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
A10 F1 I1 R1	77	35.1	1569012	96.6%	1515665	112.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,977,182	Δ1 bp	coding (584/1032 nt)	galR →	galactose‑inducible d‑galactose regulon transcriptional repressor, autorepressor

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,977,182	0	T	.	100.0%	163.5 / NA	38	coding (584/1032 nt)	galR	galactose‑inducible d‑galactose regulon transcriptional repressor, autorepressor
Reads supporting (aligned to +/- strand): ref base T (0/0); new base . (20/18); total (20/18)

ACCGTTGTATTGCTCTGGACGATCGTTACGGTGCCTGGCTGGCAACGCGTCATTTAATTCAGCAAGGTCATACCCGCATTGGTTATCTGTGCTCTAACCACTCTATTTCTGACGCCGAAGATCGTCTGCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGCGGCCAATGACCGGCTGGTGACATTTGGCGAACCAGACGAAAGCGGCGGCGAACAGGCAATGACCGAGCTTTTGGGACGAGGAAG  >  NC_000913/2977056‑2977305

aCCGTTGTATTGCTCTGGACGATCGTTACGGTGCCTGGCTGGCAACGCGTCATTTAATTCAGCAAGGTCATACCCGCATTGGTTATCTGTGCTCTAACCACTCTATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTAc                                                                                                                <  2:2379/139‑1 (MQ=255)

   gTTGTATTGCTCTGGACGATCGTTACGGTGCCTGGCTGGCAACGCGTCATTTAATTCAGCAAGGTCATACCCGCATTGGTTATCTGTGCTCTAACCACTCTATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGAt                                                                                                             <  1:746053/139‑1 (MQ=255)

      gTATTGCTCTGGACGATCGTTACGGTGCCTGGCTGGCAACGCGTCATTTAATTCAGCAAGGTCATACCCGCATTGGTTATCTGTGCTCTAACCACTCTATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGcc                                                                                                          <  2:307468/139‑1 (MQ=255)

                 gACGATCGTTACGGTGCCTGGCTGGCAACGCGTCATTTAATTCAGCAAGGTCATACCCGCATTGGTTATCTGTGCTCTAACCACTCTATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGcc                                                                                                          >  2:634425/1‑128 (MQ=255)

                 gACGATCGTTACGGTGCCTGGCTGGCAACGCGTCATTTAATTCAGCAAGGTCATACCCGCATTGGTTATCTGTGCTCTAACCACTCTATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGcc                                                                                                          <  1:634425/128‑1 (MQ=255)

                         ttACGGTGCCTGGCTGGCAACGCGTCATTTAATTCAGCAAGGTCATACCCGCATTGGTTATCTGTGCTCTAACCACTCTATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTg                                                                                       <  1:275415/139‑1 (MQ=255)

                          tACGGTGCCTGGCTGGCAACGCGTCATTTAATTCAGCAAGGTCATACCCGCATTGGTTATCTGTGCTCTAACCACTCTATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGc                                                                                      <  2:708548/139‑1 (MQ=255)

                                 ccTGGCTGGCAACGCGTCATTTAATTCAGCAAGGTCATACCCGCATTGGTTATCTGTGCTCTAACCACTCTATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGCGGCCAAt                                                                               >  1:50140/1‑139 (MQ=255)

                                  ctggctggCAACGCGTCATTTAATTCAGCAAGGTCATACCCGCATTGGTTATCTGTGCTCTAACCACTCTATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGCGGCCAATg                                                                              >  2:467541/1‑139 (MQ=255)

                                  ctggctggCAACGCGTCATTTAATTCAGCAAGGTCATACCCGCATTGGTTATCTGTGCTCTAACCACTCTATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGCGGCCAATg                                                                              >  2:409048/1‑139 (MQ=255)

                                    ggctggcAACGCGTCATTTAATTCAGCAAGGTCATACCCGCATTGGTTATCTGTGCTCTAACCACTCTATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGa                                                                                                  >  1:476297/1‑117 (MQ=255)

                                    ggctggcAACGCGTCATTTAATTCAGCAAGGTCATACCCGCATTGGTTATCTGTGCTCTAACCACTCTATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGa                                                                                                  <  2:476297/117‑1 (MQ=255)

                                    ggctggcAACGCGTCATTTAATTCAGCAAGGTCATACCCGCATTGGTTATCTGTGCTCTAACCACTCTATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGCGGCCAATGAc                                                                            <  2:50140/139‑1 (MQ=255)

                                        ggcAACGCGTCATTTAATTCAGCAAGGTCATACCCGCATTGGTTATCTGTGCTCTAACCACTCTATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGCGGCCAATGACCGGc                                                                        <  1:493276/139‑1 (MQ=255)

                                         gcAACGCGTCATTTAATTCAGCAAGGTCATACCCGCATTGGTTATCTGTGCTCTAACCACTCTATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTg                                                                                       <  2:357108/123‑1 (MQ=255)

                                         gcAACGCGTCATTTAATTCAGCAAGGTCATACCCGCATTGGTTATCTGTGCTCTAACCACTCTATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTg                                                                                       >  1:357108/1‑123 (MQ=255)

                                               cgTCATTTAATTCAGCAAGGTCATACCCGCATTGGTTATCTGTGCTCTAACCACTCTATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGCGGCCAATGACCGGCTGGTGAc                                                                 >  2:252456/1‑139 (MQ=255)

                                                                 ggTCATACCCGCATTGGTTATCTGTGCTCTAACCACTCTATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAg                                                                                               >  2:52601/1‑91 (MQ=255)

                                                                 ggTCATACCCGCATTGGTTATCTGTGCTCTAACCACGCTATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAg                                                                                               <  1:52601/91‑1 (MQ=255)

                                                                   tCATACCCGCATTGGTTATCTGTGCTCTAACCACTCTATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGCGGCCAATGACCGGc                                                                        <  1:504986/112‑1 (MQ=255)

                                                                   tCATACCCGCATTGGTTATCTGTGCTCTAACCACTCTATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGCGGCCAATGACCGGc                                                                        >  2:504986/1‑112 (MQ=255)

                                                                       aCCCGCATTGGTTATCTGTGCTCTAACCACTCTATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGCGGCCAATGACCGGCTGGTGACATTTGGCGAACCAGACGAAAgcgg                                         <  2:476859/139‑1 (MQ=255)

                                                                                           ctctAACCACTCTATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGCGGCCAATGACCGGc                                                                        <  1:225907/88‑1 (MQ=255)

                                                                                           ctctAACCACTCTATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGCGGCCAATGACCGGc                                                                        >  2:225907/1‑88 (MQ=255)

                                                                                           ctctAACCACTCTATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGCGGCCAATGACCGGCTGGTGACATTTGGCGAACCAGACGAAAGCGGCGGCGAACAGGCAATGACCg                     >  1:129872/1‑139 (MQ=255)

                                                                                                     tctATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGCGGCCGATGACCGGCTGGTGACATTTGGCGAACCAGACGAAAGCGGCGGCGAACAGGCAATGACCGAGCTATTggg           >  1:486961/1‑139 (MQ=255)

                                                                                                     tctATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGCGGCCAATGACCGGc                                                                        >  2:387710/1‑78 (MQ=255)

                                                                                                     tctATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGCGGCCAATGACCGGc                                                                        <  1:387710/78‑1 (MQ=255)

                                                                                                     tctATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGCGGCCAATGACCGGCTGGTGACATTTGGCGAACCAGACGAAAGCGGCGGCGAACAGGCAATGACCGAGCTTTTggg           >  2:194620/1‑139 (MQ=255)

                                                                                                     tctATTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGCGGCCAATGACCGGCTGGTGACATTTGGCGAACCAGACGAAAGCGGCGGCGAACAGGCAATGACCGAGCTTTTggg           >  1:690383/1‑139 (MQ=255)

                                                                                                        aTTTCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGCGGCCAATGACCGGCTGGTGACATTTGGCGAACCAGCCGAAAGCGGCGGCGAACAGGCAATGACCGAGCTTTTGGGACg        >  1:699453/1‑139 (MQ=255)

                                                                                                          ttCTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGCGGCCAATGACCGGCTGGTGACATTTGGCGAACCAGACGAAAGCGGCGGCGAACAGGCAATGACCGAGCTTTTGGGACGAg      >  1:394707/1‑139 (MQ=255)

                                                                                                            cTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTg                                                                                       <  2:368345/56‑1 (MQ=255)

                                                                                                            cTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTg                                                                                       >  1:368345/1‑56 (MQ=255)

                                                                                                            cTGACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGCGGCCAATGACCGGCTGGTGACATTTGGCGAACCAGACGAAAGCGGCGGCGAACAGGCAATGACCGAGCTTTTGGGACGAGga    <  1:373202/139‑1 (MQ=255)

                                                                                                              gACGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGCGGCCAATGACCGGCTGGTGACATTTGGCGAACCAGACGAAAGCGGCGGCGAACAGGCAATGACCGAGCTTTTGGGACGAGgaag  >  2:162129/1‑139 (MQ=255)

                                                                                                               aCGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGCGGCCAATGACCGGCTGGTGACATTTGGCGAACCAGACGAAAGCGGCGGCGAACAGGCaa                           >  2:239166/1‑113 (MQ=255)

                                                                                                               aCGCCGAAGATCGTC‑GCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGCGGCCAATGACCGGCTGGTGACATTTGGCGAACCAGACGAAAGCGGCGGCGAACAGGCaa                           <  1:239166/113‑1 (MQ=255)

ACCGTTGTATTGCTCTGGACGATCGTTACGGTGCCTGGCTGGCAACGCGTCATTTAATTCAGCAAGGTCATACCCGCATTGGTTATCTGTGCTCTAACCACTCTATTTCTGACGCCGAAGATCGTCTGCAAGGGTATTACGATGCCCTTGCTGAAAGTGGTATTGCGGCCAATGACCGGCTGGTGACATTTGGCGAACCAGACGAAAGCGGCGGCGAACAGGCAATGACCGAGCTTTTGGGACGAGGAAG  >  NC_000913/2977056‑2977305

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A