Multiple sequence alignment - TraesCS4A01G301800

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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 TraesCS4A01G301800 chr4A 100.000 3919 0 0 1 3919 598606823 598610741 0.000000e+00 7238.0
1 TraesCS4A01G301800 chr4A 99.750 801 2 0 1 801 31615307 31614507 0.000000e+00 1469.0
2 TraesCS4A01G301800 chr4A 82.082 1652 192 49 903 2501 598603362 598601762 0.000000e+00 1315.0
3 TraesCS4A01G301800 chr4A 88.889 666 50 15 2620 3263 598601723 598601060 0.000000e+00 798.0
4 TraesCS4A01G301800 chr4A 87.413 143 9 4 3322 3464 598600971 598600838 5.240000e-34 156.0
5 TraesCS4A01G301800 chr4B 93.442 2089 105 22 838 2919 7761100 7763163 0.000000e+00 3070.0
6 TraesCS4A01G301800 chr4B 93.480 2086 104 22 841 2919 7897060 7895000 0.000000e+00 3070.0
7 TraesCS4A01G301800 chr4B 81.911 1570 198 40 803 2320 8366317 8367852 0.000000e+00 1247.0
8 TraesCS4A01G301800 chr4B 81.034 1566 193 47 989 2501 8117330 8118844 0.000000e+00 1151.0
9 TraesCS4A01G301800 chr4B 93.141 554 27 3 803 1349 8423110 8422561 0.000000e+00 802.0
10 TraesCS4A01G301800 chr4B 88.589 666 52 15 2620 3263 8118883 8119546 0.000000e+00 787.0
11 TraesCS4A01G301800 chr4B 88.589 666 52 15 2620 3263 8207859 8208522 0.000000e+00 787.0
12 TraesCS4A01G301800 chr4B 88.589 666 52 15 2620 3263 8419760 8419097 0.000000e+00 787.0
13 TraesCS4A01G301800 chr4B 86.250 720 74 14 1124 1820 9089498 9090215 0.000000e+00 758.0
14 TraesCS4A01G301800 chr4B 88.272 486 52 5 1818 2303 9346223 9346703 9.440000e-161 577.0
15 TraesCS4A01G301800 chr4B 82.629 639 91 13 1839 2472 8175364 8175987 7.400000e-152 547.0
16 TraesCS4A01G301800 chr4B 82.243 642 88 15 1839 2472 8293460 8294083 7.460000e-147 531.0
17 TraesCS4A01G301800 chr4B 87.179 468 48 7 2623 3080 8176020 8176485 4.490000e-144 521.0
18 TraesCS4A01G301800 chr4B 87.152 467 48 7 2624 3080 8294117 8294581 1.610000e-143 520.0
19 TraesCS4A01G301800 chr4B 92.371 367 22 1 989 1349 7897514 7897148 5.800000e-143 518.0
20 TraesCS4A01G301800 chr4B 85.934 455 53 8 1062 1514 7744693 7745138 3.540000e-130 475.0
21 TraesCS4A01G301800 chr4B 79.167 744 105 29 2700 3412 7746283 7747007 1.650000e-128 470.0
22 TraesCS4A01G301800 chr4B 78.571 560 75 24 2652 3197 8414820 8414292 1.050000e-85 327.0
23 TraesCS4A01G301800 chr4B 96.899 129 3 1 803 930 7897643 7897515 8.530000e-52 215.0
24 TraesCS4A01G301800 chr4B 97.619 126 2 1 803 927 8117201 8117326 8.530000e-52 215.0
25 TraesCS4A01G301800 chr4B 88.430 121 13 1 3291 3411 8294624 8294743 1.130000e-30 145.0
26 TraesCS4A01G301800 chr4B 85.950 121 16 1 3291 3411 8176528 8176647 1.140000e-25 128.0
27 TraesCS4A01G301800 chr4B 90.000 90 9 0 3322 3411 8119635 8119724 2.470000e-22 117.0
28 TraesCS4A01G301800 chr4B 96.296 54 2 0 3461 3514 7758229 7758282 5.390000e-14 89.8
29 TraesCS4A01G301800 chr4B 95.556 45 2 0 3421 3465 8294781 8294825 5.430000e-09 73.1
30 TraesCS4A01G301800 chr1A 99.875 799 1 0 1 799 10595778 10594980 0.000000e+00 1471.0
31 TraesCS4A01G301800 chr1A 99.374 799 5 0 1 799 44512761 44511963 0.000000e+00 1448.0
32 TraesCS4A01G301800 chr7A 99.625 800 3 0 1 800 27455340 27454541 0.000000e+00 1461.0
33 TraesCS4A01G301800 chr7A 99.499 799 4 0 1 799 570108344 570109142 0.000000e+00 1454.0
34 TraesCS4A01G301800 chr6B 99.625 800 3 0 1 800 118969510 118968711 0.000000e+00 1461.0
35 TraesCS4A01G301800 chr7B 99.625 799 3 0 1 799 245896778 245895980 0.000000e+00 1459.0
36 TraesCS4A01G301800 chr3A 99.625 799 3 0 1 799 36787118 36787916 0.000000e+00 1459.0
37 TraesCS4A01G301800 chr3A 99.625 799 3 0 1 799 154940835 154940037 0.000000e+00 1459.0
38 TraesCS4A01G301800 chr4D 89.429 1050 65 25 2620 3627 5071273 5072318 0.000000e+00 1282.0
39 TraesCS4A01G301800 chr4D 85.539 733 77 16 1111 1820 5225260 5225986 0.000000e+00 739.0
40 TraesCS4A01G301800 chr4D 83.438 640 86 13 1839 2475 5080474 5081096 9.440000e-161 577.0
41 TraesCS4A01G301800 chr4D 83.163 588 87 10 1818 2401 5228201 5228780 9.650000e-146 527.0
42 TraesCS4A01G301800 chr4D 85.376 465 58 6 1062 1524 5046093 5045637 1.270000e-129 473.0
43 TraesCS4A01G301800 chr4D 83.178 321 29 16 3090 3390 4933010 4932695 1.790000e-68 270.0
44 TraesCS4A01G301800 chr4D 88.387 155 12 2 3263 3411 5081694 5081848 8.650000e-42 182.0
45 TraesCS4A01G301800 chr4D 78.455 246 51 2 2075 2319 86313993 86314237 4.050000e-35 159.0
46 TraesCS4A01G301800 chr4D 78.367 245 53 0 2075 2319 86533054 86533298 4.050000e-35 159.0
47 TraesCS4A01G301800 chrUn 93.525 278 14 3 2990 3263 295774233 295773956 1.010000e-110 411.0
48 TraesCS4A01G301800 chr3D 73.327 1001 191 45 1026 1975 571933505 571934480 2.290000e-77 300.0
49 TraesCS4A01G301800 chr3B 75.726 379 82 7 1599 1975 746340500 746340870 8.650000e-42 182.0
50 TraesCS4A01G301800 chr3B 75.477 367 88 2 1558 1923 744903297 744903662 1.120000e-40 178.0
51 TraesCS4A01G301800 chr6D 81.928 166 24 4 1766 1931 439266 439107 6.830000e-28 135.0


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 TraesCS4A01G301800 chr4A 598606823 598610741 3918 False 7238.000000 7238 100.000000 1 3919 1 chr4A.!!$F1 3918
1 TraesCS4A01G301800 chr4A 31614507 31615307 800 True 1469.000000 1469 99.750000 1 801 1 chr4A.!!$R1 800
2 TraesCS4A01G301800 chr4A 598600838 598603362 2524 True 756.333333 1315 86.128000 903 3464 3 chr4A.!!$R2 2561
3 TraesCS4A01G301800 chr4B 7758229 7763163 4934 False 1579.900000 3070 94.869000 838 3514 2 chr4B.!!$F6 2676
4 TraesCS4A01G301800 chr4B 7895000 7897643 2643 True 1267.666667 3070 94.250000 803 2919 3 chr4B.!!$R2 2116
5 TraesCS4A01G301800 chr4B 8366317 8367852 1535 False 1247.000000 1247 81.911000 803 2320 1 chr4B.!!$F2 1517
6 TraesCS4A01G301800 chr4B 8419097 8423110 4013 True 794.500000 802 90.865000 803 3263 2 chr4B.!!$R3 2460
7 TraesCS4A01G301800 chr4B 8207859 8208522 663 False 787.000000 787 88.589000 2620 3263 1 chr4B.!!$F1 643
8 TraesCS4A01G301800 chr4B 9089498 9090215 717 False 758.000000 758 86.250000 1124 1820 1 chr4B.!!$F3 696
9 TraesCS4A01G301800 chr4B 8117201 8119724 2523 False 567.500000 1151 89.310500 803 3411 4 chr4B.!!$F7 2608
10 TraesCS4A01G301800 chr4B 7744693 7747007 2314 False 472.500000 475 82.550500 1062 3412 2 chr4B.!!$F5 2350
11 TraesCS4A01G301800 chr4B 8175364 8176647 1283 False 398.666667 547 85.252667 1839 3411 3 chr4B.!!$F8 1572
12 TraesCS4A01G301800 chr4B 8414292 8414820 528 True 327.000000 327 78.571000 2652 3197 1 chr4B.!!$R1 545
13 TraesCS4A01G301800 chr4B 8293460 8294825 1365 False 317.275000 531 88.345250 1839 3465 4 chr4B.!!$F9 1626
14 TraesCS4A01G301800 chr1A 10594980 10595778 798 True 1471.000000 1471 99.875000 1 799 1 chr1A.!!$R1 798
15 TraesCS4A01G301800 chr1A 44511963 44512761 798 True 1448.000000 1448 99.374000 1 799 1 chr1A.!!$R2 798
16 TraesCS4A01G301800 chr7A 27454541 27455340 799 True 1461.000000 1461 99.625000 1 800 1 chr7A.!!$R1 799
17 TraesCS4A01G301800 chr7A 570108344 570109142 798 False 1454.000000 1454 99.499000 1 799 1 chr7A.!!$F1 798
18 TraesCS4A01G301800 chr6B 118968711 118969510 799 True 1461.000000 1461 99.625000 1 800 1 chr6B.!!$R1 799
19 TraesCS4A01G301800 chr7B 245895980 245896778 798 True 1459.000000 1459 99.625000 1 799 1 chr7B.!!$R1 798
20 TraesCS4A01G301800 chr3A 36787118 36787916 798 False 1459.000000 1459 99.625000 1 799 1 chr3A.!!$F1 798
21 TraesCS4A01G301800 chr3A 154940037 154940835 798 True 1459.000000 1459 99.625000 1 799 1 chr3A.!!$R1 798
22 TraesCS4A01G301800 chr4D 5071273 5072318 1045 False 1282.000000 1282 89.429000 2620 3627 1 chr4D.!!$F1 1007
23 TraesCS4A01G301800 chr4D 5225260 5228780 3520 False 633.000000 739 84.351000 1111 2401 2 chr4D.!!$F5 1290
24 TraesCS4A01G301800 chr4D 5080474 5081848 1374 False 379.500000 577 85.912500 1839 3411 2 chr4D.!!$F4 1572
25 TraesCS4A01G301800 chr3D 571933505 571934480 975 False 300.000000 300 73.327000 1026 1975 1 chr3D.!!$F1 949

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
952 2999 2.736995 CCGCCGAGACGAAGCAAA 60.737 61.111 0.0 0.0 34.06 3.68 F
1773 5590 0.038251 TCATCTTCTGCGACGTGCTT 60.038 50.000 0.0 0.0 46.63 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2110 8150 0.381089 GCATCATTCTGCAGGCTGAC 59.619 55.0 20.86 10.37 41.87 3.51 R
3600 9944 1.214992 GGGGTCCTTCCTGGTTCCAT 61.215 60.0 0.00 0.00 37.07 3.41 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
952 2999 2.736995 CCGCCGAGACGAAGCAAA 60.737 61.111 0.00 0.00 34.06 3.68
969 3017 3.703052 AGCAAAGATTTGTGATCCATCCC 59.297 43.478 7.12 0.00 40.24 3.85
993 3041 4.549458 CTTGAACAAGGCAATCGATTTGT 58.451 39.130 8.21 7.65 37.65 2.83
1529 5305 2.031919 CGGCACCTGCAACCTACA 59.968 61.111 0.00 0.00 44.36 2.74
1580 5392 4.724697 CGTTGCCGCACAAGCTCG 62.725 66.667 0.00 0.00 39.50 5.03
1746 5563 2.191641 GCCTGGGTGGATCTCTGC 59.808 66.667 0.00 0.00 38.35 4.26
1773 5590 0.038251 TCATCTTCTGCGACGTGCTT 60.038 50.000 0.00 0.00 46.63 3.91
1935 7972 1.464734 CCGACAGAAGCTCCTCTACA 58.535 55.000 0.00 0.00 0.00 2.74
1937 7974 1.813178 CGACAGAAGCTCCTCTACACA 59.187 52.381 0.00 0.00 0.00 3.72
2042 8079 4.891992 ACCTCGATTCCACCCATATAAG 57.108 45.455 0.00 0.00 0.00 1.73
2134 8174 1.958579 GCCTGCAGAATGATGCCATTA 59.041 47.619 17.39 0.00 45.91 1.90
2142 8182 7.204604 TGCAGAATGATGCCATTATTTACTTG 58.795 34.615 0.00 0.00 45.91 3.16
2181 8221 1.726865 CCAAAGCGAACACACAGCA 59.273 52.632 0.00 0.00 0.00 4.41
2264 8304 3.252351 AGAGGACTCTTGGTTTAGCCTT 58.748 45.455 0.00 0.00 36.31 4.35
2709 8781 1.297158 GCGAGCGTTGCATGCTTAG 60.297 57.895 20.33 10.64 41.24 2.18
2821 8905 6.872020 TCTTTCCCAAACTATTACTGAAGACG 59.128 38.462 0.00 0.00 0.00 4.18
2914 8998 4.013582 GCAAGAAGCAGAGTAAAGATGC 57.986 45.455 0.00 0.00 44.79 3.91
2923 9007 5.114780 GCAGAGTAAAGATGCTTGAGATCA 58.885 41.667 0.00 0.00 37.00 2.92
3064 9268 3.319122 CCCCTTCCTTTGTCTGTCTTTTG 59.681 47.826 0.00 0.00 0.00 2.44
3104 9308 1.063114 GGCCCTCTAGACCCTGTTCTA 60.063 57.143 0.00 0.00 0.00 2.10
3122 9326 8.314751 CCTGTTCTAGAGTTCCTTTCTTCATTA 58.685 37.037 0.00 0.00 0.00 1.90
3153 9358 4.649692 CCTACTCTACCGGCTTGTCTATA 58.350 47.826 0.00 0.00 0.00 1.31
3412 9695 9.462174 TTTATTGTGATGTCAGATTTGTTTGTC 57.538 29.630 0.00 0.00 0.00 3.18
3420 9703 5.588246 TGTCAGATTTGTTTGTCTGTGCTTA 59.412 36.000 2.72 0.00 41.92 3.09
3421 9704 6.262944 TGTCAGATTTGTTTGTCTGTGCTTAT 59.737 34.615 2.72 0.00 41.92 1.73
3422 9705 7.141363 GTCAGATTTGTTTGTCTGTGCTTATT 58.859 34.615 2.72 0.00 41.92 1.40
3423 9706 7.113965 GTCAGATTTGTTTGTCTGTGCTTATTG 59.886 37.037 2.72 0.00 41.92 1.90
3424 9707 7.013178 TCAGATTTGTTTGTCTGTGCTTATTGA 59.987 33.333 2.72 0.00 41.92 2.57
3576 9920 7.383029 ACAGACATGTTTTGCAATTGATACTTG 59.617 33.333 10.34 10.70 35.63 3.16
3600 9944 6.995686 TGCTGGTAACTCTTATTTGTTTCTCA 59.004 34.615 0.00 0.00 37.61 3.27
3608 9952 7.004086 ACTCTTATTTGTTTCTCATGGAACCA 58.996 34.615 0.00 0.00 33.13 3.67
3619 9963 1.214992 ATGGAACCAGGAAGGACCCC 61.215 60.000 0.00 0.00 41.22 4.95
3648 9992 9.777008 TTTTTATCCAGGTTCACCCTAATAATT 57.223 29.630 0.00 0.00 43.86 1.40
3649 9993 8.760980 TTTATCCAGGTTCACCCTAATAATTG 57.239 34.615 0.00 0.00 43.86 2.32
3650 9994 5.124036 TCCAGGTTCACCCTAATAATTGG 57.876 43.478 0.00 0.00 43.86 3.16
3651 9995 4.542525 TCCAGGTTCACCCTAATAATTGGT 59.457 41.667 0.00 0.00 43.86 3.67
3652 9996 5.015817 TCCAGGTTCACCCTAATAATTGGTT 59.984 40.000 0.00 0.00 43.86 3.67
3653 9997 6.217900 TCCAGGTTCACCCTAATAATTGGTTA 59.782 38.462 0.00 0.00 43.86 2.85
3654 9998 7.066781 CCAGGTTCACCCTAATAATTGGTTAT 58.933 38.462 0.00 0.00 43.86 1.89
3655 9999 8.221944 CCAGGTTCACCCTAATAATTGGTTATA 58.778 37.037 0.00 0.00 43.86 0.98
3656 10000 9.807921 CAGGTTCACCCTAATAATTGGTTATAT 57.192 33.333 0.00 0.00 43.86 0.86
3704 10048 3.455990 GCTAGGTAGCTAGTGGTTTCC 57.544 52.381 25.63 7.58 45.62 3.13
3705 10049 2.764572 GCTAGGTAGCTAGTGGTTTCCA 59.235 50.000 25.63 0.00 45.62 3.53
3706 10050 3.388350 GCTAGGTAGCTAGTGGTTTCCAT 59.612 47.826 25.63 0.00 45.62 3.41
3707 10051 3.914426 AGGTAGCTAGTGGTTTCCATG 57.086 47.619 0.00 0.00 35.28 3.66
3708 10052 3.450904 AGGTAGCTAGTGGTTTCCATGA 58.549 45.455 0.00 0.00 35.28 3.07
3709 10053 3.197983 AGGTAGCTAGTGGTTTCCATGAC 59.802 47.826 0.00 0.00 35.28 3.06
3710 10054 3.055385 GGTAGCTAGTGGTTTCCATGACA 60.055 47.826 0.00 0.00 35.28 3.58
3711 10055 4.384208 GGTAGCTAGTGGTTTCCATGACAT 60.384 45.833 0.00 0.00 35.28 3.06
3712 10056 5.163343 GGTAGCTAGTGGTTTCCATGACATA 60.163 44.000 0.00 0.00 35.28 2.29
3713 10057 5.028549 AGCTAGTGGTTTCCATGACATAG 57.971 43.478 0.00 0.00 35.28 2.23
3714 10058 4.471386 AGCTAGTGGTTTCCATGACATAGT 59.529 41.667 0.00 0.00 35.28 2.12
3715 10059 5.661312 AGCTAGTGGTTTCCATGACATAGTA 59.339 40.000 0.00 0.00 35.28 1.82
3716 10060 5.753921 GCTAGTGGTTTCCATGACATAGTAC 59.246 44.000 0.00 0.00 35.28 2.73
3717 10061 6.407074 GCTAGTGGTTTCCATGACATAGTACT 60.407 42.308 0.00 0.00 35.28 2.73
3718 10062 5.978814 AGTGGTTTCCATGACATAGTACTC 58.021 41.667 0.00 0.00 35.28 2.59
3719 10063 5.104900 AGTGGTTTCCATGACATAGTACTCC 60.105 44.000 0.00 0.00 35.28 3.85
3720 10064 5.030147 TGGTTTCCATGACATAGTACTCCT 58.970 41.667 0.00 0.00 0.00 3.69
3721 10065 6.097839 GTGGTTTCCATGACATAGTACTCCTA 59.902 42.308 0.00 0.00 35.28 2.94
3722 10066 6.323996 TGGTTTCCATGACATAGTACTCCTAG 59.676 42.308 0.00 0.00 0.00 3.02
3723 10067 6.217294 GTTTCCATGACATAGTACTCCTAGC 58.783 44.000 0.00 0.00 0.00 3.42
3724 10068 4.072839 TCCATGACATAGTACTCCTAGCG 58.927 47.826 0.00 0.00 0.00 4.26
3725 10069 3.821600 CCATGACATAGTACTCCTAGCGT 59.178 47.826 0.00 0.00 0.00 5.07
3726 10070 4.278669 CCATGACATAGTACTCCTAGCGTT 59.721 45.833 0.00 0.00 0.00 4.84
3727 10071 5.221263 CCATGACATAGTACTCCTAGCGTTT 60.221 44.000 0.00 0.00 0.00 3.60
3728 10072 5.909621 TGACATAGTACTCCTAGCGTTTT 57.090 39.130 0.00 0.00 0.00 2.43
3729 10073 5.647589 TGACATAGTACTCCTAGCGTTTTG 58.352 41.667 0.00 0.00 0.00 2.44
3730 10074 5.007385 ACATAGTACTCCTAGCGTTTTGG 57.993 43.478 0.00 0.00 0.00 3.28
3731 10075 4.142004 ACATAGTACTCCTAGCGTTTTGGG 60.142 45.833 0.00 0.00 0.00 4.12
3732 10076 2.532843 AGTACTCCTAGCGTTTTGGGA 58.467 47.619 0.00 0.00 0.00 4.37
3733 10077 2.901839 AGTACTCCTAGCGTTTTGGGAA 59.098 45.455 0.00 0.00 0.00 3.97
3734 10078 3.518303 AGTACTCCTAGCGTTTTGGGAAT 59.482 43.478 0.00 0.00 0.00 3.01
3735 10079 3.434940 ACTCCTAGCGTTTTGGGAATT 57.565 42.857 0.00 0.00 0.00 2.17
3736 10080 4.563140 ACTCCTAGCGTTTTGGGAATTA 57.437 40.909 0.00 0.00 0.00 1.40
3737 10081 4.913784 ACTCCTAGCGTTTTGGGAATTAA 58.086 39.130 0.00 0.00 0.00 1.40
3738 10082 4.698780 ACTCCTAGCGTTTTGGGAATTAAC 59.301 41.667 0.00 0.00 0.00 2.01
3739 10083 4.011698 TCCTAGCGTTTTGGGAATTAACC 58.988 43.478 0.00 0.00 0.00 2.85
3740 10084 4.014406 CCTAGCGTTTTGGGAATTAACCT 58.986 43.478 0.88 0.00 0.00 3.50
3741 10085 4.461431 CCTAGCGTTTTGGGAATTAACCTT 59.539 41.667 0.88 0.00 0.00 3.50
3742 10086 4.251543 AGCGTTTTGGGAATTAACCTTG 57.748 40.909 0.88 0.00 0.00 3.61
3743 10087 2.734606 GCGTTTTGGGAATTAACCTTGC 59.265 45.455 0.88 0.00 0.00 4.01
3744 10088 3.800604 GCGTTTTGGGAATTAACCTTGCA 60.801 43.478 0.88 0.00 0.00 4.08
3745 10089 3.987220 CGTTTTGGGAATTAACCTTGCAG 59.013 43.478 0.00 0.00 0.00 4.41
3746 10090 4.500716 CGTTTTGGGAATTAACCTTGCAGT 60.501 41.667 0.00 0.00 0.00 4.40
3747 10091 5.278561 CGTTTTGGGAATTAACCTTGCAGTA 60.279 40.000 0.00 0.00 0.00 2.74
3748 10092 5.715434 TTTGGGAATTAACCTTGCAGTAC 57.285 39.130 0.00 0.00 0.00 2.73
3749 10093 4.374689 TGGGAATTAACCTTGCAGTACA 57.625 40.909 0.00 0.00 0.00 2.90
3750 10094 4.730966 TGGGAATTAACCTTGCAGTACAA 58.269 39.130 0.00 0.00 36.62 2.41
3751 10095 5.141182 TGGGAATTAACCTTGCAGTACAAA 58.859 37.500 0.00 0.00 37.96 2.83
3752 10096 5.598830 TGGGAATTAACCTTGCAGTACAAAA 59.401 36.000 0.00 0.00 37.96 2.44
3753 10097 5.924254 GGGAATTAACCTTGCAGTACAAAAC 59.076 40.000 0.00 0.00 37.96 2.43
3754 10098 6.461788 GGGAATTAACCTTGCAGTACAAAACA 60.462 38.462 0.00 0.00 37.96 2.83
3755 10099 6.419710 GGAATTAACCTTGCAGTACAAAACAC 59.580 38.462 0.00 0.00 37.96 3.32
3756 10100 6.709018 ATTAACCTTGCAGTACAAAACACT 57.291 33.333 0.00 0.00 37.96 3.55
3757 10101 7.811117 ATTAACCTTGCAGTACAAAACACTA 57.189 32.000 0.00 0.00 37.96 2.74
3758 10102 7.811117 TTAACCTTGCAGTACAAAACACTAT 57.189 32.000 0.00 0.00 37.96 2.12
3759 10103 6.709018 AACCTTGCAGTACAAAACACTATT 57.291 33.333 0.00 0.00 37.96 1.73
3760 10104 7.811117 AACCTTGCAGTACAAAACACTATTA 57.189 32.000 0.00 0.00 37.96 0.98
3761 10105 7.996098 ACCTTGCAGTACAAAACACTATTAT 57.004 32.000 0.00 0.00 37.96 1.28
3762 10106 7.816640 ACCTTGCAGTACAAAACACTATTATG 58.183 34.615 0.00 0.00 37.96 1.90
3763 10107 6.747280 CCTTGCAGTACAAAACACTATTATGC 59.253 38.462 0.00 0.00 37.96 3.14
3764 10108 7.362056 CCTTGCAGTACAAAACACTATTATGCT 60.362 37.037 0.00 0.00 37.96 3.79
3765 10109 7.072177 TGCAGTACAAAACACTATTATGCTC 57.928 36.000 0.00 0.00 0.00 4.26
3766 10110 6.652900 TGCAGTACAAAACACTATTATGCTCA 59.347 34.615 0.00 0.00 0.00 4.26
3767 10111 6.961554 GCAGTACAAAACACTATTATGCTCAC 59.038 38.462 0.00 0.00 0.00 3.51
3768 10112 7.464358 CAGTACAAAACACTATTATGCTCACC 58.536 38.462 0.00 0.00 0.00 4.02
3769 10113 7.119116 CAGTACAAAACACTATTATGCTCACCA 59.881 37.037 0.00 0.00 0.00 4.17
3770 10114 7.829211 AGTACAAAACACTATTATGCTCACCAT 59.171 33.333 0.00 0.00 37.97 3.55
3771 10115 6.855836 ACAAAACACTATTATGCTCACCATG 58.144 36.000 0.00 0.00 35.34 3.66
3772 10116 6.127647 ACAAAACACTATTATGCTCACCATGG 60.128 38.462 11.19 11.19 35.34 3.66
3773 10117 4.778213 ACACTATTATGCTCACCATGGT 57.222 40.909 13.00 13.00 35.34 3.55
3774 10118 5.116084 ACACTATTATGCTCACCATGGTT 57.884 39.130 16.84 2.33 35.34 3.67
3775 10119 6.247229 ACACTATTATGCTCACCATGGTTA 57.753 37.500 16.84 6.62 35.34 2.85
3776 10120 6.658849 ACACTATTATGCTCACCATGGTTAA 58.341 36.000 16.84 11.58 35.34 2.01
3777 10121 7.116075 ACACTATTATGCTCACCATGGTTAAA 58.884 34.615 16.84 2.65 35.34 1.52
3778 10122 7.779798 ACACTATTATGCTCACCATGGTTAAAT 59.220 33.333 16.84 9.35 35.34 1.40
3779 10123 8.632679 CACTATTATGCTCACCATGGTTAAATT 58.367 33.333 16.84 3.03 35.34 1.82
3780 10124 8.632679 ACTATTATGCTCACCATGGTTAAATTG 58.367 33.333 16.84 7.73 35.34 2.32
3781 10125 7.658525 ATTATGCTCACCATGGTTAAATTGA 57.341 32.000 16.84 7.52 35.34 2.57
3782 10126 5.587388 ATGCTCACCATGGTTAAATTGAG 57.413 39.130 16.84 18.11 34.77 3.02
3783 10127 4.406456 TGCTCACCATGGTTAAATTGAGT 58.594 39.130 16.84 0.00 34.26 3.41
3784 10128 4.832266 TGCTCACCATGGTTAAATTGAGTT 59.168 37.500 16.84 0.00 34.26 3.01
3785 10129 6.007076 TGCTCACCATGGTTAAATTGAGTTA 58.993 36.000 16.84 8.44 34.26 2.24
3786 10130 6.663093 TGCTCACCATGGTTAAATTGAGTTAT 59.337 34.615 16.84 0.00 34.26 1.89
3787 10131 7.178274 TGCTCACCATGGTTAAATTGAGTTATT 59.822 33.333 16.84 0.00 34.26 1.40
3788 10132 7.702348 GCTCACCATGGTTAAATTGAGTTATTC 59.298 37.037 16.84 1.01 34.26 1.75
3789 10133 7.757526 TCACCATGGTTAAATTGAGTTATTCG 58.242 34.615 16.84 0.00 0.00 3.34
3790 10134 6.972328 CACCATGGTTAAATTGAGTTATTCGG 59.028 38.462 16.84 0.00 0.00 4.30
3791 10135 6.661805 ACCATGGTTAAATTGAGTTATTCGGT 59.338 34.615 13.00 0.00 0.00 4.69
3792 10136 7.830201 ACCATGGTTAAATTGAGTTATTCGGTA 59.170 33.333 13.00 0.00 0.00 4.02
3793 10137 8.342634 CCATGGTTAAATTGAGTTATTCGGTAG 58.657 37.037 2.57 0.00 0.00 3.18
3794 10138 9.104965 CATGGTTAAATTGAGTTATTCGGTAGA 57.895 33.333 0.00 0.00 0.00 2.59
3795 10139 9.847224 ATGGTTAAATTGAGTTATTCGGTAGAT 57.153 29.630 0.00 0.00 0.00 1.98
3796 10140 9.104965 TGGTTAAATTGAGTTATTCGGTAGATG 57.895 33.333 0.00 0.00 0.00 2.90
3797 10141 9.106070 GGTTAAATTGAGTTATTCGGTAGATGT 57.894 33.333 0.00 0.00 0.00 3.06
3799 10143 9.878667 TTAAATTGAGTTATTCGGTAGATGTCA 57.121 29.630 0.00 0.00 0.00 3.58
3800 10144 8.964476 AAATTGAGTTATTCGGTAGATGTCAT 57.036 30.769 0.00 0.00 0.00 3.06
3806 10150 9.953697 GAGTTATTCGGTAGATGTCATATATCC 57.046 37.037 0.00 0.00 0.00 2.59
3807 10151 9.475620 AGTTATTCGGTAGATGTCATATATCCA 57.524 33.333 0.00 0.00 0.00 3.41
3808 10152 9.737427 GTTATTCGGTAGATGTCATATATCCAG 57.263 37.037 0.00 0.00 0.00 3.86
3809 10153 6.775594 TTCGGTAGATGTCATATATCCAGG 57.224 41.667 0.00 0.00 0.00 4.45
3810 10154 5.827756 TCGGTAGATGTCATATATCCAGGT 58.172 41.667 0.00 0.00 0.00 4.00
3811 10155 6.253758 TCGGTAGATGTCATATATCCAGGTT 58.746 40.000 0.00 0.00 0.00 3.50
3812 10156 7.407729 TCGGTAGATGTCATATATCCAGGTTA 58.592 38.462 0.00 0.00 0.00 2.85
3813 10157 7.891712 TCGGTAGATGTCATATATCCAGGTTAA 59.108 37.037 0.00 0.00 0.00 2.01
3814 10158 8.696374 CGGTAGATGTCATATATCCAGGTTAAT 58.304 37.037 0.00 0.00 0.00 1.40
3827 10171 9.830975 ATATCCAGGTTAATTTTATTTGGCAAC 57.169 29.630 0.00 0.00 0.00 4.17
3828 10172 6.468543 TCCAGGTTAATTTTATTTGGCAACC 58.531 36.000 0.00 0.00 35.31 3.77
3829 10173 6.271159 TCCAGGTTAATTTTATTTGGCAACCT 59.729 34.615 0.00 0.00 43.81 3.50
3830 10174 6.939730 CCAGGTTAATTTTATTTGGCAACCTT 59.060 34.615 0.00 0.00 41.71 3.50
3831 10175 7.119116 CCAGGTTAATTTTATTTGGCAACCTTC 59.881 37.037 0.00 0.00 41.71 3.46
3832 10176 7.659390 CAGGTTAATTTTATTTGGCAACCTTCA 59.341 33.333 0.00 0.00 41.71 3.02
3833 10177 8.214364 AGGTTAATTTTATTTGGCAACCTTCAA 58.786 29.630 0.00 0.00 41.02 2.69
3834 10178 8.841300 GGTTAATTTTATTTGGCAACCTTCAAA 58.159 29.630 0.00 0.00 37.29 2.69
3838 10182 8.688747 ATTTTATTTGGCAACCTTCAAAATGA 57.311 26.923 0.00 0.00 36.60 2.57
3839 10183 7.489574 TTTATTTGGCAACCTTCAAAATGAC 57.510 32.000 0.00 0.00 36.60 3.06
3840 10184 4.478206 TTTGGCAACCTTCAAAATGACA 57.522 36.364 0.00 0.00 30.96 3.58
3841 10185 4.686191 TTGGCAACCTTCAAAATGACAT 57.314 36.364 0.00 0.00 29.40 3.06
3842 10186 4.686191 TGGCAACCTTCAAAATGACATT 57.314 36.364 0.00 0.00 0.00 2.71
3843 10187 4.630111 TGGCAACCTTCAAAATGACATTC 58.370 39.130 0.05 0.00 0.00 2.67
3844 10188 3.996363 GGCAACCTTCAAAATGACATTCC 59.004 43.478 0.05 0.00 0.00 3.01
3845 10189 3.996363 GCAACCTTCAAAATGACATTCCC 59.004 43.478 0.05 0.00 0.00 3.97
3846 10190 4.262592 GCAACCTTCAAAATGACATTCCCT 60.263 41.667 0.05 0.00 0.00 4.20
3847 10191 5.742838 GCAACCTTCAAAATGACATTCCCTT 60.743 40.000 0.05 0.00 0.00 3.95
3848 10192 6.290605 CAACCTTCAAAATGACATTCCCTTT 58.709 36.000 0.05 0.00 0.00 3.11
3849 10193 6.499106 ACCTTCAAAATGACATTCCCTTTT 57.501 33.333 0.05 0.00 0.00 2.27
3850 10194 7.610580 ACCTTCAAAATGACATTCCCTTTTA 57.389 32.000 0.05 0.00 0.00 1.52
3851 10195 7.670364 ACCTTCAAAATGACATTCCCTTTTAG 58.330 34.615 0.05 0.00 0.00 1.85
3852 10196 7.290014 ACCTTCAAAATGACATTCCCTTTTAGT 59.710 33.333 0.05 0.00 0.00 2.24
3853 10197 8.150296 CCTTCAAAATGACATTCCCTTTTAGTT 58.850 33.333 0.05 0.00 0.00 2.24
3854 10198 9.546428 CTTCAAAATGACATTCCCTTTTAGTTT 57.454 29.630 0.05 0.00 0.00 2.66
3855 10199 9.898152 TTCAAAATGACATTCCCTTTTAGTTTT 57.102 25.926 0.05 0.00 0.00 2.43
3869 10213 8.521170 CCTTTTAGTTTTATAAAGGGAGGGAG 57.479 38.462 0.00 0.00 41.88 4.30
3870 10214 8.114102 CCTTTTAGTTTTATAAAGGGAGGGAGT 58.886 37.037 0.00 0.00 41.88 3.85
3872 10216 9.964354 TTTTAGTTTTATAAAGGGAGGGAGTAC 57.036 33.333 0.00 0.00 0.00 2.73
3873 10217 6.572182 AGTTTTATAAAGGGAGGGAGTACC 57.428 41.667 0.00 0.00 40.67 3.34
3897 10241 3.611766 TTTTTGGAAACCGAGGCAAAA 57.388 38.095 0.00 0.00 0.00 2.44
3898 10242 3.828875 TTTTGGAAACCGAGGCAAAAT 57.171 38.095 0.00 0.00 0.00 1.82
3899 10243 4.939052 TTTTGGAAACCGAGGCAAAATA 57.061 36.364 0.00 0.00 0.00 1.40
3900 10244 5.476091 TTTTGGAAACCGAGGCAAAATAT 57.524 34.783 0.00 0.00 0.00 1.28
3901 10245 5.476091 TTTGGAAACCGAGGCAAAATATT 57.524 34.783 0.00 0.00 0.00 1.28
3902 10246 5.476091 TTGGAAACCGAGGCAAAATATTT 57.524 34.783 0.00 0.00 0.00 1.40
3903 10247 6.591750 TTGGAAACCGAGGCAAAATATTTA 57.408 33.333 0.01 0.00 0.00 1.40
3904 10248 6.783708 TGGAAACCGAGGCAAAATATTTAT 57.216 33.333 0.01 0.00 0.00 1.40
3905 10249 7.883391 TGGAAACCGAGGCAAAATATTTATA 57.117 32.000 0.01 0.00 0.00 0.98
3906 10250 8.294954 TGGAAACCGAGGCAAAATATTTATAA 57.705 30.769 0.01 0.00 0.00 0.98
3907 10251 8.919145 TGGAAACCGAGGCAAAATATTTATAAT 58.081 29.630 0.01 0.00 0.00 1.28
3908 10252 9.758651 GGAAACCGAGGCAAAATATTTATAATT 57.241 29.630 0.01 0.00 0.00 1.40
3912 10256 9.744468 ACCGAGGCAAAATATTTATAATTTGTC 57.256 29.630 0.01 6.73 37.78 3.18
3913 10257 8.901748 CCGAGGCAAAATATTTATAATTTGTCG 58.098 33.333 0.01 11.29 40.70 4.35
3914 10258 9.445786 CGAGGCAAAATATTTATAATTTGTCGT 57.554 29.630 0.01 6.15 40.70 4.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
952 2999 1.492176 AGCGGGATGGATCACAAATCT 59.508 47.619 0.00 0.00 0.00 2.40
969 3017 3.005823 CGATTGCCTTGTTCAAGCG 57.994 52.632 7.00 0.00 44.75 4.68
993 3041 0.038618 CGTAATCGGCCATCGGATCA 60.039 55.000 2.24 0.00 39.77 2.92
1529 5305 3.341629 CTGCCTGTCCATGGGGGT 61.342 66.667 13.02 0.00 38.11 4.95
1580 5392 5.105716 GGAGATTCTTTACCCCAGAAAAAGC 60.106 44.000 0.00 0.00 33.94 3.51
1746 5563 3.911989 GCAGAAGATGATGTTGCGG 57.088 52.632 0.00 0.00 0.00 5.69
1935 7972 2.602676 CCAACGATGGGAGGGGTGT 61.603 63.158 3.28 0.00 43.51 4.16
2042 8079 2.711542 CTGTGGTACCAGAATCAACCC 58.288 52.381 16.93 0.01 34.23 4.11
2110 8150 0.381089 GCATCATTCTGCAGGCTGAC 59.619 55.000 20.86 10.37 41.87 3.51
2134 8174 4.009675 TCAATCTTGGCGAGCAAGTAAAT 58.990 39.130 0.00 0.00 0.00 1.40
2142 8182 1.291132 GGTAGTCAATCTTGGCGAGC 58.709 55.000 0.00 0.00 37.98 5.03
2181 8221 0.467844 TGTCAACAGCAAGCACCCAT 60.468 50.000 0.00 0.00 0.00 4.00
2229 8269 1.667830 CCTCTCGGCGCAAAACTCA 60.668 57.895 10.83 0.00 0.00 3.41
2236 8276 2.676822 AAGAGTCCTCTCGGCGCA 60.677 61.111 10.83 0.00 44.65 6.09
2264 8304 1.080093 CTACTTGCGTCGAAGCCCA 60.080 57.895 20.62 6.52 36.02 5.36
2709 8781 5.297029 ACAACTGAGAAAAGACCAAACTAGC 59.703 40.000 0.00 0.00 0.00 3.42
2821 8905 2.353011 CCTGGCATGTCAAATTCCACAC 60.353 50.000 0.00 0.00 0.00 3.82
2903 8987 9.539825 TCTTTATGATCTCAAGCATCTTTACTC 57.460 33.333 0.00 0.00 32.70 2.59
2914 8998 6.073873 GGCATCGTCTTCTTTATGATCTCAAG 60.074 42.308 0.00 0.00 0.00 3.02
2916 9000 5.163416 TGGCATCGTCTTCTTTATGATCTCA 60.163 40.000 0.00 0.00 0.00 3.27
2917 9001 5.292765 TGGCATCGTCTTCTTTATGATCTC 58.707 41.667 0.00 0.00 0.00 2.75
2923 9007 3.879295 CACCATGGCATCGTCTTCTTTAT 59.121 43.478 13.04 0.00 0.00 1.40
3104 9308 7.334858 GGTGAGATAATGAAGAAAGGAACTCT 58.665 38.462 0.00 0.00 38.49 3.24
3122 9326 1.814634 CGGTAGAGTAGGCGGTGAGAT 60.815 57.143 0.00 0.00 0.00 2.75
3188 9393 9.043548 GGGGGTACTACAACTGACATAATATAT 57.956 37.037 0.00 0.00 0.00 0.86
3412 9695 5.496133 AAGCAGCTAATCAATAAGCACAG 57.504 39.130 0.00 0.00 41.32 3.66
3421 9704 9.630098 CAAGAAAATAAGAAAGCAGCTAATCAA 57.370 29.630 0.00 0.00 0.00 2.57
3422 9705 8.246180 CCAAGAAAATAAGAAAGCAGCTAATCA 58.754 33.333 0.00 0.00 0.00 2.57
3423 9706 7.221645 GCCAAGAAAATAAGAAAGCAGCTAATC 59.778 37.037 0.00 0.00 0.00 1.75
3424 9707 7.038048 GCCAAGAAAATAAGAAAGCAGCTAAT 58.962 34.615 0.00 0.00 0.00 1.73
3576 9920 7.435068 TGAGAAACAAATAAGAGTTACCAGC 57.565 36.000 0.00 0.00 0.00 4.85
3600 9944 1.214992 GGGGTCCTTCCTGGTTCCAT 61.215 60.000 0.00 0.00 37.07 3.41
3629 9973 8.221944 TATAACCAATTATTAGGGTGAACCTGG 58.778 37.037 0.00 0.00 39.86 4.45
3630 9974 9.807921 ATATAACCAATTATTAGGGTGAACCTG 57.192 33.333 0.00 0.00 39.86 4.00
3680 10024 8.570826 ATGGAAACCACTAGCTACCTAGCATAA 61.571 40.741 7.07 0.00 43.75 1.90
3681 10025 7.150369 ATGGAAACCACTAGCTACCTAGCATA 61.150 42.308 7.07 0.00 43.75 3.14
3682 10026 6.404126 ATGGAAACCACTAGCTACCTAGCAT 61.404 44.000 7.07 0.00 43.75 3.79
3683 10027 5.123451 ATGGAAACCACTAGCTACCTAGCA 61.123 45.833 7.07 0.00 43.75 3.49
3684 10028 3.388350 ATGGAAACCACTAGCTACCTAGC 59.612 47.826 0.00 0.00 44.00 3.42
3685 10029 4.649674 TCATGGAAACCACTAGCTACCTAG 59.350 45.833 0.00 0.00 45.35 3.02
3686 10030 4.404715 GTCATGGAAACCACTAGCTACCTA 59.595 45.833 0.00 0.00 35.80 3.08
3687 10031 3.197983 GTCATGGAAACCACTAGCTACCT 59.802 47.826 0.00 0.00 35.80 3.08
3688 10032 3.055385 TGTCATGGAAACCACTAGCTACC 60.055 47.826 0.00 0.00 35.80 3.18
3689 10033 4.202245 TGTCATGGAAACCACTAGCTAC 57.798 45.455 0.00 0.00 35.80 3.58
3690 10034 5.661312 ACTATGTCATGGAAACCACTAGCTA 59.339 40.000 2.78 0.00 35.80 3.32
3691 10035 4.471386 ACTATGTCATGGAAACCACTAGCT 59.529 41.667 2.78 0.00 35.80 3.32
3692 10036 4.770795 ACTATGTCATGGAAACCACTAGC 58.229 43.478 2.78 0.00 35.80 3.42
3693 10037 7.113658 AGTACTATGTCATGGAAACCACTAG 57.886 40.000 2.78 0.00 35.80 2.57
3694 10038 6.097839 GGAGTACTATGTCATGGAAACCACTA 59.902 42.308 2.78 0.00 35.80 2.74
3695 10039 5.104900 GGAGTACTATGTCATGGAAACCACT 60.105 44.000 2.78 0.00 35.80 4.00
3696 10040 5.104900 AGGAGTACTATGTCATGGAAACCAC 60.105 44.000 2.78 0.00 35.80 4.16
3697 10041 5.030147 AGGAGTACTATGTCATGGAAACCA 58.970 41.667 2.78 0.00 38.19 3.67
3698 10042 5.615925 AGGAGTACTATGTCATGGAAACC 57.384 43.478 2.78 1.72 0.00 3.27
3699 10043 6.217294 GCTAGGAGTACTATGTCATGGAAAC 58.783 44.000 2.78 1.37 0.00 2.78
3700 10044 5.009710 CGCTAGGAGTACTATGTCATGGAAA 59.990 44.000 2.78 0.00 0.00 3.13
3701 10045 4.519350 CGCTAGGAGTACTATGTCATGGAA 59.481 45.833 2.78 0.00 0.00 3.53
3702 10046 4.072839 CGCTAGGAGTACTATGTCATGGA 58.927 47.826 2.78 0.00 0.00 3.41
3703 10047 3.821600 ACGCTAGGAGTACTATGTCATGG 59.178 47.826 0.00 0.00 0.00 3.66
3704 10048 5.440234 AACGCTAGGAGTACTATGTCATG 57.560 43.478 0.00 0.00 0.00 3.07
3705 10049 6.273825 CAAAACGCTAGGAGTACTATGTCAT 58.726 40.000 0.00 0.00 0.00 3.06
3706 10050 5.393787 CCAAAACGCTAGGAGTACTATGTCA 60.394 44.000 0.00 0.00 0.00 3.58
3707 10051 5.041940 CCAAAACGCTAGGAGTACTATGTC 58.958 45.833 0.00 0.00 0.00 3.06
3708 10052 4.142004 CCCAAAACGCTAGGAGTACTATGT 60.142 45.833 0.00 0.00 0.00 2.29
3709 10053 4.098960 TCCCAAAACGCTAGGAGTACTATG 59.901 45.833 0.00 0.00 0.00 2.23
3710 10054 4.284178 TCCCAAAACGCTAGGAGTACTAT 58.716 43.478 0.00 0.00 0.00 2.12
3711 10055 3.700538 TCCCAAAACGCTAGGAGTACTA 58.299 45.455 0.00 0.00 0.00 1.82
3712 10056 2.532843 TCCCAAAACGCTAGGAGTACT 58.467 47.619 0.00 0.00 0.00 2.73
3713 10057 3.323751 TTCCCAAAACGCTAGGAGTAC 57.676 47.619 0.00 0.00 0.00 2.73
3714 10058 4.563140 AATTCCCAAAACGCTAGGAGTA 57.437 40.909 0.00 0.00 0.00 2.59
3715 10059 3.434940 AATTCCCAAAACGCTAGGAGT 57.565 42.857 0.00 0.00 0.00 3.85
3716 10060 4.095932 GGTTAATTCCCAAAACGCTAGGAG 59.904 45.833 0.00 0.00 0.00 3.69
3717 10061 4.011698 GGTTAATTCCCAAAACGCTAGGA 58.988 43.478 0.00 0.00 0.00 2.94
3718 10062 4.014406 AGGTTAATTCCCAAAACGCTAGG 58.986 43.478 0.00 0.00 0.00 3.02
3719 10063 5.399013 CAAGGTTAATTCCCAAAACGCTAG 58.601 41.667 0.00 0.00 0.00 3.42
3720 10064 4.321378 GCAAGGTTAATTCCCAAAACGCTA 60.321 41.667 0.00 0.00 0.00 4.26
3721 10065 3.554129 GCAAGGTTAATTCCCAAAACGCT 60.554 43.478 0.00 0.00 0.00 5.07
3722 10066 2.734606 GCAAGGTTAATTCCCAAAACGC 59.265 45.455 0.00 0.00 0.00 4.84
3723 10067 3.983741 TGCAAGGTTAATTCCCAAAACG 58.016 40.909 0.00 0.00 0.00 3.60
3724 10068 4.956085 ACTGCAAGGTTAATTCCCAAAAC 58.044 39.130 0.00 0.00 39.30 2.43
3725 10069 5.598830 TGTACTGCAAGGTTAATTCCCAAAA 59.401 36.000 0.00 0.00 39.30 2.44
3726 10070 5.141182 TGTACTGCAAGGTTAATTCCCAAA 58.859 37.500 0.00 0.00 39.30 3.28
3727 10071 4.730966 TGTACTGCAAGGTTAATTCCCAA 58.269 39.130 0.00 0.00 39.30 4.12
3728 10072 4.374689 TGTACTGCAAGGTTAATTCCCA 57.625 40.909 0.00 0.00 39.30 4.37
3729 10073 5.715434 TTTGTACTGCAAGGTTAATTCCC 57.285 39.130 0.00 0.00 39.30 3.97
3730 10074 6.419710 GTGTTTTGTACTGCAAGGTTAATTCC 59.580 38.462 0.00 0.00 39.30 3.01
3731 10075 7.200455 AGTGTTTTGTACTGCAAGGTTAATTC 58.800 34.615 0.00 0.00 39.30 2.17
3732 10076 7.107639 AGTGTTTTGTACTGCAAGGTTAATT 57.892 32.000 0.00 0.00 39.30 1.40
3733 10077 6.709018 AGTGTTTTGTACTGCAAGGTTAAT 57.291 33.333 0.00 0.00 39.30 1.40
3734 10078 7.811117 ATAGTGTTTTGTACTGCAAGGTTAA 57.189 32.000 0.00 0.00 39.30 2.01
3735 10079 7.811117 AATAGTGTTTTGTACTGCAAGGTTA 57.189 32.000 0.00 0.00 39.30 2.85
3736 10080 6.709018 AATAGTGTTTTGTACTGCAAGGTT 57.291 33.333 0.00 0.00 39.30 3.50
3737 10081 7.574967 GCATAATAGTGTTTTGTACTGCAAGGT 60.575 37.037 0.00 0.00 39.30 3.50
3738 10082 6.747280 GCATAATAGTGTTTTGTACTGCAAGG 59.253 38.462 0.00 0.00 39.30 3.61
3739 10083 7.530010 AGCATAATAGTGTTTTGTACTGCAAG 58.470 34.615 0.00 0.00 38.47 4.01
3740 10084 7.174080 TGAGCATAATAGTGTTTTGTACTGCAA 59.826 33.333 0.00 0.00 34.87 4.08
3741 10085 6.652900 TGAGCATAATAGTGTTTTGTACTGCA 59.347 34.615 0.00 0.00 0.00 4.41
3742 10086 6.961554 GTGAGCATAATAGTGTTTTGTACTGC 59.038 38.462 0.00 0.00 0.00 4.40
3743 10087 7.119116 TGGTGAGCATAATAGTGTTTTGTACTG 59.881 37.037 0.00 0.00 0.00 2.74
3744 10088 7.165485 TGGTGAGCATAATAGTGTTTTGTACT 58.835 34.615 0.00 0.00 0.00 2.73
3745 10089 7.372451 TGGTGAGCATAATAGTGTTTTGTAC 57.628 36.000 0.00 0.00 0.00 2.90
3746 10090 7.066887 CCATGGTGAGCATAATAGTGTTTTGTA 59.933 37.037 2.57 0.00 0.00 2.41
3747 10091 6.127647 CCATGGTGAGCATAATAGTGTTTTGT 60.128 38.462 2.57 0.00 0.00 2.83
3748 10092 6.127647 ACCATGGTGAGCATAATAGTGTTTTG 60.128 38.462 18.99 0.00 0.00 2.44
3749 10093 5.951747 ACCATGGTGAGCATAATAGTGTTTT 59.048 36.000 18.99 0.00 0.00 2.43
3750 10094 5.509498 ACCATGGTGAGCATAATAGTGTTT 58.491 37.500 18.99 0.00 0.00 2.83
3751 10095 5.116084 ACCATGGTGAGCATAATAGTGTT 57.884 39.130 18.99 0.00 0.00 3.32
3752 10096 4.778213 ACCATGGTGAGCATAATAGTGT 57.222 40.909 18.99 0.00 0.00 3.55
3753 10097 7.566760 TTTAACCATGGTGAGCATAATAGTG 57.433 36.000 20.60 0.00 0.00 2.74
3754 10098 8.632679 CAATTTAACCATGGTGAGCATAATAGT 58.367 33.333 20.60 0.00 0.00 2.12
3755 10099 8.849168 TCAATTTAACCATGGTGAGCATAATAG 58.151 33.333 20.60 6.07 0.00 1.73
3756 10100 8.759481 TCAATTTAACCATGGTGAGCATAATA 57.241 30.769 20.60 0.71 0.00 0.98
3757 10101 7.342799 ACTCAATTTAACCATGGTGAGCATAAT 59.657 33.333 20.60 4.49 36.74 1.28
3758 10102 6.663093 ACTCAATTTAACCATGGTGAGCATAA 59.337 34.615 20.60 10.08 36.74 1.90
3759 10103 6.186957 ACTCAATTTAACCATGGTGAGCATA 58.813 36.000 20.60 3.25 36.74 3.14
3760 10104 5.018809 ACTCAATTTAACCATGGTGAGCAT 58.981 37.500 20.60 4.43 36.74 3.79
3761 10105 4.406456 ACTCAATTTAACCATGGTGAGCA 58.594 39.130 20.60 1.35 36.74 4.26
3762 10106 5.391312 AACTCAATTTAACCATGGTGAGC 57.609 39.130 20.60 0.00 36.74 4.26
3763 10107 7.910162 CGAATAACTCAATTTAACCATGGTGAG 59.090 37.037 20.60 20.61 38.72 3.51
3764 10108 7.148154 CCGAATAACTCAATTTAACCATGGTGA 60.148 37.037 20.60 8.41 0.00 4.02
3765 10109 6.972328 CCGAATAACTCAATTTAACCATGGTG 59.028 38.462 20.60 4.59 0.00 4.17
3766 10110 6.661805 ACCGAATAACTCAATTTAACCATGGT 59.338 34.615 13.00 13.00 0.00 3.55
3767 10111 7.095695 ACCGAATAACTCAATTTAACCATGG 57.904 36.000 11.19 11.19 0.00 3.66
3768 10112 9.104965 TCTACCGAATAACTCAATTTAACCATG 57.895 33.333 0.00 0.00 0.00 3.66
3769 10113 9.847224 ATCTACCGAATAACTCAATTTAACCAT 57.153 29.630 0.00 0.00 0.00 3.55
3770 10114 9.104965 CATCTACCGAATAACTCAATTTAACCA 57.895 33.333 0.00 0.00 0.00 3.67
3771 10115 9.106070 ACATCTACCGAATAACTCAATTTAACC 57.894 33.333 0.00 0.00 0.00 2.85
3773 10117 9.878667 TGACATCTACCGAATAACTCAATTTAA 57.121 29.630 0.00 0.00 0.00 1.52
3775 10119 8.964476 ATGACATCTACCGAATAACTCAATTT 57.036 30.769 0.00 0.00 0.00 1.82
3780 10124 9.953697 GGATATATGACATCTACCGAATAACTC 57.046 37.037 0.00 0.00 0.00 3.01
3781 10125 9.475620 TGGATATATGACATCTACCGAATAACT 57.524 33.333 0.00 0.00 0.00 2.24
3782 10126 9.737427 CTGGATATATGACATCTACCGAATAAC 57.263 37.037 0.00 0.00 0.00 1.89
3783 10127 8.914011 CCTGGATATATGACATCTACCGAATAA 58.086 37.037 0.00 0.00 0.00 1.40
3784 10128 8.059461 ACCTGGATATATGACATCTACCGAATA 58.941 37.037 0.00 0.00 0.00 1.75
3785 10129 6.897966 ACCTGGATATATGACATCTACCGAAT 59.102 38.462 0.00 0.00 0.00 3.34
3786 10130 6.253758 ACCTGGATATATGACATCTACCGAA 58.746 40.000 0.00 0.00 0.00 4.30
3787 10131 5.827756 ACCTGGATATATGACATCTACCGA 58.172 41.667 0.00 0.00 0.00 4.69
3788 10132 6.531503 AACCTGGATATATGACATCTACCG 57.468 41.667 0.00 0.00 0.00 4.02
3801 10145 9.830975 GTTGCCAAATAAAATTAACCTGGATAT 57.169 29.630 0.00 0.00 0.00 1.63
3802 10146 8.261522 GGTTGCCAAATAAAATTAACCTGGATA 58.738 33.333 0.00 0.00 34.69 2.59
3803 10147 7.037658 AGGTTGCCAAATAAAATTAACCTGGAT 60.038 33.333 0.00 0.00 43.31 3.41
3804 10148 6.271159 AGGTTGCCAAATAAAATTAACCTGGA 59.729 34.615 0.00 0.00 43.31 3.86
3805 10149 6.472016 AGGTTGCCAAATAAAATTAACCTGG 58.528 36.000 0.00 0.00 43.31 4.45
3806 10150 7.659390 TGAAGGTTGCCAAATAAAATTAACCTG 59.341 33.333 0.00 0.00 43.94 4.00
3807 10151 7.740805 TGAAGGTTGCCAAATAAAATTAACCT 58.259 30.769 0.00 0.00 45.95 3.50
3808 10152 7.971183 TGAAGGTTGCCAAATAAAATTAACC 57.029 32.000 0.00 0.00 37.07 2.85
3812 10156 9.129532 TCATTTTGAAGGTTGCCAAATAAAATT 57.870 25.926 0.00 0.00 33.00 1.82
3813 10157 8.567104 GTCATTTTGAAGGTTGCCAAATAAAAT 58.433 29.630 0.00 0.00 33.00 1.82
3814 10158 7.554118 TGTCATTTTGAAGGTTGCCAAATAAAA 59.446 29.630 0.00 0.00 33.00 1.52
3815 10159 7.050377 TGTCATTTTGAAGGTTGCCAAATAAA 58.950 30.769 0.00 0.00 33.00 1.40
3816 10160 6.586344 TGTCATTTTGAAGGTTGCCAAATAA 58.414 32.000 0.00 0.00 33.00 1.40
3817 10161 6.166984 TGTCATTTTGAAGGTTGCCAAATA 57.833 33.333 0.00 0.00 33.00 1.40
3818 10162 5.033589 TGTCATTTTGAAGGTTGCCAAAT 57.966 34.783 0.00 0.00 33.00 2.32
3819 10163 4.478206 TGTCATTTTGAAGGTTGCCAAA 57.522 36.364 0.00 0.00 0.00 3.28
3820 10164 4.686191 ATGTCATTTTGAAGGTTGCCAA 57.314 36.364 0.00 0.00 0.00 4.52
3821 10165 4.502950 GGAATGTCATTTTGAAGGTTGCCA 60.503 41.667 0.00 0.00 0.00 4.92
3822 10166 3.996363 GGAATGTCATTTTGAAGGTTGCC 59.004 43.478 0.00 0.00 0.00 4.52
3823 10167 3.996363 GGGAATGTCATTTTGAAGGTTGC 59.004 43.478 0.00 0.00 0.00 4.17
3824 10168 5.473066 AGGGAATGTCATTTTGAAGGTTG 57.527 39.130 0.00 0.00 0.00 3.77
3825 10169 6.499106 AAAGGGAATGTCATTTTGAAGGTT 57.501 33.333 0.00 0.00 0.00 3.50
3826 10170 6.499106 AAAAGGGAATGTCATTTTGAAGGT 57.501 33.333 0.00 0.00 0.00 3.50
3827 10171 7.670364 ACTAAAAGGGAATGTCATTTTGAAGG 58.330 34.615 0.00 0.00 0.00 3.46
3828 10172 9.546428 AAACTAAAAGGGAATGTCATTTTGAAG 57.454 29.630 0.00 0.00 0.00 3.02
3829 10173 9.898152 AAAACTAAAAGGGAATGTCATTTTGAA 57.102 25.926 0.00 0.00 0.00 2.69
3844 10188 8.114102 ACTCCCTCCCTTTATAAAACTAAAAGG 58.886 37.037 6.17 6.17 45.83 3.11
3846 10190 9.964354 GTACTCCCTCCCTTTATAAAACTAAAA 57.036 33.333 0.00 0.00 0.00 1.52
3847 10191 8.551440 GGTACTCCCTCCCTTTATAAAACTAAA 58.449 37.037 0.00 0.00 0.00 1.85
3848 10192 8.094284 GGTACTCCCTCCCTTTATAAAACTAA 57.906 38.462 0.00 0.00 0.00 2.24
3849 10193 7.681259 GGTACTCCCTCCCTTTATAAAACTA 57.319 40.000 0.00 0.00 0.00 2.24
3850 10194 6.572182 GGTACTCCCTCCCTTTATAAAACT 57.428 41.667 0.00 0.00 0.00 2.66
3877 10221 3.611766 TTTTGCCTCGGTTTCCAAAAA 57.388 38.095 0.00 0.00 35.11 1.94
3878 10222 3.828875 ATTTTGCCTCGGTTTCCAAAA 57.171 38.095 0.00 0.00 40.24 2.44
3879 10223 5.476091 AATATTTTGCCTCGGTTTCCAAA 57.524 34.783 0.00 0.00 0.00 3.28
3880 10224 5.476091 AAATATTTTGCCTCGGTTTCCAA 57.524 34.783 0.00 0.00 0.00 3.53
3881 10225 6.783708 ATAAATATTTTGCCTCGGTTTCCA 57.216 33.333 5.91 0.00 0.00 3.53
3882 10226 9.758651 AATTATAAATATTTTGCCTCGGTTTCC 57.241 29.630 5.91 0.00 0.00 3.13
3886 10230 9.744468 GACAAATTATAAATATTTTGCCTCGGT 57.256 29.630 5.91 0.00 37.22 4.69
3887 10231 8.901748 CGACAAATTATAAATATTTTGCCTCGG 58.098 33.333 5.91 0.00 37.22 4.63
3888 10232 9.445786 ACGACAAATTATAAATATTTTGCCTCG 57.554 29.630 5.91 17.59 37.66 4.63


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

AutoCloner maintained by Alex Coulton.