Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A11 F50 I0 R1	804	34.5	1706502	92.5%	1578514	135.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	5,610,048	C→A	100%	S173I (AGC→ATC)	PP_4929 ←	LysR family transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	5,610,048	0	C	A	100.0%	133.7 / NA	40	S173I (AGC→ATC)	PP_4929	LysR family transcriptional regulator
Reads supporting (aligned to +/- strand): ref base C (0/0); new base A (20/20); total (20/20)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGCTGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTGCGCGCCACATCGCCCTGGGCTCCGCTGGCCAGTTGCACCTCCAGGAACGGGTAG  >  NC_002947/5609916‑5610188

gcctcgccGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGGGGCCGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGgcgc                                                                                                                             >  1:829714/1‑150 (MQ=255)

                   cGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGc                                                                                                          >  1:785701/1‑150 (MQ=255)

                      tttGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCg                                                                                                                <  2:757444/141‑1 (MQ=255)

                      tttGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCg                                                                                                                >  1:757444/1‑141 (MQ=255)

                      tttGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCttt                                                                                                       <  1:340403/150‑1 (MQ=255)

                       ttgttgTGGCGTGATCAGCAACTGCCGGTGGCGGGCCACTTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTc                                                                                                      <  1:225215/150‑1 (MQ=255)

                          ttgtGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGa                                                                                                             <  2:799289/140‑1 (MQ=255)

                          ttgtGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGa                                                                                                             >  1:799289/1‑140 (MQ=255)

                            gtgGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCAGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTgga                                                                                                 <  2:656648/150‑1 (MQ=255)

                             tgGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTggag                                                                                                >  1:32844/1‑150 (MQ=255)

                                   gATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTgga                                                                                                 >  1:386861/1‑143 (MQ=255)

                                   gATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTgga                                                                                                 <  2:386861/143‑1 (MQ=255)

                                                       gggCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGcgcc                                                                      >  2:89060/1‑150 (MQ=255)

                                                       gggCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGCTGGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGcgcc                                                                      >  1:649465/1‑150 (MQ=255)

                                                         gCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGgcgcgcaag                                                                    >  2:152845/1‑147 (MQ=255)

                                                            aaTTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGTAAGAACAGGCCCAGATCGGCGCGCCGCTcc                                                                 <  1:413036/150‑1 (MQ=255)

                                                              ttgttgGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGGGCCTCTccac                                                               <  2:32844/150‑1 (MQ=255)

                                                                   ggCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCt                                                          >  2:467423/1‑150 (MQ=255)

                                                                    gCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCtt                                                         >  2:481826/1‑150 (MQ=255)

                                                                        gTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTgcgc                                                     >  1:136197/1‑150 (MQ=255)

                                                                              cGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTgcgc                                                     <  2:267488/144‑1 (MQ=255)

                                                                              cGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTgcgc                                                     >  1:267488/1‑144 (MQ=255)

                                                                                  cTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTGCGCGCCACATCGc                                           >  1:249257/1‑150 (MQ=255)

                                                                                           ccAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTGCGCGCCACATCGCCCTGGGCTc                                  <  2:136197/150‑1 (MQ=255)

                                                                                                gggTGGCCGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTGCGCGCCACATCGCCCTGGGCTCCGCTg                             <  1:481826/150‑1 (MQ=255)

                                                                                                       cGACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGC‑CCAAGGAAACCCGGATGCCTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCCCCACCAGCTTGCGCGCCACATCGCCCCTGGCTCCCCCTGCCAGTTg                     >  2:280510/1‑150 (MQ=255)

                                                                                                        gACCGCGCACACCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTGCGCGCCACATCGCCCTGGGCTCCGCTGGCCAGTTg                     <  2:615056/150‑1 (MQ=255)

                                                                                                               cacaCCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTGCGCGCCACATCGCCCTGGGCTCCGCTGGCCAGTTGCACCTcc              <  1:235959/150‑1 (MQ=255)

                                                                                                                 cacCGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTGCGCGCCACATCGCCCTGGGCTCCGCTGGCCAGTTGCACCTCCAg            <  2:542996/150‑1 (MQ=255)

                                                                                                                    cGTGACCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTGCGCGCCACATCGCCCTGGGCTCCGCTGGCCAGTTGCACCTCCAGGaa         <  2:249257/150‑1 (MQ=255)

                                                                                                                        aCCATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTGCGCGCCACATCGCCCTGGGCTCCGCTGGCCAGTTGCACCTCCAGGAACggg     <  2:771052/150‑1 (MQ=255)

                                                                                                                         ccATCTCCACGATGCCCAACGCACGGCGC‑CCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTGCGCGCCACATCGCCCTGGGCTCCGCTGGCCAGTTGCACCTCCAGGAACGGGTa   <  1:280510/150‑1 (MQ=255)

                                                                                                                          cATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTGCGCGCCACATCGCCCTGGGCTCCGCTGGCCAGTTGCACCTCCAGGAACGGGTa   >  2:131232/1‑150 (MQ=255)

                                                                                                                          cATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTGCGCGCCACATCGCCCTGGGCTCCGCTGGCCAGTTGCACCTCCAGGAACGGGTa   >  1:789953/1‑150 (MQ=255)

                                                                                                                          cATCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTGCGCGCCACATCGCCCTGGGCTCCGCTGGCCAGTTGCACCTCCAGGAACGGGTa   >  2:151829/1‑150 (MQ=255)

                                                                                                                           aTCTCCACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTGCGCGCCACATCGCCCTGGGCTCCGCTGGCCAGTTGCACCTCCAGGAACGGGTAg  <  2:829714/150‑1 (MQ=255)

                                                                                                                                cACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTGCGCGCCACATCGCCCTGGGCTCCGCTGGCCAGTTGCACCTCCAGGAACgg      >  1:68338/1‑141 (MQ=255)

                                                                                                                                cACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTGCGCGCCACATCGCCCTGGGCTCCGCTGGCCAGTTGCACCTCCAGGAACgg      <  2:68338/141‑1 (MQ=255)

                                                                                                                                cACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTGCGCGCCACATCGCCCTGGGCTCCGCTGGCCAGTTGCACCTCCAGGAACg       >  2:112333/1‑140 (MQ=255)

                                                                                                                                cACGATGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTGCGCGCCACATCGCCCTGGGCTCCGCTGGCCAGTTGCACCTCCAGGAACg       <  1:112333/140‑1 (MQ=255)

GCCTCGCCGCCGGGGTAACCGCTTTGTTGTGGCGTGATCAGCAACTGCCGGTGGCGGGCCAATTGTTGGCGGGTGACCCGGCCTTCGCCCGCCAGCGGGTGGCCGACCGCGCACACCGTGACCATCTCCACGCTGCCCAACGCACGGCGCTCCAAGGAAGCCGGGATGCTTTCGTGGAGGAAGAACAGGCCCAGATCGGCGCGCCGCTCCACCAGCTTGCGCGCCACATCGCCCTGGGCTCCGCTGGCCAGTTGCACCTCCAGGAACGGGTAG  >  NC_002947/5609916‑5610188

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A