Multiple sequence alignment - TraesCS4D01G283200

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 TraesCS4D01G283200 chr4D 100.000 4048 0 0 1 4048 455252585 455256632 0.000000e+00 7476.0
1 TraesCS4D01G283200 chr4D 82.274 1117 159 21 1428 2523 455289300 455290398 0.000000e+00 929.0
2 TraesCS4D01G283200 chr4D 84.365 921 109 16 2103 2997 455319208 455320119 0.000000e+00 870.0
3 TraesCS4D01G283200 chr4D 80.523 765 109 31 1392 2140 455318465 455319205 5.910000e-153 551.0
4 TraesCS4D01G283200 chr4A 92.791 2899 131 31 1124 4009 12679234 12676401 0.000000e+00 4124.0
5 TraesCS4D01G283200 chr4A 82.141 1691 246 37 1459 3125 12645821 12644163 0.000000e+00 1399.0
6 TraesCS4D01G283200 chr4A 84.981 799 93 6 2295 3066 12626588 12625790 0.000000e+00 785.0
7 TraesCS4D01G283200 chr4A 83.450 713 102 11 1584 2288 12641299 12640595 0.000000e+00 649.0
8 TraesCS4D01G283200 chr4A 88.739 444 27 7 697 1117 12679790 12679347 4.640000e-144 521.0
9 TraesCS4D01G283200 chr4A 85.961 463 54 6 2064 2526 12658681 12658230 6.080000e-133 484.0
10 TraesCS4D01G283200 chr4A 80.043 461 61 14 2539 2969 12658102 12657643 3.040000e-81 313.0
11 TraesCS4D01G283200 chr4A 91.005 189 9 3 23 210 12680655 12680474 8.690000e-62 248.0
12 TraesCS4D01G283200 chr4A 97.500 40 1 0 4008 4047 12676163 12676124 7.260000e-08 69.4
13 TraesCS4D01G283200 chr4B 94.932 2052 82 12 1124 3160 568339179 568341223 0.000000e+00 3193.0
14 TraesCS4D01G283200 chr4B 82.625 1646 225 29 1396 2999 568409904 568411530 0.000000e+00 1399.0
15 TraesCS4D01G283200 chr4B 81.291 1673 244 38 1428 3055 568405614 568407262 0.000000e+00 1291.0
16 TraesCS4D01G283200 chr4B 90.034 582 40 8 3145 3716 568342565 568343138 0.000000e+00 737.0
17 TraesCS4D01G283200 chr4B 83.468 496 34 18 204 656 568338240 568338730 6.260000e-113 418.0
18 TraesCS4D01G283200 chr4B 87.000 300 23 6 3749 4047 568343138 568343422 1.400000e-84 324.0
19 TraesCS4D01G283200 chr4B 83.105 219 17 8 1 207 568337989 568338199 8.940000e-42 182.0
20 TraesCS4D01G283200 chr4B 90.152 132 7 4 841 966 568338901 568339032 2.500000e-37 167.0
21 TraesCS4D01G283200 chr4B 85.333 150 19 2 2539 2686 568403140 568403288 7.010000e-33 152.0
22 TraesCS4D01G283200 chr4B 94.000 50 3 0 1011 1060 568339050 568339099 4.340000e-10 76.8
23 TraesCS4D01G283200 chr6B 80.741 945 152 17 1593 2528 236477409 236478332 0.000000e+00 710.0
24 TraesCS4D01G283200 chr6B 79.449 1017 180 16 1602 2603 236571655 236572657 0.000000e+00 693.0
25 TraesCS4D01G283200 chr6B 85.849 212 25 5 2755 2963 236478930 236479139 1.890000e-53 220.0
26 TraesCS4D01G283200 chr6B 97.222 36 1 0 3339 3374 717451945 717451980 1.210000e-05 62.1
27 TraesCS4D01G283200 chr6D 81.128 869 149 11 1598 2461 137146097 137146955 0.000000e+00 682.0


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 TraesCS4D01G283200 chr4D 455252585 455256632 4047 False 7476.000000 7476 100.000000 1 4048 1 chr4D.!!$F1 4047
1 TraesCS4D01G283200 chr4D 455289300 455290398 1098 False 929.000000 929 82.274000 1428 2523 1 chr4D.!!$F2 1095
2 TraesCS4D01G283200 chr4D 455318465 455320119 1654 False 710.500000 870 82.444000 1392 2997 2 chr4D.!!$F3 1605
3 TraesCS4D01G283200 chr4A 12676124 12680655 4531 True 1240.600000 4124 92.508750 23 4047 4 chr4A.!!$R4 4024
4 TraesCS4D01G283200 chr4A 12640595 12645821 5226 True 1024.000000 1399 82.795500 1459 3125 2 chr4A.!!$R2 1666
5 TraesCS4D01G283200 chr4A 12625790 12626588 798 True 785.000000 785 84.981000 2295 3066 1 chr4A.!!$R1 771
6 TraesCS4D01G283200 chr4A 12657643 12658681 1038 True 398.500000 484 83.002000 2064 2969 2 chr4A.!!$R3 905
7 TraesCS4D01G283200 chr4B 568403140 568411530 8390 False 947.333333 1399 83.083000 1396 3055 3 chr4B.!!$F2 1659
8 TraesCS4D01G283200 chr4B 568337989 568343422 5433 False 728.257143 3193 88.955857 1 4047 7 chr4B.!!$F1 4046
9 TraesCS4D01G283200 chr6B 236571655 236572657 1002 False 693.000000 693 79.449000 1602 2603 1 chr6B.!!$F1 1001
10 TraesCS4D01G283200 chr6B 236477409 236479139 1730 False 465.000000 710 83.295000 1593 2963 2 chr6B.!!$F3 1370
11 TraesCS4D01G283200 chr6D 137146097 137146955 858 False 682.000000 682 81.128000 1598 2461 1 chr6D.!!$F1 863

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
656 756 0.100325 TGTTGGTTTGCTCGTGCTTG 59.900 50.0 11.19 0.0 40.48 4.01 F
1252 1727 0.457035 ACTTGCTGTGTTTGCCACTG 59.543 50.0 0.00 0.0 44.81 3.66 F
1944 7343 0.253044 CAAGGATGGGCTTTCGGAGA 59.747 55.0 0.00 0.0 0.00 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1944 7343 0.311165 CATCGAACCGCTATCTCCGT 59.689 55.000 0.00 0.0 0.00 4.69 R
2603 8469 2.248248 TCATAGCATCGACCTTAGGGG 58.752 52.381 2.32 0.0 41.89 4.79 R
3334 10864 0.035598 TTGAAAAGATCCGCCGACCA 59.964 50.000 0.00 0.0 0.00 4.02 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
37 38 0.687757 ACCATCCGAAGCTGCTCCTA 60.688 55.000 1.00 0.00 0.00 2.94
84 85 4.278419 TCTCTCATGTTCTTCTCACACGAA 59.722 41.667 0.00 0.00 0.00 3.85
145 146 6.327626 ACCACAACAGTAATATCTCATAGCCT 59.672 38.462 0.00 0.00 0.00 4.58
162 163 2.101415 AGCCTTTTTCTTGTGTTCCTGC 59.899 45.455 0.00 0.00 0.00 4.85
213 269 2.028112 TGTTTTCGTCTGATCTCAGGGG 60.028 50.000 7.33 0.65 43.91 4.79
245 301 2.740714 GCCGAGTCACGATTGTGCC 61.741 63.158 8.34 0.00 46.01 5.01
272 328 0.321564 TGCCACACTAGGTCATGTGC 60.322 55.000 5.83 3.34 44.01 4.57
283 339 3.367743 CATGTGCTGCCCGCTTGT 61.368 61.111 0.00 0.00 40.11 3.16
356 420 2.407798 GTCGTGTCGACGTTGTCTC 58.592 57.895 11.62 0.00 46.56 3.36
395 469 2.781258 TACCCCACATGCCCTGTCCT 62.781 60.000 0.00 0.00 35.29 3.85
425 499 3.555518 GACCGATGCTTGTCTTTGTTTC 58.444 45.455 0.00 0.00 0.00 2.78
446 520 9.119418 TGTTTCATCTTTCTCTTCATGTTAACA 57.881 29.630 11.41 11.41 0.00 2.41
482 556 1.076332 GATCAACCCAGCGTGTGTAC 58.924 55.000 0.00 0.00 0.00 2.90
548 639 3.000041 TGCTTGCTTATATATTCGCCGG 59.000 45.455 0.00 0.00 0.00 6.13
550 641 3.596214 CTTGCTTATATATTCGCCGGGT 58.404 45.455 2.18 0.00 0.00 5.28
577 668 6.683974 AGTTATAATGAACTGATGGTGCAC 57.316 37.500 8.80 8.80 38.25 4.57
578 669 5.590259 AGTTATAATGAACTGATGGTGCACC 59.410 40.000 29.67 29.67 38.25 5.01
579 670 6.803358 AGTTATAATGAACTGATGGTGCACCA 60.803 38.462 39.23 39.23 43.29 4.17
580 671 8.072847 AGTTATAATGAACTGATGGTGCACCAT 61.073 37.037 44.20 44.20 44.33 3.55
656 756 0.100325 TGTTGGTTTGCTCGTGCTTG 59.900 50.000 11.19 0.00 40.48 4.01
676 960 5.005394 GCTTGAGCACTTTTTATGCATGATG 59.995 40.000 10.16 0.00 45.92 3.07
677 961 5.900865 TGAGCACTTTTTATGCATGATGA 57.099 34.783 10.16 0.00 45.92 2.92
678 962 6.459670 TGAGCACTTTTTATGCATGATGAT 57.540 33.333 10.16 0.00 45.92 2.45
679 963 6.869695 TGAGCACTTTTTATGCATGATGATT 58.130 32.000 10.16 0.00 45.92 2.57
680 964 6.976349 TGAGCACTTTTTATGCATGATGATTC 59.024 34.615 10.16 0.00 45.92 2.52
683 967 6.473131 GCACTTTTTATGCATGATGATTCGAA 59.527 34.615 10.16 0.00 42.88 3.71
685 969 9.027129 CACTTTTTATGCATGATGATTCGAATT 57.973 29.630 12.81 0.00 0.00 2.17
687 971 7.933728 TTTTATGCATGATGATTCGAATTGG 57.066 32.000 12.81 0.32 0.00 3.16
688 972 6.880942 TTATGCATGATGATTCGAATTGGA 57.119 33.333 12.81 7.75 0.00 3.53
689 973 4.823790 TGCATGATGATTCGAATTGGAG 57.176 40.909 12.81 2.41 0.00 3.86
690 974 3.566742 TGCATGATGATTCGAATTGGAGG 59.433 43.478 12.81 2.56 0.00 4.30
692 976 3.213206 TGATGATTCGAATTGGAGGGG 57.787 47.619 12.81 0.00 0.00 4.79
694 978 2.710096 TGATTCGAATTGGAGGGGTC 57.290 50.000 12.81 0.00 0.00 4.46
695 979 2.196595 TGATTCGAATTGGAGGGGTCT 58.803 47.619 12.81 0.00 0.00 3.85
705 1001 3.675348 TGGAGGGGTCTCTTTCGTATA 57.325 47.619 0.00 0.00 39.86 1.47
709 1005 2.686915 AGGGGTCTCTTTCGTATACGTG 59.313 50.000 23.67 15.10 40.80 4.49
721 1017 2.660094 CGTATACGTGTCCGACCGTATG 60.660 54.545 27.52 17.09 46.42 2.39
735 1031 1.138883 GTATGTGCTCCGTGCTCGA 59.861 57.895 10.21 0.00 43.37 4.04
763 1059 0.737219 AGTATCCGTTTCCGTCCTCG 59.263 55.000 0.00 0.00 0.00 4.63
921 1249 2.501223 GAAGCCATCACCGACGTCCA 62.501 60.000 10.58 0.00 0.00 4.02
923 1251 3.001902 GCCATCACCGACGTCCAGA 62.002 63.158 10.58 5.84 0.00 3.86
949 1277 3.646976 CGCCATCAGCTGCATCCG 61.647 66.667 9.47 5.57 40.39 4.18
1089 1436 2.635714 CCCCCACGGTATGAACTTTAC 58.364 52.381 0.00 0.00 0.00 2.01
1094 1441 3.528532 CACGGTATGAACTTTACCCCTC 58.471 50.000 0.00 0.00 36.54 4.30
1097 1444 3.181468 CGGTATGAACTTTACCCCTCTCC 60.181 52.174 0.00 0.00 36.54 3.71
1188 1653 2.228582 CACAAAGGAAATGTGCGATCCA 59.771 45.455 0.00 0.00 41.42 3.41
1211 1676 6.038271 CCACAGCTATATCCAAACTTAACCAC 59.962 42.308 0.00 0.00 0.00 4.16
1216 1681 3.603965 ATCCAAACTTAACCACCACCA 57.396 42.857 0.00 0.00 0.00 4.17
1220 1685 2.693074 CAAACTTAACCACCACCAGCTT 59.307 45.455 0.00 0.00 0.00 3.74
1221 1686 2.748209 ACTTAACCACCACCAGCTTT 57.252 45.000 0.00 0.00 0.00 3.51
1223 1688 1.535462 CTTAACCACCACCAGCTTTCG 59.465 52.381 0.00 0.00 0.00 3.46
1224 1689 0.759959 TAACCACCACCAGCTTTCGA 59.240 50.000 0.00 0.00 0.00 3.71
1252 1727 0.457035 ACTTGCTGTGTTTGCCACTG 59.543 50.000 0.00 0.00 44.81 3.66
1758 7154 3.170717 TCTTTCCACACGTATCCTCCTT 58.829 45.455 0.00 0.00 0.00 3.36
1944 7343 0.253044 CAAGGATGGGCTTTCGGAGA 59.747 55.000 0.00 0.00 0.00 3.71
1963 7362 0.311165 ACGGAGATAGCGGTTCGATG 59.689 55.000 0.00 0.00 0.00 3.84
2040 7439 5.428184 ACCTAGGAATATCAGCCTATTGC 57.572 43.478 17.98 0.00 36.26 3.56
2185 7623 8.011844 TCATGTACTAGTTGCTGATACAATCT 57.988 34.615 0.00 0.00 30.06 2.40
2586 8452 5.592054 TGCTCAGACATATGTAGTAACTGC 58.408 41.667 8.71 7.80 0.00 4.40
2631 8501 5.474578 AGGTCGATGCTATGAATGTATGT 57.525 39.130 0.00 0.00 0.00 2.29
2907 8854 4.496360 TCGTACTATTGTGGCAAAATCGA 58.504 39.130 6.08 6.98 0.00 3.59
3075 9055 7.673641 TCCCCTTATGCATATGTTTGATTTT 57.326 32.000 7.36 0.00 0.00 1.82
3270 10800 3.231818 AGGTACCATCATTCCGTCCTAG 58.768 50.000 15.94 0.00 0.00 3.02
3282 10812 3.603532 TCCGTCCTAGTACTGTAGTGTG 58.396 50.000 5.39 0.00 0.00 3.82
3288 10818 4.019051 TCCTAGTACTGTAGTGTGGTGCTA 60.019 45.833 5.39 0.00 0.00 3.49
3299 10829 1.270094 TGTGGTGCTACCTTCGTCTTG 60.270 52.381 6.83 0.00 39.58 3.02
3351 10881 1.064060 CATTGGTCGGCGGATCTTTTC 59.936 52.381 7.21 0.00 0.00 2.29
3359 10890 3.756434 TCGGCGGATCTTTTCAAAAGATT 59.244 39.130 23.42 9.94 37.14 2.40
3385 10916 1.825285 CTCGCGAGCCATTGGATTCG 61.825 60.000 25.07 19.66 35.50 3.34
3397 10928 2.818274 GATTCGACGTGGGGTGCC 60.818 66.667 0.00 0.00 0.00 5.01
3411 10951 2.290960 GGGGTGCCTTGTTAGATTCAGT 60.291 50.000 0.00 0.00 0.00 3.41
3436 11482 5.009310 TGCTAGCTTTGCAATAAGGATGATG 59.991 40.000 17.23 0.00 37.51 3.07
3479 12081 6.639632 ACAGAGTTCATGTTGCATAACTTT 57.360 33.333 0.00 0.00 37.68 2.66
3584 12190 3.242804 TGTTACGGAAGAAAGTTTTGCGG 60.243 43.478 6.23 0.00 42.57 5.69
3608 12214 8.993121 CGGCATCACTAATGTTATAGAAATCTT 58.007 33.333 0.00 0.00 37.71 2.40
3650 12256 2.151202 GCAAGAAAAGGACCATCGTCA 58.849 47.619 0.00 0.00 41.13 4.35
3664 12270 2.094659 CGTCATTCGCCACGAGCTT 61.095 57.895 0.00 0.00 40.39 3.74
3756 12362 2.680352 TCTGACCAGGTCGCCTCC 60.680 66.667 15.24 0.00 34.95 4.30
3757 12363 2.997315 CTGACCAGGTCGCCTCCA 60.997 66.667 15.24 0.00 34.95 3.86
3785 12391 2.103941 CCTTCTCTCCAATGAGGTAGGC 59.896 54.545 0.00 0.00 39.23 3.93
3910 12623 4.643387 GACCCCCACTGCAACGCT 62.643 66.667 0.00 0.00 0.00 5.07
3911 12624 4.954970 ACCCCCACTGCAACGCTG 62.955 66.667 0.00 0.00 0.00 5.18
3962 12676 2.753029 GCAAGCTGAGACCACCCT 59.247 61.111 0.00 0.00 0.00 4.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
84 85 6.062095 CACCGAACCCTCATATAAGGAAAAT 58.938 40.000 0.00 0.00 38.87 1.82
120 121 6.327626 AGGCTATGAGATATTACTGTTGTGGT 59.672 38.462 0.00 0.00 0.00 4.16
145 146 8.514594 CATCTATTAGCAGGAACACAAGAAAAA 58.485 33.333 0.00 0.00 0.00 1.94
213 269 0.521242 CTCGGCGCTTACAACAATGC 60.521 55.000 7.64 0.00 0.00 3.56
245 301 1.338136 CCTAGTGTGGCAGGGTAGGG 61.338 65.000 7.73 0.00 0.00 3.53
272 328 4.389576 GTGCGAACAAGCGGGCAG 62.390 66.667 0.00 0.00 40.67 4.85
303 359 1.129811 GTATGAAGCCCGTTTTGGTCG 59.870 52.381 0.00 0.00 35.15 4.79
412 486 8.400947 TGAAGAGAAAGATGAAACAAAGACAAG 58.599 33.333 0.00 0.00 0.00 3.16
446 520 6.378582 GGTTGATCGTGTGTTTAAATCACAT 58.621 36.000 19.48 13.84 45.43 3.21
482 556 3.389925 AAGCAACAACACATTGGATGG 57.610 42.857 0.00 0.00 40.42 3.51
522 613 4.848299 GCGAATATATAAGCAAGCAACAGC 59.152 41.667 7.28 0.00 0.00 4.40
523 614 5.385617 GGCGAATATATAAGCAAGCAACAG 58.614 41.667 12.52 0.00 0.00 3.16
526 617 3.435327 CCGGCGAATATATAAGCAAGCAA 59.565 43.478 9.30 0.00 0.00 3.91
548 639 7.226720 CACCATCAGTTCATTATAACTGGTACC 59.773 40.741 14.76 4.43 46.59 3.34
550 641 6.765989 GCACCATCAGTTCATTATAACTGGTA 59.234 38.462 14.76 0.00 46.59 3.25
555 646 5.356751 TGGTGCACCATCAGTTCATTATAAC 59.643 40.000 34.74 2.13 42.01 1.89
557 648 5.109500 TGGTGCACCATCAGTTCATTATA 57.891 39.130 34.74 6.58 42.01 0.98
560 651 2.291209 TGGTGCACCATCAGTTCATT 57.709 45.000 34.74 0.00 42.01 2.57
577 668 6.673154 ATGATACAATACATCGCATCATGG 57.327 37.500 0.00 0.00 33.16 3.66
656 756 6.141844 CGAATCATCATGCATAAAAAGTGCTC 59.858 38.462 0.00 0.00 42.92 4.26
676 960 2.436173 AGAGACCCCTCCAATTCGAATC 59.564 50.000 11.83 0.00 40.30 2.52
677 961 2.482494 AGAGACCCCTCCAATTCGAAT 58.518 47.619 4.39 4.39 40.30 3.34
678 962 1.952621 AGAGACCCCTCCAATTCGAA 58.047 50.000 0.00 0.00 40.30 3.71
679 963 1.952621 AAGAGACCCCTCCAATTCGA 58.047 50.000 0.00 0.00 40.30 3.71
680 964 2.633488 GAAAGAGACCCCTCCAATTCG 58.367 52.381 0.00 0.00 40.30 3.34
683 967 1.657804 ACGAAAGAGACCCCTCCAAT 58.342 50.000 0.00 0.00 40.30 3.16
685 969 2.544844 ATACGAAAGAGACCCCTCCA 57.455 50.000 0.00 0.00 40.30 3.86
687 971 2.948315 ACGTATACGAAAGAGACCCCTC 59.052 50.000 30.77 0.00 43.02 4.30
688 972 2.686915 CACGTATACGAAAGAGACCCCT 59.313 50.000 30.77 1.42 43.02 4.79
689 973 2.424956 ACACGTATACGAAAGAGACCCC 59.575 50.000 30.77 0.00 43.02 4.95
690 974 3.488216 GGACACGTATACGAAAGAGACCC 60.488 52.174 30.77 14.83 43.02 4.46
692 976 3.062639 TCGGACACGTATACGAAAGAGAC 59.937 47.826 30.77 13.93 43.02 3.36
694 978 3.349176 GTCGGACACGTATACGAAAGAG 58.651 50.000 30.77 17.62 43.02 2.85
695 979 2.095853 GGTCGGACACGTATACGAAAGA 59.904 50.000 30.77 17.81 43.02 2.52
705 1001 1.210931 CACATACGGTCGGACACGT 59.789 57.895 21.88 21.88 46.17 4.49
709 1005 1.226888 GGAGCACATACGGTCGGAC 60.227 63.158 0.00 0.00 34.16 4.79
735 1031 4.450082 GGAAACGGATACTTGCCAAAAT 57.550 40.909 0.00 0.00 0.00 1.82
763 1059 2.223525 CGGACATAGACCTCTCGGAAAC 60.224 54.545 0.00 0.00 0.00 2.78
1089 1436 2.087857 ATAGAGGAGCGGGAGAGGGG 62.088 65.000 0.00 0.00 0.00 4.79
1094 1441 3.828875 AGAAAAATAGAGGAGCGGGAG 57.171 47.619 0.00 0.00 0.00 4.30
1097 1444 4.291783 CTCGTAGAAAAATAGAGGAGCGG 58.708 47.826 0.00 0.00 34.09 5.52
1188 1653 6.120220 GGTGGTTAAGTTTGGATATAGCTGT 58.880 40.000 0.00 0.00 0.00 4.40
1211 1676 0.447801 CCGAAATCGAAAGCTGGTGG 59.552 55.000 4.04 0.00 43.02 4.61
1216 1681 2.673368 CAAGTAGCCGAAATCGAAAGCT 59.327 45.455 4.04 7.28 43.02 3.74
1244 1719 2.039974 CGGCATAGCACAGTGGCAA 61.040 57.895 1.84 0.00 40.56 4.52
1319 1794 0.319900 ACAAGCTCGATGAGTGCGTT 60.320 50.000 0.00 0.00 43.54 4.84
1371 1847 4.584394 CGGAGGAATATACGTTTTTGCAC 58.416 43.478 0.00 0.00 0.00 4.57
1507 2567 5.762179 ACATGATCAGAAGGTTGGTAGAA 57.238 39.130 0.00 0.00 0.00 2.10
1944 7343 0.311165 CATCGAACCGCTATCTCCGT 59.689 55.000 0.00 0.00 0.00 4.69
2014 7413 7.453393 CAATAGGCTGATATTCCTAGGTTTCA 58.547 38.462 9.08 7.04 38.26 2.69
2040 7439 5.758296 TGTACTTGTCCAGTAAAGCTTGAAG 59.242 40.000 0.00 0.00 39.86 3.02
2088 7487 2.397597 GAGGAGGGAGAGAGAGCAAAT 58.602 52.381 0.00 0.00 0.00 2.32
2185 7623 4.785301 CAAGATCCTGAAAAGGAGGCATA 58.215 43.478 0.39 0.00 41.88 3.14
2566 8432 6.831868 TGTAGGCAGTTACTACATATGTCTGA 59.168 38.462 20.11 1.83 44.14 3.27
2603 8469 2.248248 TCATAGCATCGACCTTAGGGG 58.752 52.381 2.32 0.00 41.89 4.79
2604 8470 4.248859 CATTCATAGCATCGACCTTAGGG 58.751 47.826 2.32 0.00 38.88 3.53
2612 8482 7.700656 CCGTAATACATACATTCATAGCATCGA 59.299 37.037 0.00 0.00 33.89 3.59
2631 8501 7.753132 GTGCTTCAAATCAACATTTCCGTAATA 59.247 33.333 0.00 0.00 28.97 0.98
3075 9055 6.930731 AGTCTTGCACTTTCCTTAACAAAAA 58.069 32.000 0.00 0.00 26.56 1.94
3079 9059 9.515226 AATTATAGTCTTGCACTTTCCTTAACA 57.485 29.630 0.00 0.00 36.43 2.41
3080 9060 9.989869 GAATTATAGTCTTGCACTTTCCTTAAC 57.010 33.333 0.00 0.00 36.43 2.01
3083 9063 7.406104 AGGAATTATAGTCTTGCACTTTCCTT 58.594 34.615 0.00 0.00 42.49 3.36
3084 9064 6.963322 AGGAATTATAGTCTTGCACTTTCCT 58.037 36.000 0.00 0.00 41.20 3.36
3223 10753 7.718272 TTACGTCCCAAAATATAGTGCATAC 57.282 36.000 0.00 0.00 0.00 2.39
3270 10800 2.824341 AGGTAGCACCACACTACAGTAC 59.176 50.000 7.86 0.00 41.95 2.73
3282 10812 2.450609 TTCAAGACGAAGGTAGCACC 57.549 50.000 0.00 0.00 38.99 5.01
3305 10835 3.447229 AGCGTTGCCCAAATTTATAAGCT 59.553 39.130 0.00 0.00 0.00 3.74
3324 10854 2.633657 GCCGACCAATGCATAGCG 59.366 61.111 0.00 1.39 0.00 4.26
3334 10864 0.035598 TTGAAAAGATCCGCCGACCA 59.964 50.000 0.00 0.00 0.00 4.02
3351 10881 1.060937 CGAGGCGGCGAATCTTTTG 59.939 57.895 12.98 0.00 0.00 2.44
3380 10911 2.798148 AAGGCACCCCACGTCGAATC 62.798 60.000 0.00 0.00 0.00 2.52
3385 10916 0.953960 CTAACAAGGCACCCCACGTC 60.954 60.000 0.00 0.00 0.00 4.34
3397 10928 6.734104 AAGCTAGCAACTGAATCTAACAAG 57.266 37.500 18.83 0.00 0.00 3.16
3426 11472 5.380900 TGTCCAAACACAACATCATCCTTA 58.619 37.500 0.00 0.00 0.00 2.69
3436 11482 3.681897 TGTTGCAAATGTCCAAACACAAC 59.318 39.130 0.00 0.00 38.48 3.32
3608 12214 4.144297 CAACATCCTCCTTGTTGGAAGAA 58.856 43.478 8.33 0.00 46.46 2.52
3609 12215 3.754965 CAACATCCTCCTTGTTGGAAGA 58.245 45.455 8.33 0.00 46.46 2.87
3664 12270 0.526211 CCTCATCACCGTTCGACAGA 59.474 55.000 0.00 0.00 0.00 3.41
3700 12306 1.374125 CGTCACGATGGCAAGGACA 60.374 57.895 0.00 0.00 0.00 4.02
3727 12333 2.183046 GTCAGAGGTCCAGCGCTC 59.817 66.667 7.13 0.00 0.00 5.03
3740 12346 2.362369 ATGGAGGCGACCTGGTCAG 61.362 63.158 25.42 18.30 31.76 3.51
3756 12362 2.723322 TTGGAGAGAAGGATGGCATG 57.277 50.000 3.81 0.00 0.00 4.06
3757 12363 2.781757 TCATTGGAGAGAAGGATGGCAT 59.218 45.455 0.00 0.00 0.00 4.40
3962 12676 3.956317 CGCAGCAGCAGCACAACA 61.956 61.111 10.77 0.00 45.49 3.33
3984 12701 2.757894 AACAACCCCAACCACATGTA 57.242 45.000 0.00 0.00 0.00 2.29


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

AutoCloner maintained by Alex Coulton.