Multiple sequence alignment - TraesCS1B01G455100

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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 TraesCS1B01G455100 chr1B 100.000 3700 0 0 1 3700 670275501 670271802 0.000000e+00 6833.0
1 TraesCS1B01G455100 chr1B 94.084 862 44 4 2087 2945 670235538 670234681 0.000000e+00 1303.0
2 TraesCS1B01G455100 chr1B 78.731 1481 282 25 1198 2666 670899826 670901285 0.000000e+00 959.0
3 TraesCS1B01G455100 chr1B 93.226 310 15 4 3071 3376 670234467 670234160 5.630000e-123 451.0
4 TraesCS1B01G455100 chr1B 99.355 155 1 0 3546 3700 670211438 670211284 7.820000e-72 281.0
5 TraesCS1B01G455100 chr1B 100.000 42 0 0 3497 3538 670233027 670232986 1.100000e-10 78.7
6 TraesCS1B01G455100 chr1B 86.441 59 8 0 1095 1153 670916815 670916873 8.580000e-07 65.8
7 TraesCS1B01G455100 chr1B 84.375 64 10 0 1090 1153 670899661 670899724 3.080000e-06 63.9
8 TraesCS1B01G455100 chr1A 88.605 2387 185 37 570 2891 578357509 578355145 0.000000e+00 2820.0
9 TraesCS1B01G455100 chr1A 81.232 1071 195 5 1604 2671 578933753 578934820 0.000000e+00 859.0
10 TraesCS1B01G455100 chr1A 84.823 481 53 5 29 506 578358755 578358292 2.010000e-127 466.0
11 TraesCS1B01G455100 chr1A 88.356 146 9 3 3555 3700 578353644 578353507 6.350000e-38 169.0
12 TraesCS1B01G455100 chr1A 83.916 143 19 4 3545 3686 578298522 578298383 2.320000e-27 134.0
13 TraesCS1B01G455100 chr1D 94.336 1483 61 9 1467 2949 481617479 481616020 0.000000e+00 2252.0
14 TraesCS1B01G455100 chr1D 92.363 838 36 6 572 1395 481618295 481617472 0.000000e+00 1168.0
15 TraesCS1B01G455100 chr1D 78.743 1496 292 19 1198 2686 482369652 482371128 0.000000e+00 977.0
16 TraesCS1B01G455100 chr1D 94.007 534 15 4 1 521 481619051 481618522 0.000000e+00 793.0
17 TraesCS1B01G455100 chr1D 92.063 315 9 8 3402 3700 481615518 481615204 2.640000e-116 429.0
18 TraesCS1B01G455100 chr1D 92.542 295 16 4 3071 3360 481615810 481615517 5.720000e-113 418.0
19 TraesCS1B01G455100 chr1D 91.071 56 5 0 1098 1153 482517320 482517265 3.960000e-10 76.8
20 TraesCS1B01G455100 chr1D 93.617 47 2 1 522 567 481618379 481618333 6.630000e-08 69.4
21 TraesCS1B01G455100 chr3D 78.890 1459 283 20 1226 2677 6023511 6022071 0.000000e+00 965.0
22 TraesCS1B01G455100 chr3A 78.148 1501 298 23 1181 2671 15074767 15076247 0.000000e+00 928.0
23 TraesCS1B01G455100 chr3A 92.500 40 1 2 530 567 693198221 693198182 5.160000e-04 56.5
24 TraesCS1B01G455100 chr3B 78.511 1424 286 16 1261 2678 7599297 7600706 0.000000e+00 917.0
25 TraesCS1B01G455100 chrUn 78.447 1378 257 29 1276 2636 346312469 346313823 0.000000e+00 863.0


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 TraesCS1B01G455100 chr1B 670271802 670275501 3699 True 6833.000000 6833 100.000000 1 3700 1 chr1B.!!$R2 3699
1 TraesCS1B01G455100 chr1B 670232986 670235538 2552 True 610.900000 1303 95.770000 2087 3538 3 chr1B.!!$R3 1451
2 TraesCS1B01G455100 chr1B 670899661 670901285 1624 False 511.450000 959 81.553000 1090 2666 2 chr1B.!!$F2 1576
3 TraesCS1B01G455100 chr1A 578353507 578358755 5248 True 1151.666667 2820 87.261333 29 3700 3 chr1A.!!$R2 3671
4 TraesCS1B01G455100 chr1A 578933753 578934820 1067 False 859.000000 859 81.232000 1604 2671 1 chr1A.!!$F1 1067
5 TraesCS1B01G455100 chr1D 482369652 482371128 1476 False 977.000000 977 78.743000 1198 2686 1 chr1D.!!$F1 1488
6 TraesCS1B01G455100 chr1D 481615204 481619051 3847 True 854.900000 2252 93.154667 1 3700 6 chr1D.!!$R2 3699
7 TraesCS1B01G455100 chr3D 6022071 6023511 1440 True 965.000000 965 78.890000 1226 2677 1 chr3D.!!$R1 1451
8 TraesCS1B01G455100 chr3A 15074767 15076247 1480 False 928.000000 928 78.148000 1181 2671 1 chr3A.!!$F1 1490
9 TraesCS1B01G455100 chr3B 7599297 7600706 1409 False 917.000000 917 78.511000 1261 2678 1 chr3B.!!$F1 1417
10 TraesCS1B01G455100 chrUn 346312469 346313823 1354 False 863.000000 863 78.447000 1276 2636 1 chrUn.!!$F1 1360

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
523 757 0.519175 CGAGCACGCATGTAACAAGC 60.519 55.0 0.0 0.00 0.00 4.01 F
975 1838 0.533755 AGCTTGGCTTGGCTATAGCG 60.534 55.0 18.3 6.21 37.53 4.26 F
1411 2349 0.806868 GACGGACGACATGGAGTGTA 59.193 55.0 0.0 0.00 42.36 2.90 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2053 3025 0.250338 GTTGGCCACCTTCGAGAGTT 60.250 55.0 3.88 0.00 0.00 3.01 R
2456 3428 1.896220 CATACAACACAGTGGCCAGT 58.104 50.0 5.11 6.41 0.00 4.00 R
3029 4007 0.099791 CAACCGCCAAACGTTGAAGT 59.900 50.0 0.00 0.00 41.42 3.01 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
44 47 9.507329 ACCATCTATGTTTGATCATACCATAAC 57.493 33.333 12.93 6.33 0.00 1.89
84 87 5.409826 GCAGATTACAGGTTAGTATGGATGC 59.590 44.000 0.00 0.00 0.00 3.91
85 88 6.524734 CAGATTACAGGTTAGTATGGATGCA 58.475 40.000 0.00 0.00 0.00 3.96
86 89 7.164122 CAGATTACAGGTTAGTATGGATGCAT 58.836 38.462 4.68 4.68 0.00 3.96
87 90 7.118825 CAGATTACAGGTTAGTATGGATGCATG 59.881 40.741 10.37 0.00 0.00 4.06
106 109 2.049156 TGTCCTCGCAGCTCAACG 60.049 61.111 0.00 0.00 0.00 4.10
252 257 9.969001 ATAGAATAAAGGTTAAAGTTGCACCTA 57.031 29.630 6.66 0.00 40.23 3.08
327 332 6.992063 AATAGGAGTACAAAACATCTGCAG 57.008 37.500 7.63 7.63 0.00 4.41
337 342 4.825546 AAACATCTGCAGAAGACACAAG 57.174 40.909 24.79 8.25 37.88 3.16
339 344 2.148768 CATCTGCAGAAGACACAAGCA 58.851 47.619 22.50 0.00 37.88 3.91
343 348 1.001048 TGCAGAAGACACAAGCAATGC 60.001 47.619 0.00 0.00 31.42 3.56
401 406 7.539712 TCGAGATGAAATTTACAGATTCACC 57.460 36.000 0.00 0.00 36.03 4.02
408 413 9.811995 ATGAAATTTACAGATTCACCATGATTG 57.188 29.630 0.00 0.00 36.03 2.67
522 756 3.568181 CGAGCACGCATGTAACAAG 57.432 52.632 0.00 0.00 0.00 3.16
523 757 0.519175 CGAGCACGCATGTAACAAGC 60.519 55.000 0.00 0.00 0.00 4.01
529 907 2.450365 CGCATGTAACAAGCGCATAA 57.550 45.000 11.47 0.00 43.88 1.90
558 936 5.788450 TGACATTGTTTGTTTTGAGGTTGT 58.212 33.333 0.00 0.00 39.18 3.32
583 1415 4.789784 ACCATAATTTCGTTGGTTGTTCG 58.210 39.130 0.00 0.00 40.87 3.95
643 1475 3.295273 TCTGAGCACGCACGACCT 61.295 61.111 0.00 0.00 0.00 3.85
680 1524 8.570488 TGCATGTATTATTGGTGATTCTTCATC 58.430 33.333 0.00 0.00 33.56 2.92
758 1611 2.161808 AGTCAGTGACATCTAACGTCGG 59.838 50.000 24.73 0.00 36.11 4.79
800 1662 5.675538 ACTGATAGATACCAGGTTTGCTTC 58.324 41.667 0.00 0.00 34.85 3.86
878 1741 1.287425 GTACGTAAGCCATGCAGGTC 58.713 55.000 0.00 0.00 45.62 3.85
887 1750 2.158842 AGCCATGCAGGTCTTCTATGTC 60.159 50.000 0.00 0.00 40.61 3.06
895 1758 1.863454 GGTCTTCTATGTCTGCATGCG 59.137 52.381 14.09 8.20 36.58 4.73
974 1837 1.233919 GAGCTTGGCTTGGCTATAGC 58.766 55.000 16.78 16.78 39.88 2.97
975 1838 0.533755 AGCTTGGCTTGGCTATAGCG 60.534 55.000 18.30 6.21 37.53 4.26
976 1839 1.944778 CTTGGCTTGGCTATAGCGC 59.055 57.895 18.30 15.39 43.26 5.92
977 1840 0.815213 CTTGGCTTGGCTATAGCGCA 60.815 55.000 18.30 14.10 43.26 6.09
1049 1918 1.451927 GCATCCAGATGGCAACGGA 60.452 57.895 9.58 9.82 39.16 4.69
1249 2187 2.107750 AGCCGTCCATGCTGATCG 59.892 61.111 0.00 0.00 37.76 3.69
1373 2311 3.866582 CTCCATCCTCCGTGGGGC 61.867 72.222 0.00 0.00 37.34 5.80
1408 2346 2.697761 CCGACGGACGACATGGAGT 61.698 63.158 8.64 0.00 45.77 3.85
1411 2349 0.806868 GACGGACGACATGGAGTGTA 59.193 55.000 0.00 0.00 42.36 2.90
1412 2350 1.200716 GACGGACGACATGGAGTGTAA 59.799 52.381 0.00 0.00 42.36 2.41
1428 2366 3.961838 TAACGCCGCGGCCAAGATT 62.962 57.895 42.07 28.40 37.98 2.40
1431 2369 4.536687 GCCGCGGCCAAGATTTCG 62.537 66.667 39.89 1.92 34.56 3.46
1433 2371 3.124921 CGCGGCCAAGATTTCGGT 61.125 61.111 2.24 0.00 0.00 4.69
1474 2412 4.779733 ACATCCCCTCCGCCGACT 62.780 66.667 0.00 0.00 0.00 4.18
1475 2413 3.917760 CATCCCCTCCGCCGACTC 61.918 72.222 0.00 0.00 0.00 3.36
1817 2789 2.390599 CGCCCTCACCGTCATTGTG 61.391 63.158 0.00 0.00 35.01 3.33
1973 2945 2.169352 CGAGAGGGAGATCAACCACATT 59.831 50.000 8.23 0.00 0.00 2.71
2009 2981 0.842030 TGACACCCATCCTCTGCCTT 60.842 55.000 0.00 0.00 0.00 4.35
2213 3185 5.512576 GCTCTTTGTTACCCTCTACCAAAGA 60.513 44.000 11.33 11.33 45.08 2.52
2281 3253 2.435069 TCTTCTTTGTCACCGTACCCAA 59.565 45.455 0.00 0.00 0.00 4.12
2723 3695 7.274447 AGAAATTTGAGATCCAAGTGCAAAAA 58.726 30.769 0.00 0.00 35.94 1.94
2770 3742 6.369065 AGAAAACGAGGAGAATCAACACATAC 59.631 38.462 0.00 0.00 36.25 2.39
2885 3862 4.338118 GGCGATAAATTGATCCTGGTTTCA 59.662 41.667 0.00 0.00 0.00 2.69
2887 3864 6.461509 GGCGATAAATTGATCCTGGTTTCAAT 60.462 38.462 16.54 16.54 42.77 2.57
2888 3865 7.255451 GGCGATAAATTGATCCTGGTTTCAATA 60.255 37.037 20.16 11.34 40.70 1.90
2946 3924 8.993121 CAAGGAACACCATCTTGTATGTATATC 58.007 37.037 0.00 0.00 34.76 1.63
3014 3992 9.914131 TCTTCATAAGTCATCTGTTTATATCCG 57.086 33.333 0.00 0.00 0.00 4.18
3015 3993 9.698309 CTTCATAAGTCATCTGTTTATATCCGT 57.302 33.333 0.00 0.00 0.00 4.69
3021 3999 9.886132 AAGTCATCTGTTTATATCCGTTAGTTT 57.114 29.630 0.00 0.00 0.00 2.66
3022 4000 9.886132 AGTCATCTGTTTATATCCGTTAGTTTT 57.114 29.630 0.00 0.00 0.00 2.43
3023 4001 9.916397 GTCATCTGTTTATATCCGTTAGTTTTG 57.084 33.333 0.00 0.00 0.00 2.44
3024 4002 9.661563 TCATCTGTTTATATCCGTTAGTTTTGT 57.338 29.630 0.00 0.00 0.00 2.83
3025 4003 9.702726 CATCTGTTTATATCCGTTAGTTTTGTG 57.297 33.333 0.00 0.00 0.00 3.33
3026 4004 8.836268 TCTGTTTATATCCGTTAGTTTTGTGT 57.164 30.769 0.00 0.00 0.00 3.72
3027 4005 9.926158 TCTGTTTATATCCGTTAGTTTTGTGTA 57.074 29.630 0.00 0.00 0.00 2.90
3042 4020 6.518455 GTTTTGTGTAAACTTCAACGTTTGG 58.482 36.000 0.00 0.00 42.32 3.28
3043 4021 3.760537 TGTGTAAACTTCAACGTTTGGC 58.239 40.909 0.00 0.00 37.63 4.52
3044 4022 9.878976 GTTTTGTGTAAACTTCAACGTTTGGCG 62.879 40.741 0.00 0.00 42.32 5.69
3045 4023 2.223294 TGTAAACTTCAACGTTTGGCGG 60.223 45.455 0.00 0.00 46.52 6.13
3046 4024 0.812549 AAACTTCAACGTTTGGCGGT 59.187 45.000 0.00 0.00 46.52 5.68
3047 4025 0.812549 AACTTCAACGTTTGGCGGTT 59.187 45.000 0.00 0.00 46.52 4.44
3048 4026 0.099791 ACTTCAACGTTTGGCGGTTG 59.900 50.000 0.00 4.74 46.52 3.77
3049 4027 0.378962 CTTCAACGTTTGGCGGTTGA 59.621 50.000 0.00 8.51 46.52 3.18
3050 4028 0.809385 TTCAACGTTTGGCGGTTGAA 59.191 45.000 16.61 16.61 46.52 2.69
3051 4029 0.809385 TCAACGTTTGGCGGTTGAAA 59.191 45.000 0.00 0.00 46.52 2.69
3052 4030 1.405821 TCAACGTTTGGCGGTTGAAAT 59.594 42.857 0.00 0.00 46.52 2.17
3053 4031 2.159226 TCAACGTTTGGCGGTTGAAATT 60.159 40.909 0.00 0.00 46.52 1.82
3054 4032 2.588027 ACGTTTGGCGGTTGAAATTT 57.412 40.000 0.00 0.00 46.52 1.82
3055 4033 3.712091 ACGTTTGGCGGTTGAAATTTA 57.288 38.095 0.00 0.00 46.52 1.40
3056 4034 4.043037 ACGTTTGGCGGTTGAAATTTAA 57.957 36.364 0.00 0.00 46.52 1.52
3057 4035 4.430908 ACGTTTGGCGGTTGAAATTTAAA 58.569 34.783 0.00 0.00 46.52 1.52
3058 4036 4.868734 ACGTTTGGCGGTTGAAATTTAAAA 59.131 33.333 0.00 0.00 46.52 1.52
3059 4037 5.350640 ACGTTTGGCGGTTGAAATTTAAAAA 59.649 32.000 0.00 0.00 46.52 1.94
3060 4038 6.037281 ACGTTTGGCGGTTGAAATTTAAAAAT 59.963 30.769 0.00 0.00 46.52 1.82
3061 4039 7.224167 ACGTTTGGCGGTTGAAATTTAAAAATA 59.776 29.630 0.00 0.00 46.52 1.40
3062 4040 7.738176 CGTTTGGCGGTTGAAATTTAAAAATAG 59.262 33.333 0.00 0.00 36.85 1.73
3063 4041 8.766151 GTTTGGCGGTTGAAATTTAAAAATAGA 58.234 29.630 0.00 0.00 0.00 1.98
3064 4042 9.495572 TTTGGCGGTTGAAATTTAAAAATAGAT 57.504 25.926 0.00 0.00 0.00 1.98
3065 4043 8.696410 TGGCGGTTGAAATTTAAAAATAGATC 57.304 30.769 0.00 0.00 0.00 2.75
3066 4044 8.527810 TGGCGGTTGAAATTTAAAAATAGATCT 58.472 29.630 0.00 0.00 0.00 2.75
3087 4524 5.961272 TCTACACACATGTCGTACAATGAT 58.039 37.500 0.00 0.00 40.48 2.45
3090 4527 5.178061 ACACACATGTCGTACAATGATGAT 58.822 37.500 0.00 0.00 31.55 2.45
3157 4594 3.490031 ATCCTGCAACACACGGGCA 62.490 57.895 0.00 0.00 33.23 5.36
3248 4689 1.517257 CAGTCGTCAGCGTCCATCC 60.517 63.158 0.00 0.00 39.49 3.51
3367 4810 0.721718 CGTCGACTTTGGAATGGAGC 59.278 55.000 14.70 0.00 0.00 4.70
3393 4863 5.749109 GCGGCCTTTGTATATATAGTGCTAG 59.251 44.000 0.00 0.00 0.00 3.42
3398 4868 7.278868 GCCTTTGTATATATAGTGCTAGCTTGG 59.721 40.741 17.23 0.00 0.00 3.61
3449 4919 6.294342 GCGGTGGACTTTCTATTTTTAAACCT 60.294 38.462 0.00 0.00 0.00 3.50
3558 6380 3.861113 TCGCATCAGGATTTACACGTAAC 59.139 43.478 0.00 0.00 0.00 2.50
3623 6445 0.593773 GTTTCACGTGCCGCAAATGT 60.594 50.000 11.67 0.00 0.00 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 47 2.493035 TCTGCGAGCTCTCTAGATCAG 58.507 52.381 12.85 7.34 38.06 2.90
84 87 1.812922 GAGCTGCGAGGACACCATG 60.813 63.158 0.00 0.00 0.00 3.66
85 88 1.830587 TTGAGCTGCGAGGACACCAT 61.831 55.000 0.00 0.00 0.00 3.55
86 89 2.506957 TTGAGCTGCGAGGACACCA 61.507 57.895 0.00 0.00 0.00 4.17
87 90 2.029844 GTTGAGCTGCGAGGACACC 61.030 63.158 0.00 0.00 0.00 4.16
314 319 4.556942 TGTGTCTTCTGCAGATGTTTTG 57.443 40.909 24.31 9.40 32.60 2.44
327 332 5.702865 TGAATTAGCATTGCTTGTGTCTTC 58.297 37.500 17.71 10.85 40.44 2.87
558 936 6.856938 CGAACAACCAACGAAATTATGGTAAA 59.143 34.615 0.00 0.00 46.46 2.01
567 1366 5.872617 TCATATCTCGAACAACCAACGAAAT 59.127 36.000 0.00 0.00 35.70 2.17
570 1402 4.443913 TCATATCTCGAACAACCAACGA 57.556 40.909 0.00 0.00 34.90 3.85
583 1415 9.593134 AGGAGCATAATATTCGTTTCATATCTC 57.407 33.333 0.00 0.00 0.00 2.75
680 1524 4.212214 GGCAGTTGACTAGTTGACTTGAAG 59.788 45.833 8.80 0.00 0.00 3.02
758 1611 6.420913 TCAGTTTATATAGGTTCCAGAGCC 57.579 41.667 0.00 0.00 0.00 4.70
825 1688 3.022401 GCACGCGCCGAATTCTTCA 62.022 57.895 5.73 0.00 0.00 3.02
878 1741 4.808077 AAATCGCATGCAGACATAGAAG 57.192 40.909 19.57 0.00 33.67 2.85
905 1768 0.731417 GTAGTTAGCTCGGCTCGTCA 59.269 55.000 1.46 0.00 40.44 4.35
974 1837 1.736645 AACCGATCAAGGACGTGCG 60.737 57.895 0.00 0.00 34.73 5.34
975 1838 0.949105 ACAACCGATCAAGGACGTGC 60.949 55.000 0.00 0.00 34.73 5.34
976 1839 1.194547 CAACAACCGATCAAGGACGTG 59.805 52.381 0.00 0.00 34.73 4.49
977 1840 1.508632 CAACAACCGATCAAGGACGT 58.491 50.000 0.00 0.00 34.73 4.34
1049 1918 0.392729 CGGAGACTCGTCCAGTACCT 60.393 60.000 0.00 0.00 36.23 3.08
1433 2371 3.680786 CCTCGTCGGTGTGCTCCA 61.681 66.667 0.00 0.00 0.00 3.86
1474 2412 2.682494 AAGGGCGGCGAAGTAGGA 60.682 61.111 12.98 0.00 0.00 2.94
1475 2413 2.511600 CAAGGGCGGCGAAGTAGG 60.512 66.667 12.98 0.00 0.00 3.18
1817 2789 3.181489 CCTTGAGTAGGTACGTGATGGAC 60.181 52.174 0.00 0.00 39.39 4.02
1973 2945 2.225267 TGTCATGAGGAGGTACCAGACA 60.225 50.000 15.94 12.39 42.04 3.41
2009 2981 1.112113 GGCCGTAGATCTTGAGGTCA 58.888 55.000 0.00 0.00 0.00 4.02
2053 3025 0.250338 GTTGGCCACCTTCGAGAGTT 60.250 55.000 3.88 0.00 0.00 3.01
2213 3185 3.476031 CTGCACGTTGGTGGGGAGT 62.476 63.158 0.00 0.00 44.54 3.85
2456 3428 1.896220 CATACAACACAGTGGCCAGT 58.104 50.000 5.11 6.41 0.00 4.00
2723 3695 2.952978 TGTTTAGGTCCACGTTTTGCAT 59.047 40.909 0.00 0.00 0.00 3.96
2862 3839 4.338118 TGAAACCAGGATCAATTTATCGCC 59.662 41.667 0.00 0.00 0.00 5.54
2887 3864 8.727910 CGTTACTCTGGCACTTCTACATATATA 58.272 37.037 0.00 0.00 0.00 0.86
2888 3865 7.230913 ACGTTACTCTGGCACTTCTACATATAT 59.769 37.037 0.00 0.00 0.00 0.86
2894 3871 3.572604 ACGTTACTCTGGCACTTCTAC 57.427 47.619 0.00 0.00 0.00 2.59
2988 3966 9.914131 CGGATATAAACAGATGACTTATGAAGA 57.086 33.333 0.00 0.00 0.00 2.87
2989 3967 9.698309 ACGGATATAAACAGATGACTTATGAAG 57.302 33.333 0.00 0.00 0.00 3.02
2995 3973 9.886132 AAACTAACGGATATAAACAGATGACTT 57.114 29.630 0.00 0.00 0.00 3.01
2996 3974 9.886132 AAAACTAACGGATATAAACAGATGACT 57.114 29.630 0.00 0.00 0.00 3.41
2997 3975 9.916397 CAAAACTAACGGATATAAACAGATGAC 57.084 33.333 0.00 0.00 0.00 3.06
2998 3976 9.661563 ACAAAACTAACGGATATAAACAGATGA 57.338 29.630 0.00 0.00 0.00 2.92
2999 3977 9.702726 CACAAAACTAACGGATATAAACAGATG 57.297 33.333 0.00 0.00 0.00 2.90
3000 3978 9.444600 ACACAAAACTAACGGATATAAACAGAT 57.555 29.630 0.00 0.00 0.00 2.90
3001 3979 8.836268 ACACAAAACTAACGGATATAAACAGA 57.164 30.769 0.00 0.00 0.00 3.41
3018 3996 6.518455 CCAAACGTTGAAGTTTACACAAAAC 58.482 36.000 0.00 0.00 46.61 2.43
3019 3997 5.118817 GCCAAACGTTGAAGTTTACACAAAA 59.881 36.000 0.00 0.00 41.84 2.44
3020 3998 4.621886 GCCAAACGTTGAAGTTTACACAAA 59.378 37.500 0.00 0.00 41.84 2.83
3021 3999 4.167268 GCCAAACGTTGAAGTTTACACAA 58.833 39.130 0.00 0.00 41.84 3.33
3022 4000 3.728268 CGCCAAACGTTGAAGTTTACACA 60.728 43.478 0.00 0.00 41.84 3.72
3023 4001 2.779471 CGCCAAACGTTGAAGTTTACAC 59.221 45.455 0.00 0.00 41.84 2.90
3024 4002 2.223294 CCGCCAAACGTTGAAGTTTACA 60.223 45.455 0.00 0.00 41.84 2.41
3025 4003 2.223317 ACCGCCAAACGTTGAAGTTTAC 60.223 45.455 0.00 0.00 41.84 2.01
3026 4004 2.015587 ACCGCCAAACGTTGAAGTTTA 58.984 42.857 0.00 0.00 41.84 2.01
3027 4005 0.812549 ACCGCCAAACGTTGAAGTTT 59.187 45.000 0.00 0.00 44.27 2.66
3028 4006 0.812549 AACCGCCAAACGTTGAAGTT 59.187 45.000 0.00 0.00 41.42 2.66
3029 4007 0.099791 CAACCGCCAAACGTTGAAGT 59.900 50.000 0.00 0.00 41.42 3.01
3030 4008 0.378962 TCAACCGCCAAACGTTGAAG 59.621 50.000 0.00 0.00 38.19 3.02
3031 4009 0.809385 TTCAACCGCCAAACGTTGAA 59.191 45.000 0.00 10.44 43.19 2.69
3032 4010 0.809385 TTTCAACCGCCAAACGTTGA 59.191 45.000 0.00 0.00 41.42 3.18
3033 4011 1.846541 ATTTCAACCGCCAAACGTTG 58.153 45.000 0.00 0.00 41.42 4.10
3034 4012 2.588027 AATTTCAACCGCCAAACGTT 57.412 40.000 0.00 0.00 41.42 3.99
3035 4013 2.588027 AAATTTCAACCGCCAAACGT 57.412 40.000 0.00 0.00 41.42 3.99
3036 4014 5.391060 TTTTAAATTTCAACCGCCAAACG 57.609 34.783 0.00 0.00 43.15 3.60
3037 4015 8.766151 TCTATTTTTAAATTTCAACCGCCAAAC 58.234 29.630 0.00 0.00 0.00 2.93
3038 4016 8.888579 TCTATTTTTAAATTTCAACCGCCAAA 57.111 26.923 0.00 0.00 0.00 3.28
3039 4017 9.145865 GATCTATTTTTAAATTTCAACCGCCAA 57.854 29.630 0.00 0.00 0.00 4.52
3040 4018 8.527810 AGATCTATTTTTAAATTTCAACCGCCA 58.472 29.630 0.00 0.00 0.00 5.69
3041 4019 8.926715 AGATCTATTTTTAAATTTCAACCGCC 57.073 30.769 0.00 0.00 0.00 6.13
3053 4031 9.647797 ACGACATGTGTGTAGATCTATTTTTAA 57.352 29.630 1.15 0.00 39.09 1.52
3055 4033 9.084164 GTACGACATGTGTGTAGATCTATTTTT 57.916 33.333 1.15 0.00 39.09 1.94
3056 4034 8.248253 TGTACGACATGTGTGTAGATCTATTTT 58.752 33.333 1.15 0.00 39.09 1.82
3057 4035 7.768240 TGTACGACATGTGTGTAGATCTATTT 58.232 34.615 1.15 0.00 39.09 1.40
3058 4036 7.329588 TGTACGACATGTGTGTAGATCTATT 57.670 36.000 1.15 0.00 39.09 1.73
3059 4037 6.937436 TGTACGACATGTGTGTAGATCTAT 57.063 37.500 1.15 0.00 39.09 1.98
3060 4038 6.746745 TTGTACGACATGTGTGTAGATCTA 57.253 37.500 1.15 0.00 39.09 1.98
3061 4039 5.638596 TTGTACGACATGTGTGTAGATCT 57.361 39.130 1.15 0.00 39.09 2.75
3062 4040 6.033966 TCATTGTACGACATGTGTGTAGATC 58.966 40.000 1.15 0.00 39.09 2.75
3063 4041 5.961272 TCATTGTACGACATGTGTGTAGAT 58.039 37.500 1.15 1.03 39.09 1.98
3064 4042 5.379732 TCATTGTACGACATGTGTGTAGA 57.620 39.130 1.15 1.54 39.09 2.59
3065 4043 5.804979 TCATCATTGTACGACATGTGTGTAG 59.195 40.000 1.15 0.00 39.09 2.74
3066 4044 5.715070 TCATCATTGTACGACATGTGTGTA 58.285 37.500 1.15 2.95 39.09 2.90
3067 4045 4.565022 TCATCATTGTACGACATGTGTGT 58.435 39.130 1.15 4.08 42.49 3.72
3068 4046 5.291614 TCATCATCATTGTACGACATGTGTG 59.708 40.000 1.15 0.00 0.00 3.82
3069 4047 5.291858 GTCATCATCATTGTACGACATGTGT 59.708 40.000 1.15 4.54 0.00 3.72
3070 4048 5.555069 CGTCATCATCATTGTACGACATGTG 60.555 44.000 1.15 0.00 32.35 3.21
3071 4049 4.504097 CGTCATCATCATTGTACGACATGT 59.496 41.667 0.00 0.00 32.35 3.21
3072 4050 4.504097 ACGTCATCATCATTGTACGACATG 59.496 41.667 0.00 0.00 34.62 3.21
3073 4051 4.504097 CACGTCATCATCATTGTACGACAT 59.496 41.667 0.00 0.00 34.62 3.06
3087 4524 0.249447 GGCATCGATCCACGTCATCA 60.249 55.000 0.00 0.00 43.13 3.07
3090 4527 2.104132 CGGCATCGATCCACGTCA 59.896 61.111 0.00 0.00 43.13 4.35
3157 4594 2.960688 GCCTCCTCGCCTGGAAGTT 61.961 63.158 0.00 0.00 35.43 2.66
3337 4780 0.800631 AAGTCGACGATGTACGCTCA 59.199 50.000 10.46 0.00 46.94 4.26
3367 4810 4.330074 GCACTATATATACAAAGGCCGCAG 59.670 45.833 0.00 0.00 0.00 5.18
3393 4863 4.097286 TGTTTGACTTTCTACCAACCAAGC 59.903 41.667 0.00 0.00 0.00 4.01
3398 4868 5.025826 CGTTGTGTTTGACTTTCTACCAAC 58.974 41.667 0.00 0.00 0.00 3.77
3449 4919 7.012894 CACCACCTTGTCTGTGTATTTCTTTTA 59.987 37.037 0.00 0.00 31.71 1.52
3458 4928 0.249699 CGCACCACCTTGTCTGTGTA 60.250 55.000 0.00 0.00 31.71 2.90
3490 5930 1.140452 CTAGGGCATGCAGTGATCACT 59.860 52.381 22.89 22.89 43.61 3.41
3492 5932 1.139654 GTCTAGGGCATGCAGTGATCA 59.860 52.381 21.36 0.00 0.00 2.92
3493 5933 1.871408 CGTCTAGGGCATGCAGTGATC 60.871 57.143 21.36 0.00 0.00 2.92
3494 5934 0.105593 CGTCTAGGGCATGCAGTGAT 59.894 55.000 21.36 2.27 0.00 3.06
3495 5935 1.517361 CGTCTAGGGCATGCAGTGA 59.483 57.895 21.36 8.83 0.00 3.41
3558 6380 7.921786 TTAGGTTGGTCAATTCATCTGTTAG 57.078 36.000 0.00 0.00 0.00 2.34
3623 6445 1.128200 AGTGACAGGTGCACAGGTAA 58.872 50.000 20.43 6.11 38.70 2.85


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

AutoCloner maintained by Alex Coulton.