Multiple sequence alignment - TraesCS2D01G320700

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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 TraesCS2D01G320700 chr2D 100.000 4515 0 0 1 4515 411952391 411956905 0.000000e+00 8338.0
1 TraesCS2D01G320700 chr2D 96.446 1829 43 4 1417 3229 411726638 411728460 0.000000e+00 2998.0
2 TraesCS2D01G320700 chr2D 94.223 1506 45 6 1735 3240 411344499 411345962 0.000000e+00 2261.0
3 TraesCS2D01G320700 chr2D 94.000 1150 35 7 3 1127 411262186 411263326 0.000000e+00 1711.0
4 TraesCS2D01G320700 chr2D 94.872 858 44 0 1588 2445 411678323 411679180 0.000000e+00 1341.0
5 TraesCS2D01G320700 chr2D 95.140 823 17 6 2441 3259 411688627 411689430 0.000000e+00 1277.0
6 TraesCS2D01G320700 chr2D 83.815 1316 170 20 1795 3097 561323450 561322165 0.000000e+00 1210.0
7 TraesCS2D01G320700 chr2D 93.396 530 19 4 1224 1737 411342713 411343242 0.000000e+00 771.0
8 TraesCS2D01G320700 chr2D 79.605 304 25 8 1309 1591 411614385 411614672 2.770000e-42 183.0
9 TraesCS2D01G320700 chr2D 87.218 133 8 2 3348 3472 411728698 411728829 4.710000e-30 143.0
10 TraesCS2D01G320700 chr2B 93.584 1995 51 30 1286 3259 485432666 485434604 0.000000e+00 2904.0
11 TraesCS2D01G320700 chr2B 94.198 1603 40 18 1304 2889 485299468 485301034 0.000000e+00 2396.0
12 TraesCS2D01G320700 chr2B 84.197 1506 194 27 1611 3097 670340856 670342336 0.000000e+00 1423.0
13 TraesCS2D01G320700 chr2B 93.166 717 37 6 3585 4299 485306759 485307465 0.000000e+00 1042.0
14 TraesCS2D01G320700 chr2B 83.676 925 116 18 2192 3097 670445784 670446692 0.000000e+00 839.0
15 TraesCS2D01G320700 chr2B 91.449 573 17 15 2932 3496 485301035 485301583 0.000000e+00 758.0
16 TraesCS2D01G320700 chr2B 88.870 593 38 7 7 571 485298330 485298922 0.000000e+00 704.0
17 TraesCS2D01G320700 chr2B 86.607 448 30 14 555 994 485378762 485379187 6.840000e-128 468.0
18 TraesCS2D01G320700 chr2B 97.778 225 4 1 4292 4515 485307571 485307795 1.970000e-103 387.0
19 TraesCS2D01G320700 chr2B 93.636 110 5 2 3901 4010 485442098 485442205 3.610000e-36 163.0
20 TraesCS2D01G320700 chr2B 88.971 136 6 2 3344 3471 485435226 485435360 4.670000e-35 159.0
21 TraesCS2D01G320700 chr2A 94.662 1817 54 18 1417 3212 579440079 579441873 0.000000e+00 2778.0
22 TraesCS2D01G320700 chr2A 84.569 1497 194 24 1607 3089 701018956 701017483 0.000000e+00 1450.0
23 TraesCS2D01G320700 chr2A 85.935 647 42 15 3348 3958 579441913 579442546 0.000000e+00 645.0
24 TraesCS2D01G320700 chr2A 90.087 343 14 4 3958 4299 579443432 579443755 1.160000e-115 427.0
25 TraesCS2D01G320700 chr2A 91.630 227 7 2 4290 4515 579443858 579444073 2.040000e-78 303.0
26 TraesCS2D01G320700 chrUn 84.502 1497 195 24 1607 3089 210396992 210395519 0.000000e+00 1445.0
27 TraesCS2D01G320700 chr1D 95.556 45 2 0 3768 3812 128528658 128528614 6.270000e-09 73.1
28 TraesCS2D01G320700 chr7B 95.122 41 2 0 3768 3808 633676794 633676834 1.050000e-06 65.8
29 TraesCS2D01G320700 chr7B 95.122 41 2 0 3768 3808 680283075 680283115 1.050000e-06 65.8
30 TraesCS2D01G320700 chr7A 95.122 41 2 0 3768 3808 663949602 663949562 1.050000e-06 65.8
31 TraesCS2D01G320700 chr3A 97.368 38 1 0 3768 3805 510002304 510002341 1.050000e-06 65.8
32 TraesCS2D01G320700 chr1B 95.122 41 2 0 3767 3807 158659183 158659223 1.050000e-06 65.8
33 TraesCS2D01G320700 chr1B 95.122 41 2 0 3768 3808 448744814 448744774 1.050000e-06 65.8


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 TraesCS2D01G320700 chr2D 411952391 411956905 4514 False 8338.00 8338 100.000000 1 4515 1 chr2D.!!$F5 4514
1 TraesCS2D01G320700 chr2D 411262186 411263326 1140 False 1711.00 1711 94.000000 3 1127 1 chr2D.!!$F1 1124
2 TraesCS2D01G320700 chr2D 411726638 411728829 2191 False 1570.50 2998 91.832000 1417 3472 2 chr2D.!!$F7 2055
3 TraesCS2D01G320700 chr2D 411342713 411345962 3249 False 1516.00 2261 93.809500 1224 3240 2 chr2D.!!$F6 2016
4 TraesCS2D01G320700 chr2D 411678323 411679180 857 False 1341.00 1341 94.872000 1588 2445 1 chr2D.!!$F3 857
5 TraesCS2D01G320700 chr2D 411688627 411689430 803 False 1277.00 1277 95.140000 2441 3259 1 chr2D.!!$F4 818
6 TraesCS2D01G320700 chr2D 561322165 561323450 1285 True 1210.00 1210 83.815000 1795 3097 1 chr2D.!!$R1 1302
7 TraesCS2D01G320700 chr2B 485432666 485435360 2694 False 1531.50 2904 91.277500 1286 3471 2 chr2B.!!$F7 2185
8 TraesCS2D01G320700 chr2B 670340856 670342336 1480 False 1423.00 1423 84.197000 1611 3097 1 chr2B.!!$F3 1486
9 TraesCS2D01G320700 chr2B 485298330 485301583 3253 False 1286.00 2396 91.505667 7 3496 3 chr2B.!!$F5 3489
10 TraesCS2D01G320700 chr2B 670445784 670446692 908 False 839.00 839 83.676000 2192 3097 1 chr2B.!!$F4 905
11 TraesCS2D01G320700 chr2B 485306759 485307795 1036 False 714.50 1042 95.472000 3585 4515 2 chr2B.!!$F6 930
12 TraesCS2D01G320700 chr2A 701017483 701018956 1473 True 1450.00 1450 84.569000 1607 3089 1 chr2A.!!$R1 1482
13 TraesCS2D01G320700 chr2A 579440079 579444073 3994 False 1038.25 2778 90.578500 1417 4515 4 chr2A.!!$F1 3098
14 TraesCS2D01G320700 chrUn 210395519 210396992 1473 True 1445.00 1445 84.502000 1607 3089 1 chrUn.!!$R1 1482

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
302 328 0.779997 ACCTCCATTGGGTTTGAGCT 59.220 50.000 2.09 0.00 32.46 4.09 F
1330 1558 0.108520 CACAAATCCATGTGGCTGCC 60.109 55.000 12.87 12.87 45.47 4.85 F
1463 1691 0.727122 GACTGCAATGAACGCTGCAC 60.727 55.000 0.00 0.00 43.44 4.57 F
2573 4088 1.302511 ACCCTGCGAACCATGACAC 60.303 57.895 0.00 0.00 0.00 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1415 1643 0.249953 TTCCGGCAACAGCTCGTTTA 60.250 50.000 0.0 0.0 34.86 2.01 R
3315 5440 1.882167 GATCGCTGTCTCTGCCTGC 60.882 63.158 0.0 0.0 0.00 4.85 R
3328 5453 4.636206 AGAGTAATTTCCCAGTTTGATCGC 59.364 41.667 0.0 0.0 0.00 4.58 R
3530 5675 1.211949 ACGGGCTTACATTACATGGCT 59.788 47.619 0.0 0.0 33.60 4.75 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
228 244 6.211384 ACTTGATGGGTTGAAAAAGGGAATAG 59.789 38.462 0.00 0.00 0.00 1.73
263 279 3.480470 ACCAACCAATGTGTTCAGAGAG 58.520 45.455 0.00 0.00 0.00 3.20
273 289 3.324846 TGTGTTCAGAGAGCTACAATGGT 59.675 43.478 0.00 0.00 0.00 3.55
302 328 0.779997 ACCTCCATTGGGTTTGAGCT 59.220 50.000 2.09 0.00 32.46 4.09
360 388 5.469373 TGTTCTGAGTATTGCTTTATGCG 57.531 39.130 0.00 0.00 46.63 4.73
378 407 2.554893 TGCGAATAAACCAAACTCCACC 59.445 45.455 0.00 0.00 0.00 4.61
462 491 9.507280 CAATACATGTTTTAGGTGATTCATGAC 57.493 33.333 2.30 0.00 36.95 3.06
481 510 5.733620 TGACGAGTAAGGAAAATGTAGGT 57.266 39.130 0.00 0.00 0.00 3.08
487 516 4.949856 AGTAAGGAAAATGTAGGTGCATGG 59.050 41.667 0.00 0.00 0.00 3.66
495 524 2.388735 TGTAGGTGCATGGGTCTCTAG 58.611 52.381 0.00 0.00 0.00 2.43
699 728 3.062099 CGAGTTTGGTCATTACATCGTGG 59.938 47.826 0.00 0.00 0.00 4.94
702 731 3.973206 TTGGTCATTACATCGTGGAGT 57.027 42.857 0.00 0.00 0.00 3.85
796 825 2.596346 TGCCAAGCAAAATGAAGGAGA 58.404 42.857 0.00 0.00 34.76 3.71
797 826 2.964464 TGCCAAGCAAAATGAAGGAGAA 59.036 40.909 0.00 0.00 34.76 2.87
798 827 3.387374 TGCCAAGCAAAATGAAGGAGAAA 59.613 39.130 0.00 0.00 34.76 2.52
799 828 4.040706 TGCCAAGCAAAATGAAGGAGAAAT 59.959 37.500 0.00 0.00 34.76 2.17
800 829 4.390909 GCCAAGCAAAATGAAGGAGAAATG 59.609 41.667 0.00 0.00 0.00 2.32
801 830 5.786311 CCAAGCAAAATGAAGGAGAAATGA 58.214 37.500 0.00 0.00 0.00 2.57
802 831 5.867716 CCAAGCAAAATGAAGGAGAAATGAG 59.132 40.000 0.00 0.00 0.00 2.90
803 832 6.453092 CAAGCAAAATGAAGGAGAAATGAGT 58.547 36.000 0.00 0.00 0.00 3.41
804 833 7.309377 CCAAGCAAAATGAAGGAGAAATGAGTA 60.309 37.037 0.00 0.00 0.00 2.59
814 843 7.387948 TGAAGGAGAAATGAGTACTAAAGCAAC 59.612 37.037 0.00 0.00 0.00 4.17
1140 1204 6.524734 ACAGTGAATCTGATGTTGTCTACAA 58.475 36.000 0.00 0.00 46.27 2.41
1141 1205 6.648310 ACAGTGAATCTGATGTTGTCTACAAG 59.352 38.462 0.00 0.00 46.27 3.16
1146 1210 8.902806 TGAATCTGATGTTGTCTACAAGTTTTT 58.097 29.630 0.00 0.00 40.89 1.94
1147 1211 9.387123 GAATCTGATGTTGTCTACAAGTTTTTC 57.613 33.333 0.00 0.00 40.89 2.29
1148 1212 7.857734 TCTGATGTTGTCTACAAGTTTTTCA 57.142 32.000 0.00 0.00 40.89 2.69
1152 1216 8.849168 TGATGTTGTCTACAAGTTTTTCATCAT 58.151 29.630 15.15 5.48 40.89 2.45
1169 1233 8.579850 TTTCATCATAGGTAAAAAGATGCACT 57.420 30.769 0.00 0.00 36.81 4.40
1171 1235 8.662781 TCATCATAGGTAAAAAGATGCACTAC 57.337 34.615 0.00 0.00 36.81 2.73
1173 1237 8.554528 CATCATAGGTAAAAAGATGCACTACTG 58.445 37.037 0.00 0.00 30.96 2.74
1181 1245 7.755582 AAAAAGATGCACTACTGTTTTGTTC 57.244 32.000 0.00 0.00 0.00 3.18
1185 1249 7.100458 AGATGCACTACTGTTTTGTTCTTTT 57.900 32.000 0.00 0.00 0.00 2.27
1186 1250 8.220755 AGATGCACTACTGTTTTGTTCTTTTA 57.779 30.769 0.00 0.00 0.00 1.52
1187 1251 8.129211 AGATGCACTACTGTTTTGTTCTTTTAC 58.871 33.333 0.00 0.00 0.00 2.01
1188 1252 6.252281 TGCACTACTGTTTTGTTCTTTTACG 58.748 36.000 0.00 0.00 0.00 3.18
1190 1254 6.744082 GCACTACTGTTTTGTTCTTTTACGTT 59.256 34.615 0.00 0.00 0.00 3.99
1191 1255 7.253190 GCACTACTGTTTTGTTCTTTTACGTTG 60.253 37.037 0.00 0.00 0.00 4.10
1192 1256 7.747357 CACTACTGTTTTGTTCTTTTACGTTGT 59.253 33.333 0.00 0.00 0.00 3.32
1193 1257 8.934825 ACTACTGTTTTGTTCTTTTACGTTGTA 58.065 29.630 0.00 0.00 0.00 2.41
1194 1258 9.757859 CTACTGTTTTGTTCTTTTACGTTGTAA 57.242 29.630 0.00 0.00 0.00 2.41
1197 1261 9.879973 CTGTTTTGTTCTTTTACGTTGTAAATG 57.120 29.630 0.00 6.10 39.23 2.32
1203 1431 6.712179 TCTTTTACGTTGTAAATGGGGTTT 57.288 33.333 0.00 0.00 37.08 3.27
1290 1518 9.781633 TCATTCATTTCATTTCACAAATCCTTT 57.218 25.926 0.00 0.00 0.00 3.11
1330 1558 0.108520 CACAAATCCATGTGGCTGCC 60.109 55.000 12.87 12.87 45.47 4.85
1374 1602 2.324541 TCCAAACCCCACCAAATCAAG 58.675 47.619 0.00 0.00 0.00 3.02
1415 1643 6.642707 TTTCGTTTCATTCCTACCAAATGT 57.357 33.333 0.00 0.00 35.92 2.71
1452 1680 2.423538 GGAAACGGCTTATGACTGCAAT 59.576 45.455 0.00 0.00 0.00 3.56
1463 1691 0.727122 GACTGCAATGAACGCTGCAC 60.727 55.000 0.00 0.00 43.44 4.57
1592 1826 5.062183 TCAAGTCGATTGATTTAGTTCTGCG 59.938 40.000 6.28 0.00 43.09 5.18
2146 3661 3.706373 ACCGTCCGCAGCCTCAAT 61.706 61.111 0.00 0.00 0.00 2.57
2573 4088 1.302511 ACCCTGCGAACCATGACAC 60.303 57.895 0.00 0.00 0.00 3.67
3315 5440 4.338118 TGAACAAGGGAAAACAGCTACAAG 59.662 41.667 0.00 0.00 0.00 3.16
3328 5453 2.006056 GCTACAAGCAGGCAGAGACAG 61.006 57.143 0.00 0.00 41.89 3.51
3449 5594 6.015519 TGAGATCCGAACAATTGTTTTCCAAT 60.016 34.615 24.02 13.43 45.81 3.16
3455 5600 6.477033 CCGAACAATTGTTTTCCAATGTGTAA 59.523 34.615 24.02 0.00 43.04 2.41
3519 5664 8.970020 TGTAACCAGGATACGAAGAGTAATAAA 58.030 33.333 0.00 0.00 46.39 1.40
3524 5669 8.979574 CCAGGATACGAAGAGTAATAAATTGTC 58.020 37.037 0.00 0.00 46.39 3.18
3549 5694 1.967319 AGCCATGTAATGTAAGCCCG 58.033 50.000 0.00 0.00 44.81 6.13
3560 5705 2.577700 TGTAAGCCCGTGTTGAAATGT 58.422 42.857 0.00 0.00 0.00 2.71
3563 5708 2.507339 AGCCCGTGTTGAAATGTTTG 57.493 45.000 0.00 0.00 0.00 2.93
3569 5714 4.439426 CCCGTGTTGAAATGTTTGTTCTCA 60.439 41.667 0.00 0.00 0.00 3.27
3576 5721 6.808008 TGAAATGTTTGTTCTCATCTCTCC 57.192 37.500 0.00 0.00 0.00 3.71
3577 5722 6.537355 TGAAATGTTTGTTCTCATCTCTCCT 58.463 36.000 0.00 0.00 0.00 3.69
3625 5774 5.278266 GGTGGTTCAGAATCGATGTTTGAAA 60.278 40.000 16.39 4.85 30.43 2.69
3626 5775 6.381801 GTGGTTCAGAATCGATGTTTGAAAT 58.618 36.000 16.39 0.00 30.43 2.17
3627 5776 6.863126 GTGGTTCAGAATCGATGTTTGAAATT 59.137 34.615 16.39 0.00 30.43 1.82
3628 5777 7.382218 GTGGTTCAGAATCGATGTTTGAAATTT 59.618 33.333 16.39 0.00 30.43 1.82
3692 5865 8.937634 AATGAATTAAATCAGAGGACAAATGC 57.062 30.769 0.00 0.00 31.76 3.56
3759 5932 6.641723 ACGAACTCTACTTCTCAAAAGCTTAC 59.358 38.462 0.00 0.00 0.00 2.34
3794 5967 7.910304 ACATCTATTTGAGCGACAAGTAATTC 58.090 34.615 0.00 0.00 39.77 2.17
3800 5973 1.274167 AGCGACAAGTAATTCCGGACA 59.726 47.619 1.83 0.00 0.00 4.02
3808 5981 1.120530 TAATTCCGGACAGAGGGAGC 58.879 55.000 1.83 0.00 33.01 4.70
3944 6117 4.254492 GAGGGAAACAAGTATGACAGGAC 58.746 47.826 0.00 0.00 0.00 3.85
3991 7050 5.417580 ACAACAAATATGGCCGTAAATCACT 59.582 36.000 9.20 0.00 0.00 3.41
4005 7064 6.479001 CCGTAAATCACTAAGTACCCAATGAG 59.521 42.308 0.00 0.00 0.00 2.90
4041 7101 5.864474 ACTTGTCGTTAATCAGAGATGACAC 59.136 40.000 6.00 0.00 38.60 3.67
4105 7165 8.731605 TCGTGGTAGCATTTCAATGTTTTTATA 58.268 29.630 0.00 0.00 38.65 0.98
4254 7315 8.993121 AGATAAAAGCCGTAATTCATACATGAG 58.007 33.333 0.00 0.00 38.19 2.90
4397 7570 1.222936 CCCTCCCTGTGCATCTCAC 59.777 63.158 0.00 0.00 45.82 3.51
4489 7663 6.693466 TCTAACTTACGAATTCATCACCACA 58.307 36.000 6.22 0.00 0.00 4.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 4.881019 ATGCTAGTCATAGTGGGTCATC 57.119 45.455 0.00 0.00 32.59 2.92
69 70 4.573201 CGAAACCTTTCAGAAGTTGTACCA 59.427 41.667 0.00 0.00 37.01 3.25
228 244 1.605753 GTTGGTTCTGGTGAAGGTCC 58.394 55.000 0.00 0.00 32.15 4.46
263 279 3.522553 GTCCTAGACACACCATTGTAGC 58.477 50.000 0.00 0.00 33.30 3.58
273 289 2.187958 CCAATGGAGGTCCTAGACACA 58.812 52.381 0.00 0.00 36.82 3.72
302 328 4.023980 CAGTAGAGGTCCTGGACACATTA 58.976 47.826 26.94 11.36 33.68 1.90
360 388 4.703575 GGGTAGGTGGAGTTTGGTTTATTC 59.296 45.833 0.00 0.00 0.00 1.75
378 407 3.449737 TCCTACATGAAGTTTCGGGGTAG 59.550 47.826 0.00 0.00 32.37 3.18
462 491 4.250464 TGCACCTACATTTTCCTTACTCG 58.750 43.478 0.00 0.00 0.00 4.18
481 510 1.103803 GTCGACTAGAGACCCATGCA 58.896 55.000 8.70 0.00 32.78 3.96
487 516 4.506758 AGAAGTAGTGTCGACTAGAGACC 58.493 47.826 17.92 1.77 43.50 3.85
495 524 8.462143 TCAAATAAATGAGAAGTAGTGTCGAC 57.538 34.615 9.11 9.11 0.00 4.20
617 646 5.278169 CCTGGATCAATTTGCTAGCATACAC 60.278 44.000 20.13 6.71 0.00 2.90
699 728 6.233434 TGGCAACTTATCATATGGATCACTC 58.767 40.000 2.13 0.00 35.74 3.51
702 731 8.481492 AAATTGGCAACTTATCATATGGATCA 57.519 30.769 0.00 0.00 35.74 2.92
796 825 8.621532 TGATTGAGTTGCTTTAGTACTCATTT 57.378 30.769 0.00 7.91 45.38 2.32
797 826 8.621532 TTGATTGAGTTGCTTTAGTACTCATT 57.378 30.769 0.00 11.40 45.38 2.57
798 827 8.671921 CATTGATTGAGTTGCTTTAGTACTCAT 58.328 33.333 0.00 7.57 45.38 2.90
799 828 7.877612 TCATTGATTGAGTTGCTTTAGTACTCA 59.122 33.333 0.00 10.67 44.66 3.41
800 829 8.256611 TCATTGATTGAGTTGCTTTAGTACTC 57.743 34.615 0.00 0.00 38.96 2.59
801 830 8.621532 TTCATTGATTGAGTTGCTTTAGTACT 57.378 30.769 0.00 0.00 35.27 2.73
814 843 7.273320 AGGCAAGACATATTCATTGATTGAG 57.727 36.000 0.00 0.00 35.27 3.02
1140 1204 9.860898 GCATCTTTTTACCTATGATGAAAAACT 57.139 29.630 0.00 0.00 37.33 2.66
1141 1205 9.638239 TGCATCTTTTTACCTATGATGAAAAAC 57.362 29.630 0.00 0.00 37.33 2.43
1146 1210 8.486210 AGTAGTGCATCTTTTTACCTATGATGA 58.514 33.333 0.00 0.00 37.33 2.92
1147 1211 8.554528 CAGTAGTGCATCTTTTTACCTATGATG 58.445 37.037 0.00 0.00 37.96 3.07
1148 1212 8.267894 ACAGTAGTGCATCTTTTTACCTATGAT 58.732 33.333 0.00 0.00 0.00 2.45
1152 1216 8.564574 CAAAACAGTAGTGCATCTTTTTACCTA 58.435 33.333 0.00 0.00 0.00 3.08
1161 1225 6.699575 AAAGAACAAAACAGTAGTGCATCT 57.300 33.333 0.00 0.00 0.00 2.90
1162 1226 7.111593 CGTAAAAGAACAAAACAGTAGTGCATC 59.888 37.037 0.00 0.00 0.00 3.91
1171 1235 9.879973 CATTTACAACGTAAAAGAACAAAACAG 57.120 29.630 3.63 0.00 0.00 3.16
1173 1237 8.322428 CCCATTTACAACGTAAAAGAACAAAAC 58.678 33.333 3.63 0.00 0.00 2.43
1181 1245 7.773864 AAAAACCCCATTTACAACGTAAAAG 57.226 32.000 3.63 0.02 0.00 2.27
1203 1431 4.141287 CAACACACCCCATCTCTACAAAA 58.859 43.478 0.00 0.00 0.00 2.44
1290 1518 5.357314 TGTGAAACGAAACCCTATTTTGTGA 59.643 36.000 0.00 0.00 42.39 3.58
1330 1558 7.702348 GGATTCCAAATCTAATTTCCTCGTTTG 59.298 37.037 0.00 0.00 0.00 2.93
1415 1643 0.249953 TTCCGGCAACAGCTCGTTTA 60.250 50.000 0.00 0.00 34.86 2.01
1443 1671 1.165284 TGCAGCGTTCATTGCAGTCA 61.165 50.000 0.00 0.00 44.72 3.41
1463 1691 1.191647 AGTAAAAGAAACGCGTGCGAG 59.808 47.619 22.32 5.09 42.83 5.03
1592 1826 1.372872 GGGACGCCATTGTTTGTGC 60.373 57.895 0.00 0.00 0.00 4.57
3315 5440 1.882167 GATCGCTGTCTCTGCCTGC 60.882 63.158 0.00 0.00 0.00 4.85
3328 5453 4.636206 AGAGTAATTTCCCAGTTTGATCGC 59.364 41.667 0.00 0.00 0.00 4.58
3414 5559 4.744570 TGTTCGGATCTCAGTTACATCAC 58.255 43.478 0.00 0.00 0.00 3.06
3530 5675 1.211949 ACGGGCTTACATTACATGGCT 59.788 47.619 0.00 0.00 33.60 4.75
3531 5676 1.333619 CACGGGCTTACATTACATGGC 59.666 52.381 0.00 0.00 33.60 4.40
3532 5677 2.639065 ACACGGGCTTACATTACATGG 58.361 47.619 0.00 0.00 33.60 3.66
3538 5683 3.572255 ACATTTCAACACGGGCTTACATT 59.428 39.130 0.00 0.00 0.00 2.71
3549 5694 7.420800 AGAGATGAGAACAAACATTTCAACAC 58.579 34.615 0.00 0.00 32.49 3.32
3560 5705 6.425210 TTCAAGAGGAGAGATGAGAACAAA 57.575 37.500 0.00 0.00 0.00 2.83
3576 5721 7.649306 CCAAAATTAACACAACTCCTTCAAGAG 59.351 37.037 0.00 0.00 39.91 2.85
3577 5722 7.123547 ACCAAAATTAACACAACTCCTTCAAGA 59.876 33.333 0.00 0.00 0.00 3.02
3588 5737 6.531503 TCTGAACCACCAAAATTAACACAA 57.468 33.333 0.00 0.00 0.00 3.33
3759 5932 7.751348 GTCGCTCAAATAGATGTATAGGTAGTG 59.249 40.741 0.00 0.00 0.00 2.74
3794 5967 2.286523 AACTGCTCCCTCTGTCCGG 61.287 63.158 0.00 0.00 0.00 5.14
3800 5973 1.346068 GTCTTGACAACTGCTCCCTCT 59.654 52.381 0.00 0.00 0.00 3.69
3859 6032 2.158696 GGATGCCACTCTCTTAATGCCT 60.159 50.000 0.00 0.00 0.00 4.75
3991 7050 4.348020 AGGAGTCCTCATTGGGTACTTA 57.652 45.455 5.62 0.00 36.20 2.24
4005 7064 3.870633 ACGACAAGTATGAAGGAGTCC 57.129 47.619 0.00 0.00 0.00 3.85
4041 7101 6.062434 TGTATTTGTTGGGTTAAAGTGTCG 57.938 37.500 0.00 0.00 0.00 4.35
4129 7189 7.503521 TTGTGTTAGTGAATGCTACATTGAA 57.496 32.000 0.00 0.00 0.00 2.69
4140 7200 5.654650 TGGTCCAAAGTTTGTGTTAGTGAAT 59.345 36.000 14.36 0.00 0.00 2.57
4143 7203 4.733523 GCTGGTCCAAAGTTTGTGTTAGTG 60.734 45.833 14.36 0.00 0.00 2.74
4397 7570 3.564225 GGGTTGTGTGTTTCTCTGTTAGG 59.436 47.826 0.00 0.00 0.00 2.69
4489 7663 3.455910 TCCTAATGCTGGCATGTAGAAGT 59.544 43.478 8.91 0.00 36.68 3.01


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

AutoCloner maintained by Alex Coulton.