Multiple sequence alignment - TraesCS2B01G478800

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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 TraesCS2B01G478800 chr2B 100.000 2466 0 0 1 2466 676078325 676080790 0.000000e+00 4554.0
1 TraesCS2B01G478800 chr2B 88.100 1042 112 7 548 1586 161990733 161991765 0.000000e+00 1227.0
2 TraesCS2B01G478800 chr1D 85.867 1217 131 17 551 1736 490936347 490935141 0.000000e+00 1256.0
3 TraesCS2B01G478800 chr1D 83.830 940 137 14 551 1480 445585136 445586070 0.000000e+00 880.0
4 TraesCS2B01G478800 chr3D 85.750 1207 132 16 551 1736 111923304 111924491 0.000000e+00 1240.0
5 TraesCS2B01G478800 chr3D 93.593 718 41 3 1741 2458 335234830 335234118 0.000000e+00 1066.0
6 TraesCS2B01G478800 chr3D 81.290 1101 157 35 557 1646 549352374 549351312 0.000000e+00 846.0
7 TraesCS2B01G478800 chr5B 85.287 1203 150 11 553 1735 588387288 588388483 0.000000e+00 1216.0
8 TraesCS2B01G478800 chr2D 84.901 1159 151 16 551 1685 505537327 505538485 0.000000e+00 1149.0
9 TraesCS2B01G478800 chr2D 92.181 729 51 5 1741 2466 43051164 43051889 0.000000e+00 1026.0
10 TraesCS2B01G478800 chr7D 84.327 1174 134 31 548 1686 28535143 28536301 0.000000e+00 1103.0
11 TraesCS2B01G478800 chr7D 93.260 727 42 4 1741 2466 402385937 402385217 0.000000e+00 1064.0
12 TraesCS2B01G478800 chr7D 93.409 531 33 1 1 531 484026239 484026767 0.000000e+00 785.0
13 TraesCS2B01G478800 chr7D 92.655 531 37 2 1 531 483995937 483996465 0.000000e+00 763.0
14 TraesCS2B01G478800 chr7D 92.467 531 40 0 1 531 484060996 484061526 0.000000e+00 760.0
15 TraesCS2B01G478800 chr7D 92.090 531 42 0 1 531 483935113 483935643 0.000000e+00 749.0
16 TraesCS2B01G478800 chr7D 92.090 531 42 0 1 531 484019230 484019760 0.000000e+00 749.0
17 TraesCS2B01G478800 chr7D 92.090 531 42 0 1 531 484021023 484021553 0.000000e+00 749.0
18 TraesCS2B01G478800 chr7D 92.090 531 42 0 1 531 484022816 484023346 0.000000e+00 749.0
19 TraesCS2B01G478800 chr7D 91.902 531 43 0 1 531 484017437 484017967 0.000000e+00 743.0
20 TraesCS2B01G478800 chr7D 91.902 531 42 1 1 531 484016014 484016543 0.000000e+00 741.0
21 TraesCS2B01G478800 chr7D 94.595 37 2 0 1700 1736 141299478 141299514 9.530000e-05 58.4
22 TraesCS2B01G478800 chr7B 87.766 940 113 2 553 1490 43210784 43209845 0.000000e+00 1098.0
23 TraesCS2B01G478800 chr7B 83.652 942 136 16 551 1480 410481177 410482112 0.000000e+00 870.0
24 TraesCS2B01G478800 chr6D 93.269 728 42 6 1741 2466 120615931 120616653 0.000000e+00 1066.0
25 TraesCS2B01G478800 chr6D 93.132 728 42 5 1740 2466 139398019 139398739 0.000000e+00 1061.0
26 TraesCS2B01G478800 chr6D 92.926 721 41 6 1741 2458 394773293 394772580 0.000000e+00 1040.0
27 TraesCS2B01G478800 chr6D 92.455 729 45 5 1740 2466 291073570 291074290 0.000000e+00 1033.0
28 TraesCS2B01G478800 chr5D 93.398 727 36 3 1741 2466 230995567 230996282 0.000000e+00 1066.0
29 TraesCS2B01G478800 chr5D 87.075 294 26 3 241 531 493291397 493291113 3.060000e-84 322.0
30 TraesCS2B01G478800 chr5D 74.561 228 24 21 1533 1736 63414335 63414118 4.400000e-08 69.4
31 TraesCS2B01G478800 chr4B 93.014 730 45 4 1739 2466 475960436 475959711 0.000000e+00 1061.0
32 TraesCS2B01G478800 chr5A 85.328 1036 135 12 551 1582 645695147 645694125 0.000000e+00 1055.0
33 TraesCS2B01G478800 chr5A 79.891 736 130 15 800 1529 644113351 644112628 7.810000e-145 523.0
34 TraesCS2B01G478800 chr3A 83.015 1101 161 20 551 1646 1372437 1371358 0.000000e+00 974.0
35 TraesCS2B01G478800 chr4D 81.728 1215 169 32 548 1736 497181638 497182825 0.000000e+00 965.0
36 TraesCS2B01G478800 chr7A 93.797 532 31 2 1 531 551534408 551534938 0.000000e+00 798.0
37 TraesCS2B01G478800 chr7A 93.233 532 35 1 1 531 551506944 551507475 0.000000e+00 782.0
38 TraesCS2B01G478800 chr7A 92.467 531 40 0 1 531 551499421 551499951 0.000000e+00 760.0
39 TraesCS2B01G478800 chr1A 87.759 531 49 8 1 528 215640222 215640739 7.540000e-170 606.0
40 TraesCS2B01G478800 chr1A 87.382 531 51 8 1 528 215649328 215649845 1.630000e-166 595.0
41 TraesCS2B01G478800 chr6A 87.266 534 52 8 1 531 268140285 268139765 1.630000e-166 595.0
42 TraesCS2B01G478800 chr6A 87.079 534 53 8 1 531 268141881 268141361 7.600000e-165 590.0
43 TraesCS2B01G478800 chr6A 80.583 103 7 6 1645 1736 511036223 511036123 1.580000e-07 67.6
44 TraesCS2B01G478800 chr2A 83.700 546 85 4 938 1480 26765212 26764668 1.690000e-141 512.0
45 TraesCS2B01G478800 chr1B 78.740 762 102 37 1000 1736 526619479 526618753 2.890000e-124 455.0
46 TraesCS2B01G478800 chr3B 82.407 108 9 6 1572 1673 1482954 1482851 4.370000e-13 86.1


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 TraesCS2B01G478800 chr2B 676078325 676080790 2465 False 4554.000000 4554 100.000000 1 2466 1 chr2B.!!$F2 2465
1 TraesCS2B01G478800 chr2B 161990733 161991765 1032 False 1227.000000 1227 88.100000 548 1586 1 chr2B.!!$F1 1038
2 TraesCS2B01G478800 chr1D 490935141 490936347 1206 True 1256.000000 1256 85.867000 551 1736 1 chr1D.!!$R1 1185
3 TraesCS2B01G478800 chr1D 445585136 445586070 934 False 880.000000 880 83.830000 551 1480 1 chr1D.!!$F1 929
4 TraesCS2B01G478800 chr3D 111923304 111924491 1187 False 1240.000000 1240 85.750000 551 1736 1 chr3D.!!$F1 1185
5 TraesCS2B01G478800 chr3D 335234118 335234830 712 True 1066.000000 1066 93.593000 1741 2458 1 chr3D.!!$R1 717
6 TraesCS2B01G478800 chr3D 549351312 549352374 1062 True 846.000000 846 81.290000 557 1646 1 chr3D.!!$R2 1089
7 TraesCS2B01G478800 chr5B 588387288 588388483 1195 False 1216.000000 1216 85.287000 553 1735 1 chr5B.!!$F1 1182
8 TraesCS2B01G478800 chr2D 505537327 505538485 1158 False 1149.000000 1149 84.901000 551 1685 1 chr2D.!!$F2 1134
9 TraesCS2B01G478800 chr2D 43051164 43051889 725 False 1026.000000 1026 92.181000 1741 2466 1 chr2D.!!$F1 725
10 TraesCS2B01G478800 chr7D 28535143 28536301 1158 False 1103.000000 1103 84.327000 548 1686 1 chr7D.!!$F1 1138
11 TraesCS2B01G478800 chr7D 402385217 402385937 720 True 1064.000000 1064 93.260000 1741 2466 1 chr7D.!!$R1 725
12 TraesCS2B01G478800 chr7D 483995937 483996465 528 False 763.000000 763 92.655000 1 531 1 chr7D.!!$F4 530
13 TraesCS2B01G478800 chr7D 484060996 484061526 530 False 760.000000 760 92.467000 1 531 1 chr7D.!!$F5 530
14 TraesCS2B01G478800 chr7D 484016014 484026767 10753 False 752.666667 785 92.247167 1 531 6 chr7D.!!$F6 530
15 TraesCS2B01G478800 chr7D 483935113 483935643 530 False 749.000000 749 92.090000 1 531 1 chr7D.!!$F3 530
16 TraesCS2B01G478800 chr7B 43209845 43210784 939 True 1098.000000 1098 87.766000 553 1490 1 chr7B.!!$R1 937
17 TraesCS2B01G478800 chr7B 410481177 410482112 935 False 870.000000 870 83.652000 551 1480 1 chr7B.!!$F1 929
18 TraesCS2B01G478800 chr6D 120615931 120616653 722 False 1066.000000 1066 93.269000 1741 2466 1 chr6D.!!$F1 725
19 TraesCS2B01G478800 chr6D 139398019 139398739 720 False 1061.000000 1061 93.132000 1740 2466 1 chr6D.!!$F2 726
20 TraesCS2B01G478800 chr6D 394772580 394773293 713 True 1040.000000 1040 92.926000 1741 2458 1 chr6D.!!$R1 717
21 TraesCS2B01G478800 chr6D 291073570 291074290 720 False 1033.000000 1033 92.455000 1740 2466 1 chr6D.!!$F3 726
22 TraesCS2B01G478800 chr5D 230995567 230996282 715 False 1066.000000 1066 93.398000 1741 2466 1 chr5D.!!$F1 725
23 TraesCS2B01G478800 chr4B 475959711 475960436 725 True 1061.000000 1061 93.014000 1739 2466 1 chr4B.!!$R1 727
24 TraesCS2B01G478800 chr5A 645694125 645695147 1022 True 1055.000000 1055 85.328000 551 1582 1 chr5A.!!$R2 1031
25 TraesCS2B01G478800 chr5A 644112628 644113351 723 True 523.000000 523 79.891000 800 1529 1 chr5A.!!$R1 729
26 TraesCS2B01G478800 chr3A 1371358 1372437 1079 True 974.000000 974 83.015000 551 1646 1 chr3A.!!$R1 1095
27 TraesCS2B01G478800 chr4D 497181638 497182825 1187 False 965.000000 965 81.728000 548 1736 1 chr4D.!!$F1 1188
28 TraesCS2B01G478800 chr7A 551534408 551534938 530 False 798.000000 798 93.797000 1 531 1 chr7A.!!$F3 530
29 TraesCS2B01G478800 chr7A 551506944 551507475 531 False 782.000000 782 93.233000 1 531 1 chr7A.!!$F2 530
30 TraesCS2B01G478800 chr7A 551499421 551499951 530 False 760.000000 760 92.467000 1 531 1 chr7A.!!$F1 530
31 TraesCS2B01G478800 chr1A 215640222 215640739 517 False 606.000000 606 87.759000 1 528 1 chr1A.!!$F1 527
32 TraesCS2B01G478800 chr1A 215649328 215649845 517 False 595.000000 595 87.382000 1 528 1 chr1A.!!$F2 527
33 TraesCS2B01G478800 chr6A 268139765 268141881 2116 True 592.500000 595 87.172500 1 531 2 chr6A.!!$R2 530
34 TraesCS2B01G478800 chr2A 26764668 26765212 544 True 512.000000 512 83.700000 938 1480 1 chr2A.!!$R1 542
35 TraesCS2B01G478800 chr1B 526618753 526619479 726 True 455.000000 455 78.740000 1000 1736 1 chr1B.!!$R1 736


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
541 10783 0.103937 CAGCGATCAGAGGTTCCTCC 59.896 60.0 14.4 0.0 33.84 4.3 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2296 12674 0.035915 GTTCTCCCTCTGGTCCTTGC 60.036 60.0 0.0 0.0 0.0 4.01 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
50 10288 9.940166 AAATAACAACCGACTTAAACAAACTAG 57.060 29.630 0.00 0.00 0.00 2.57
92 10330 5.471556 CTCTATCTGAGTGCCATCTTGAT 57.528 43.478 0.00 0.00 37.99 2.57
114 10352 1.255667 GCCTCCCGTTCTGTAGGTGA 61.256 60.000 0.00 0.00 0.00 4.02
152 10390 1.425066 TCAAGGAGAGTTGGGCACATT 59.575 47.619 0.00 0.00 0.00 2.71
229 10467 5.690464 ATCTGCCAGTTATCTTCTTGACT 57.310 39.130 0.00 0.00 0.00 3.41
238 10476 7.052873 CAGTTATCTTCTTGACTGATCCCAAT 58.947 38.462 0.00 0.00 41.46 3.16
415 10656 2.618709 CAGGCCGGATTTGTATTCCTTC 59.381 50.000 5.05 0.00 0.00 3.46
531 10773 5.631096 ACGTTATTGTATCATCAGCGATCAG 59.369 40.000 0.00 0.00 0.00 2.90
532 10774 5.858581 CGTTATTGTATCATCAGCGATCAGA 59.141 40.000 0.00 0.00 0.00 3.27
533 10775 6.033302 CGTTATTGTATCATCAGCGATCAGAG 59.967 42.308 0.00 0.00 0.00 3.35
534 10776 3.930634 TGTATCATCAGCGATCAGAGG 57.069 47.619 0.00 0.00 0.00 3.69
535 10777 3.225940 TGTATCATCAGCGATCAGAGGT 58.774 45.455 0.00 0.00 0.00 3.85
536 10778 3.638627 TGTATCATCAGCGATCAGAGGTT 59.361 43.478 0.00 0.00 0.00 3.50
537 10779 2.879002 TCATCAGCGATCAGAGGTTC 57.121 50.000 0.00 0.00 0.00 3.62
538 10780 1.410517 TCATCAGCGATCAGAGGTTCC 59.589 52.381 0.00 0.00 0.00 3.62
539 10781 1.411977 CATCAGCGATCAGAGGTTCCT 59.588 52.381 0.00 0.00 0.00 3.36
540 10782 1.107114 TCAGCGATCAGAGGTTCCTC 58.893 55.000 10.57 10.57 0.00 3.71
541 10783 0.103937 CAGCGATCAGAGGTTCCTCC 59.896 60.000 14.40 0.00 33.84 4.30
542 10784 0.324738 AGCGATCAGAGGTTCCTCCA 60.325 55.000 14.40 3.30 39.02 3.86
543 10785 0.755686 GCGATCAGAGGTTCCTCCAT 59.244 55.000 14.40 7.72 39.02 3.41
544 10786 1.539929 GCGATCAGAGGTTCCTCCATG 60.540 57.143 14.40 8.20 39.02 3.66
545 10787 1.759445 CGATCAGAGGTTCCTCCATGT 59.241 52.381 14.40 0.23 39.02 3.21
546 10788 2.169352 CGATCAGAGGTTCCTCCATGTT 59.831 50.000 14.40 3.88 39.02 2.71
549 10791 3.184628 TCAGAGGTTCCTCCATGTTCAT 58.815 45.455 14.40 0.00 39.02 2.57
648 10890 2.877154 TTGGGGAGCTTAGAGGAGAT 57.123 50.000 0.00 0.00 0.00 2.75
687 10929 1.273886 GGCCGGACTCCTATCAAGATC 59.726 57.143 5.05 0.00 0.00 2.75
707 10949 2.567169 TCCACACTAGTCCAAGATGGTG 59.433 50.000 0.00 0.00 39.03 4.17
777 11023 7.557358 TGATATGCTTGTATTGTTCAAGGTGAT 59.443 33.333 7.58 0.00 41.50 3.06
789 11035 7.867305 TGTTCAAGGTGATAACTAACACAAA 57.133 32.000 0.00 0.00 38.57 2.83
842 11088 4.501571 GGCAATAGATGGTACTCGTGTCAT 60.502 45.833 0.00 0.00 0.00 3.06
853 11099 1.603802 CTCGTGTCATTGCCAAAGTGT 59.396 47.619 0.00 0.00 0.00 3.55
956 11206 2.371841 AGTTCACCTATGTGTTGGCTGA 59.628 45.455 0.00 0.00 43.26 4.26
965 11215 0.108585 GTGTTGGCTGACTGGGAAGA 59.891 55.000 0.00 0.00 0.00 2.87
1092 11344 2.906354 CCAGGTATTCTTCACCCTTCG 58.094 52.381 0.00 0.00 36.67 3.79
1093 11345 2.500098 CCAGGTATTCTTCACCCTTCGA 59.500 50.000 0.00 0.00 36.67 3.71
1174 11427 4.411327 GAGTCTTCAATCTCAGACACTCG 58.589 47.826 2.36 0.00 41.77 4.18
1198 11451 5.081032 AGCCTTAGAGTTACTGTTGAGAGT 58.919 41.667 0.00 0.00 0.00 3.24
1209 11462 1.490490 TGTTGAGAGTGCCTTTGGAGT 59.510 47.619 0.00 0.00 0.00 3.85
1237 11490 9.092876 CTGAAGAACATGTTTAAGATCCTAGAC 57.907 37.037 13.36 0.00 0.00 2.59
1265 11518 2.176798 TCATTCCACACTTTCCCCACTT 59.823 45.455 0.00 0.00 0.00 3.16
1266 11519 2.838637 TTCCACACTTTCCCCACTTT 57.161 45.000 0.00 0.00 0.00 2.66
1277 11530 4.456662 TTCCCCACTTTGGTTAAGCTTA 57.543 40.909 0.86 0.86 37.37 3.09
1403 11658 2.036958 TGGTATGGAGGCATTTGACG 57.963 50.000 0.00 0.00 0.00 4.35
1422 11677 2.005451 CGATGAAGCCTGGAAGAACAG 58.995 52.381 0.00 0.00 34.07 3.16
1441 11696 0.038166 GAAGGATGGAGTGGGCACAA 59.962 55.000 0.00 0.00 0.00 3.33
1474 11729 7.092444 TGGGATAACAGATGTTAGACAAGGATT 60.092 37.037 10.85 0.00 42.94 3.01
1483 11774 7.609532 AGATGTTAGACAAGGATTTGAAGAAGG 59.390 37.037 0.00 0.00 37.73 3.46
1501 11817 1.083242 GGAGAAGAGCAAGAGCAGCG 61.083 60.000 0.00 0.00 45.49 5.18
1530 11876 1.002379 AGGAAGAAGCAGCAGCAGG 60.002 57.895 3.17 0.00 45.49 4.85
1600 11949 6.156949 AGGAAGATGGACTTGCATCTAGTTAA 59.843 38.462 13.02 0.00 46.89 2.01
1661 12018 8.668510 ACTCTTAATACTGCCATTTGATAGTG 57.331 34.615 0.00 0.00 0.00 2.74
1699 12067 9.139174 CCATAATTTGTTTATCAAACTGGTCAC 57.861 33.333 3.68 0.00 46.77 3.67
1935 12309 4.236527 AGGAATACCAAATGGAGTCCAC 57.763 45.455 15.86 0.00 35.79 4.02
2047 12422 2.037367 TGGAGGGCACGCTCTACT 59.963 61.111 13.59 0.00 0.00 2.57
2048 12423 2.351244 TGGAGGGCACGCTCTACTG 61.351 63.158 13.59 0.00 0.00 2.74
2055 12431 2.283966 ACGCTCTACTGCCTGGGT 60.284 61.111 0.00 0.00 0.00 4.51
2204 12582 3.941483 CCTTTGTAGCCACGAGAAATCAT 59.059 43.478 0.00 0.00 0.00 2.45
2296 12674 1.521450 GCCATCATCGCCATGAAGGG 61.521 60.000 15.89 12.76 44.85 3.95
2364 12744 2.203549 GAGGAAGCACAAGGGGGAGG 62.204 65.000 0.00 0.00 0.00 4.30
2392 12772 3.137459 CTCTCTCTCGGTGGCGCT 61.137 66.667 7.64 0.00 0.00 5.92
2438 12818 2.158959 CCGCGGTGATCGTCTTCAC 61.159 63.158 19.50 7.17 44.27 3.18
2447 12827 3.745975 GTGATCGTCTTCACCAACATCAA 59.254 43.478 5.10 0.00 40.11 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 8.351461 TGTTTAAGTCGGTTGTTATTTTTAGGG 58.649 33.333 0.00 0.00 0.00 3.53
80 10318 0.737219 GAGGCACATCAAGATGGCAC 59.263 55.000 14.04 8.68 43.55 5.01
92 10330 1.541310 CCTACAGAACGGGAGGCACA 61.541 60.000 0.00 0.00 0.00 4.57
114 10352 3.611025 TGAAAGAAGTTGGATGGGGTT 57.389 42.857 0.00 0.00 0.00 4.11
152 10390 2.951642 CTCCTTGCCAAAGAAGTTGTGA 59.048 45.455 0.00 0.00 35.19 3.58
229 10467 7.946219 AGTATATTTGCTGATTCATTGGGATCA 59.054 33.333 0.00 4.38 0.00 2.92
272 10510 5.443185 ACATATGCATGCAAGGTGTTATC 57.557 39.130 26.68 0.00 35.39 1.75
273 10511 5.857471 AACATATGCATGCAAGGTGTTAT 57.143 34.783 30.61 19.65 35.39 1.89
415 10656 4.884668 TCGGCCTAAAGAATACTATGGG 57.115 45.455 0.00 0.00 0.00 4.00
531 10773 3.456277 ACCTATGAACATGGAGGAACCTC 59.544 47.826 11.97 11.97 42.04 3.85
532 10774 3.464828 ACCTATGAACATGGAGGAACCT 58.535 45.455 9.69 0.00 39.86 3.50
533 10775 3.933861 ACCTATGAACATGGAGGAACC 57.066 47.619 9.69 0.00 39.54 3.62
534 10776 5.823045 CCTAAACCTATGAACATGGAGGAAC 59.177 44.000 9.69 0.00 33.04 3.62
535 10777 5.104109 CCCTAAACCTATGAACATGGAGGAA 60.104 44.000 9.69 0.00 33.04 3.36
536 10778 4.412199 CCCTAAACCTATGAACATGGAGGA 59.588 45.833 9.69 0.00 33.04 3.71
537 10779 4.166144 ACCCTAAACCTATGAACATGGAGG 59.834 45.833 0.00 1.62 35.05 4.30
538 10780 5.373812 ACCCTAAACCTATGAACATGGAG 57.626 43.478 0.00 0.00 0.00 3.86
539 10781 5.789574 AACCCTAAACCTATGAACATGGA 57.210 39.130 0.00 0.00 0.00 3.41
540 10782 8.215050 TGTATAACCCTAAACCTATGAACATGG 58.785 37.037 0.00 0.00 0.00 3.66
541 10783 9.052759 GTGTATAACCCTAAACCTATGAACATG 57.947 37.037 0.00 0.00 0.00 3.21
542 10784 8.774183 TGTGTATAACCCTAAACCTATGAACAT 58.226 33.333 0.00 0.00 0.00 2.71
543 10785 8.148437 TGTGTATAACCCTAAACCTATGAACA 57.852 34.615 0.00 0.00 0.00 3.18
544 10786 8.886719 GTTGTGTATAACCCTAAACCTATGAAC 58.113 37.037 0.00 0.00 0.00 3.18
545 10787 8.604184 TGTTGTGTATAACCCTAAACCTATGAA 58.396 33.333 0.00 0.00 0.00 2.57
546 10788 8.042515 GTGTTGTGTATAACCCTAAACCTATGA 58.957 37.037 0.00 0.00 0.00 2.15
549 10791 6.014669 ACGTGTTGTGTATAACCCTAAACCTA 60.015 38.462 0.00 0.00 0.00 3.08
648 10890 2.679639 GCCGGTTGGTGACTTGATCATA 60.680 50.000 1.90 0.00 40.28 2.15
680 10922 4.416516 TCTTGGACTAGTGTGGATCTTGA 58.583 43.478 0.00 0.00 0.00 3.02
687 10929 2.303022 ACACCATCTTGGACTAGTGTGG 59.697 50.000 0.00 1.48 40.96 4.17
707 10949 5.185249 TCAGTACTCACCTTGAAGTATGGAC 59.815 44.000 0.00 0.00 0.00 4.02
789 11035 3.173953 TCCTGGAATGGCAAATGAAGT 57.826 42.857 0.00 0.00 0.00 3.01
842 11088 1.748493 GTGACCTCAACACTTTGGCAA 59.252 47.619 0.00 0.00 35.66 4.52
853 11099 8.753133 CCTATATGCTATAGATTGTGACCTCAA 58.247 37.037 3.21 0.00 0.00 3.02
914 11161 0.999406 CGGATCGAAATCAACAGCGT 59.001 50.000 0.00 0.00 33.21 5.07
915 11162 1.277326 TCGGATCGAAATCAACAGCG 58.723 50.000 0.00 0.00 33.21 5.18
1092 11344 7.054124 TCATTCATATGGTACCTGGTTTTCTC 58.946 38.462 14.36 0.00 32.40 2.87
1093 11345 6.969043 TCATTCATATGGTACCTGGTTTTCT 58.031 36.000 14.36 0.00 32.40 2.52
1174 11427 5.184287 ACTCTCAACAGTAACTCTAAGGCTC 59.816 44.000 0.00 0.00 0.00 4.70
1198 11451 3.576078 TTCTTCAGAACTCCAAAGGCA 57.424 42.857 0.00 0.00 0.00 4.75
1209 11462 9.658799 CTAGGATCTTAAACATGTTCTTCAGAA 57.341 33.333 12.39 0.00 0.00 3.02
1237 11490 3.503748 GGAAAGTGTGGAATGACTTCTGG 59.496 47.826 0.00 0.00 31.02 3.86
1305 11558 1.076559 CAGCCCCATTGCAGGATCA 60.077 57.895 0.00 0.00 0.00 2.92
1403 11658 3.340814 TCTGTTCTTCCAGGCTTCATC 57.659 47.619 0.00 0.00 33.14 2.92
1422 11677 0.038166 TTGTGCCCACTCCATCCTTC 59.962 55.000 0.00 0.00 0.00 3.46
1441 11696 4.240881 ACATCTGTTATCCCACATTGCT 57.759 40.909 0.00 0.00 0.00 3.91
1474 11729 4.802248 GCTCTTGCTCTTCTCCTTCTTCAA 60.802 45.833 0.00 0.00 36.03 2.69
1483 11774 1.083242 CCGCTGCTCTTGCTCTTCTC 61.083 60.000 0.00 0.00 40.48 2.87
1501 11817 4.252878 CTGCTTCTTCCTCTTCTTCTTCC 58.747 47.826 0.00 0.00 0.00 3.46
1530 11876 6.184789 TCTTCCTCTTCCTCTTACTCTTCTC 58.815 44.000 0.00 0.00 0.00 2.87
1600 11949 5.832539 AGGGGAAAGTTCATCATCGATAT 57.167 39.130 0.00 0.00 0.00 1.63
1686 12043 3.126001 ACACGATGTGACCAGTTTGAT 57.874 42.857 3.61 0.00 36.96 2.57
1687 12044 2.613026 ACACGATGTGACCAGTTTGA 57.387 45.000 3.61 0.00 36.96 2.69
1699 12067 2.930040 GGTGATCTTACCACACACGATG 59.070 50.000 0.00 0.00 40.54 3.84
1935 12309 2.467305 CGTCAAAAATTGGCACGTCAAG 59.533 45.455 0.00 0.00 34.15 3.02
2038 12412 2.283966 ACCCAGGCAGTAGAGCGT 60.284 61.111 0.00 0.00 34.64 5.07
2042 12416 4.082523 GCGCACCCAGGCAGTAGA 62.083 66.667 0.30 0.00 0.00 2.59
2108 12486 0.806241 TAGGAATTTTTGGCGTCGGC 59.194 50.000 12.58 12.58 38.90 5.54
2142 12520 6.210984 ACTTACGATCTAGGTTTCTTTCTGGT 59.789 38.462 0.00 0.00 0.00 4.00
2239 12617 1.744320 CGTGGCCTCCGGTGATGATA 61.744 60.000 3.32 0.00 0.00 2.15
2257 12635 2.598985 CTCCGGGATCCTCCTCCG 60.599 72.222 12.58 6.02 43.05 4.63
2296 12674 0.035915 GTTCTCCCTCTGGTCCTTGC 60.036 60.000 0.00 0.00 0.00 4.01
2364 12744 1.202651 CGAGAGAGAGGAGGAGAGGTC 60.203 61.905 0.00 0.00 0.00 3.85
2438 12818 4.399934 TGGTGATGATGATGTTGATGTTGG 59.600 41.667 0.00 0.00 0.00 3.77



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

AutoCloner maintained by Alex Coulton.