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
A5 F43 I1 R1	9	18.9	431162	94.5%	407448	140.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	1,744,314	A→C	L120V (TTA→GTA)	apt ←	Adenine phosphoribosyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	1,744,314	0	A	C	100.0%	61.7 / NA	21	L120V (TTA→GTA)	apt	Adenine phosphoribosyltransferase
Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (12/9); total (12/9)

AATCTTTAATTTTTTCAATACCATTTAAATATTTCAATTCAATTATAAATGCAATACCTACTA‑CGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGG  >  USA300TCH1516_ALE/1744188‑1744446

aaTCTTTAATTTTTTCAATACCATTTAAATATGTCAATTCAATTATAAATGCAATACCTACTA‑CGATACCGCCCAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATACATCATTTGTAATTa                                                                                                                        >  2:189418/1‑141 (MQ=255)

 aTCTTTAATTTTTTCAATACCATTTAAATATTTCAATTCAATTATAAATGCAATACCTACTA‑CGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCCATCGTACTACTAGTCGCTAATACATCATCTGTAATTat                                                                                                                       >  1:60655/1‑140 (MQ=255)

       aaTTTTTTCAATACCATTTAAATATTTCAATTCAATTATAAATGCAATACCTACTA‑CGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATACATCATCTGTAATTAACACACg                                                                                                                 <  1:125121/141‑1 (MQ=255)

       aaTTTTTTCAATACCATTTAAATATTTCAATTCAATTATAAATGCAATACCTACTA‑CGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATACATCATCTGTAATTAACACACg                                                                                                                 <  1:95143/141‑1 (MQ=255)

                            atatTTCAATTCAATTATAAATGCAATACCTACTA‑CGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATACATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATc                                                                                            >  1:123760/1‑141 (MQ=255)

                               tttCAATTCAATTATAAATGCAATACCTACTA‑CGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATACATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCttt                                                                                         <  1:177142/141‑1 (MQ=255)

                                       caattATAAATGCAATACCTACTACCGAGA‑AACCGAATTTTTCAACTAATTTTATTGCTCCATCAATCGTACCACAATTAGCTAATACATCAGCTTTAATTCACACCCGTTAACCCGCTTTAACTCCATCGTTGTGCAtct                                                                                 >  2:107314/1‑139 (MQ=255)

                                        aattATAAATGCAATACCTACTA‑CGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATACATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGt                                                                                <  1:209101/141‑1 (MQ=255)

                                             taAATGCAATACCTACTA‑CGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCCCCAGTAGCTAATACATCATCTGTAATTAACACACGTTGACCTGCTTTAATTGCATCTTTGTGCATTGTTaaaa                                                                           <  1:119221/141‑1 (MQ=255)

                                             taAATGCAATACCTACTA‑CGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATACATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTaaaa                                                                           <  1:59089/141‑1 (MQ=255)

                                              aaaTGCAATACCTACTA‑CGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATACATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAAc                                                                          >  1:189330/1‑141 (MQ=255)

                                                 tGCAATACCTACTA‑CGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATACATCATCTGTAATTACCACACGTTGACCTCGTTTATTTGCATCTTTGTCCATTGTTCAAACAtt                                                                       >  1:22958/1‑141 (MQ=255)

                                                              a‑cGATACCGCCTAATTTTTCAACTAATTTTATTGCTACTTCAATCGTACTACCAGTAGCTAATACATTATCTGTAATTAATACACGTTGACCTGGTTTAATTTCCTCTTTTTGCCTTCTTAAAACATTTATACCATATTCt                                                          >  2:124272/1‑141 (MQ=255)

                                                                cGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATACATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCCTTGATAAGACAGTTGTACCCTATTCTa                                                         >  1:29101/1‑141 (MQ=255)

                                                                  aTACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATACATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAATACATTTGTACCATATTCTAgg                                                       >  2:202959/1‑141 (MQ=255)

                                                                      cGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATACATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAAAATTTGTACTATATTCTAGGTCAt                                                   >  1:190431/1‑141 (MQ=255)

                                                                         cTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATACATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTATGCATTGTTAAAACCTTTGTACCATATTCCAGGTCATACt                                                >  2:77303/1‑141 (MQ=255)

                                                                                         ttttATTGCTGCTTCAATCGTACCACCAGTAGCTAATACATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTc                                <  2:138282/141‑1 (MQ=255)

                                                                                                                caccaGTAGCTAATACATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTc         <  1:149617/141‑1 (MQ=255)

                                                                                                                     gTAGCTAATACATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACa    >  1:67926/1‑141 (MQ=255)

                                                                                                                       aGCTAATACATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAgg  <  2:199233/141‑1 (MQ=255)

AATCTTTAATTTTTTCAATACCATTTAAATATTTCAATTCAATTATAAATGCAATACCTACTA‑CGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGG  >  USA300TCH1516_ALE/1744188‑1744446

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A