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
A3 F1 I1 R1	781	46.9	2231650	93.5%	2086592	109.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	400,720	C→T	A68A (GCG→GCA)	ddlA ←	D‑alanine‑D‑alanine ligase A

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	400,720	0	C	T	100.0%	90.6 / NA	29	A68A (GCG→GCA)	ddlA	D‑alanine‑D‑alanine ligase A
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (12/17); total (12/17)

GCGTACCGTGGACAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAACGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATGCCCAGCAGCACAACGTCGAAGCGACTTTTATCAATGGCATCGACA  >  NC_000913/400596‑400843

gCGTACCGTGGACAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAgg                                                                                                               <  1:1062647/139‑1 (MQ=255)

gCGTACCGTGGACAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAgg                                                                                                               <  1:293987/139‑1 (MQ=255)

gCGTACCGTGGACAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAgg                                                                                                               <  1:963494/139‑1 (MQ=255)

 cGTACCGTGGACAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGa                                                                                                              >  2:300361/1‑139 (MQ=255)

     ccGTGGACAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGt                                                                                                          <  2:763682/139‑1 (MQ=255)

     ccGTGGACAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGt                                                                                                          <  1:286134/139‑1 (MQ=255)

          gACAATCGGGAAAATGACATCCACCGTCAGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCa                                                                                                     >  2:6107/1‑139 (MQ=255)

               tCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCa                                                                                                     >  2:78150/1‑134 (MQ=255)

               tCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCa                                                                                                     <  1:78150/134‑1 (MQ=255)

               tCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAg                                                                                                <  1:139381/139‑1 (MQ=255)

               tCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAg                                                                                                >  2:112957/1‑139 (MQ=255)

                         gACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTg                                                                                      >  1:839988/1‑139 (MQ=255)

                            aTCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTg                                                                                   <  2:152516/139‑1 (MQ=255)

                               cACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCa                                                                                <  1:1082842/139‑1 (MQ=255)

                                 ccGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATc                                                                              >  2:529329/1‑139 (MQ=255)

                                  cGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCgcaatgcaat                                                                                                                        <  1:912572/96‑1 (MQ=255)

                                  cGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCgcaatgcaat                                                                                                                        >  2:912572/1‑96 (MQ=255)

                                    tCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCt                                                                           >  2:178379/1‑139 (MQ=255)

                                                  ccGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGcc                                                             <  2:345408/139‑1 (MQ=255)

                                                   cGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGccc                                                            <  1:6107/139‑1 (MQ=255)

                                                   cGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGccc                                                            <  2:954088/139‑1 (MQ=255)

                                                                         aTGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATGCCCagcagc                                      >  1:19567/1‑139 (MQ=255)

                                                                                         ggCACCTGCGCAAGGCTGGTCGCCGAAGGGCgcaatgcaat                                                                                                                        >  1:392949/1‑41 (MQ=255)

                                                                                         ggCACCTGCGCAAGGCTGGTCGCCGAAGGGCgcaatgcaat                                                                                                                        <  2:392949/41‑1 (MQ=255)

                                                                                         ggCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCa                                                                                                                 <  1:68410/48‑1 (MQ=255)

                                                                                         ggCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCa                                                                                                                 >  2:68410/1‑48 (MQ=255)

                                                                                            aCCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATGCCCAGCAGCACAACGTCGAAg                          <  2:96760/132‑1 (MQ=255)

                                                                                            aCCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATGCCCAGCAGCACAACGTCGAAg                          >  1:96760/1‑132 (MQ=255)

                                                                                            aCCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATGCCCAGCAGCACAACGTCGAAGCGACttt                   <  1:178379/139‑1 (MQ=255)

                                                                                                           gTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATGCCCAGCAGCACAACGTCGAAg                          <  2:680461/117‑1 (MQ=255)

                                                                                                           gTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATGCCCAGCAGCACAACGTCGAAg                          >  1:680461/1‑117 (MQ=255)

                                                                                                           gTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATGCCCAGCAGCACAACGTCGAAGCGACTTTTATCAATGGCATCGa    >  2:316847/1‑139 (MQ=255)

                                                                                                             cGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATGCCCAGCAGCACAACGTCGAAGCGACTTTTATCAATGGCATCGACa  <  1:419788/139‑1 (MQ=255)

GCGTACCGTGGACAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAACGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATGCCCAGCAGCACAACGTCGAAGCGACTTTTATCAATGGCATCGACA  >  NC_000913/400596‑400843

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 28 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A