACGGAATGCAGT 57.581 42.857 7.53 0.00 0.00 4.40
4000 4149 6.463995 TTGCACAATTCCTTCTTACAGTTT 57.536 33.333 0.00 0.00 0.00 2.66
4032 4181 6.039829 GCAATTAAGGATTCCTTGTTAGAGGG 59.960 42.308 25.26 10.30 44.44 4.30
4093 4243 9.884636 GAAACCCAATTTGCTTTATTATTAGGT 57.115 29.630 0.00 0.00 0.00 3.08
4098 4248 9.150348 CGAAAGAAACCCAATTTGCTTTATTAT 57.850 29.630 0.00 0.00 32.50 1.28
4099 4249 8.145122 ACGAAAGAAACCCAATTTGCTTTATTA 58.855 29.630 0.00 0.00 32.50 0.98
4100 4250 6.989759 ACGAAAGAAACCCAATTTGCTTTATT 59.010 30.769 0.00 0.00 32.50 1.40
4101 4251 6.521162 ACGAAAGAAACCCAATTTGCTTTAT 58.479 32.000 0.00 0.00 32.50 1.40
4102 4252 5.908341 ACGAAAGAAACCCAATTTGCTTTA 58.092 33.333 0.00 0.00 32.50 1.85
4103 4253 4.765273 ACGAAAGAAACCCAATTTGCTTT 58.235 34.783 0.00 0.00 33.79 3.51
4104 4254 4.368315 GACGAAAGAAACCCAATTTGCTT 58.632 39.130 0.00 0.00 0.00 3.91
4105 4255 3.243737 GGACGAAAGAAACCCAATTTGCT 60.244 43.478 0.00 0.00 0.00 3.91
4106 4256 3.057019 GGACGAAAGAAACCCAATTTGC 58.943 45.455 0.00 0.00 0.00 3.68
4107 4257 3.305110 CGGACGAAAGAAACCCAATTTG 58.695 45.455 0.00 0.00 0.00 2.32
4108 4258 3.636282 CGGACGAAAGAAACCCAATTT 57.364 42.857 0.00 0.00 0.00 1.82


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

AutoCloner maintained by Alex Coulton.