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
A15 F177 I1 R2	35	38.3	831348	95.5%	793937	139.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP000730	2,315,088	T→A	K61I (AAA→ATA)	rhbC ←	MFS family major facilitator transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	2,315,088	0	T	A	100.0%	124.9 / NA	36	K61I (AAA→ATA)	rhbC	MFS family major facilitator transporter
Reads supporting (aligned to +/- strand): ref base T (0/0); new base A (17/19); total (17/19)

TCCCTCTTAATGTCGCATATATAATAATGACGCTAATTGGAATTGCAGTGAAACTATACGTGAGCACACATAAAATTGCAGTTACTAAAAATGATGATGAAATTGTAATTCTCAGCAATCGCCCTTTATCATATTTATCGGCAATTGCCCCTGCCCACACACTTAGTAATAATATTGGTACAAGTCTGCAAAAATTGACAATCCCCAGATAAACTGCGTTATGATAAGTGGTAAGTACAAACCAATTTAGCCCTATTTGTCCAATCCAATT  >  CP000730/2314954‑2315224

tCCCTCTTAATGTCGCATATATAATAATGACGCTAATTGGAATTGCAGTGAAACTATACGTGAGCACACATAAAATTGCAGTTACTAAAAATGATGATGAAATTGTAATTCTCAGCAATCGCCCTTTATCATATATATCgg                                                                                                                                    <  2:114765/141‑1 (MQ=255)

        aaTGTCGCATATATAATAATGACGCTAATTGGAATTGCAGTGAAACTATACGTGAGCACACATAAAATTGCAGTTACTAAAAATGATGATGAAATTGTAATTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGcc                                                                                                                            >  2:370584/1‑141 (MQ=255)

         aTGTCGCATATATAATAATGACGCTAATGGGAATTGCAGTGAAACTATACGTGAGCACACATAAAATTGCAGTTACTAAAAATGATGATGAAATTGTAATTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGccc                                                                                                                           <  1:18155/141‑1 (MQ=255)

          tGTCGCATATATAATAATGACGCTAATTGGAATTGCAGTGAAACTATACGTGAGCACACATAAAATTGCAGTTACTAAAAATGATGATGAAATTGTAATTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGcccc                                                                                                                          <  1:56668/141‑1 (MQ=255)

                     taataaTGACGCTAATTGGAATTGCAGTGAAACTATACGTGAGCACACATAAAATTGCAGTTACTAAAAATGATGATGAAATTGTAATTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCTGCCCacacac                                                                                                               >  1:125927/1‑141 (MQ=255)

                        taatGACGCTAATTGGAATTGCAGTGAAACTATACGTGAGCACACATAAAATTGCAGTTACTAAAAATGATGATGAAATTGTAATTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCTGCCCACACACTTa                                                                                                            >  1:181119/1‑141 (MQ=255)

                        taatGACGCTAATTGGAATTGCAGTGAAACTATACGTGAGCACACATAAAATTGCAGTTACTAAAAATGATGATGAAATTGTAATTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCTGCCCACACACTTa                                                                                                            <  2:142244/141‑1 (MQ=255)

                           tGACGCTAATTGGAATTGCAGTGAAACTATACGTGAGCACACATAAAATTGCAGTTACTAAAAATGATGATGAAATTGTAATTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCTGCCCACACACTTAGta                                                                                                         <  2:415372/141‑1 (MQ=255)

                              cGCTAATTGGAATTGCAGTGAAACTATACGTGAGCACACATAAAATTGCAGTTACTAAAAATGATGATGAAATTGTAATTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCTGCCCACACACTTAGtaata                                                                                                      >  2:301442/1‑141 (MQ=255)

                                    ttGGAATTGCAGTGAAACTATACGTGAGCACACATAAAATTGCAGTTACTAAAAATGATGATGAAATTGTAATTCTCAGCAATCGCCCTTTATCGTATATATCNGCAATTGCCCCTGCCCACACACTTAGTAATAATATTg                                                                                                <  1:338569/141‑1 (MQ=255)

                                              aGTGAAGCTATACGTGAGCACACATAAAATTGCAGTTACTAAAAATGATGATGAAATTGTAATTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCTGCCCACACACTTAGTAATAATATTggaaaaaaaat                                                                                      <  2:230686/141‑10 (MQ=255)

                                                tGAAACTATACGTGAGCACACATAAAATTGCAGTTACTAAAAATGATGATGAAATTGTAATTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCTGCCCACACACTTAGTAATAATATTGGTACAAGTCTGc                                                                                    <  1:371073/141‑1 (MQ=255)

                                                tGAAACTATACGTGAGCACACATAAAATTGCAGTTACTAAAAATGATGATGAAATTGTAATTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCTGCCCACACACTTAGTAATAATATTGGTACAAGTCTGc                                                                                    <  1:162187/141‑1 (MQ=255)

                                                       ataCGTGAGCACACATAAAATTGCAGTTACTAAAAATGATGATGAAATTGTAATTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCTGCCCACACACTTAGTAATAATATTGGTACAAGTCTGCAAAAAtt                                                                             >  1:121253/1‑141 (MQ=255)

                                                           gTGAGCACACATAAAATTGCAGTTACTAAAAATGATGATGAAATTGTAATTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCAGCCCACACACTTAGTAATAATATTGGTACAAGTCTGCAAAAATTGACa                                                                         >  2:88010/1‑141 (MQ=255)

                                                                cacacaTAAAATTGCAGTTACTAAAAATGATGATGAAATTGTAATTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCTGCCCACACACTTAGTAATAATATTGGTACAAGTCTGCAAAAATTGACAATccc                                                                    <  2:406348/141‑1 (MQ=255)

                                                                 acacaTAAAATTGCAGTTACTAAAAATGATGATGAAATTGTAATTCTCAGGAATGGCTCTTTATCTTATATGTGGGCTTTTTCTCCTGCCCACACACTTAGTAATAATATTGGTACAAGTCTGCAAAAATTGACAATcccc                                                                   >  1:80693/1‑141 (MQ=255)

                                                                    caTAAAATTGCAGTTACTAAAAATGATGATGAAATTGTAATTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCTGCCCACACACTTAGTAATAATATTGGTACAAGTCTGCAAAAATTGACAATCCCCAGa                                                                >  1:167644/1‑141 (MQ=255)

                                                                    caTAAAATTGCAGTTACTAAAAATGATGATGAAATTGTAATTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCTGCCCACACACTTAGTAATAATATTGGTACAAGTCTGCAAAAATTGACAATCCCCAGa                                                                >  2:277298/1‑141 (MQ=255)

                                                                        aaaTTGCAGTTACTAAAAATGATGATGAAATTGTAATTCTCAGCAATCGCCCTTTATCATATATATCGGCACTTGCCCCTGCCCACACACTTCCTAATAATATTGTTACAAGTTTGCAAAAATTGACTATCCCCAGATaat                                                            <  2:10540/141‑2 (MQ=255)

                                                                           ttGCAGTTACTAAAAATGATGATGAAATCGTAATTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCTGCCCACACACTTAGTAATAATATTGGTACAAGTCTGCAAAAATTGACAATCCCCAGATAAACTg                                                         <  1:367262/141‑1 (MQ=255)

                                                                            tGCAGTTACTAAAAATGATGATGAAATTGTAATTCTCAGCAATCGCCCTTTATCATATATTTTCCCAAAGGCGCCGTGTTACATACTTTGGAATAATATTGGTACAAGTCTGCAAAAATTGACAATCCCCAGATAAACTGc                                                        >  1:80441/1‑141 (MQ=255)

                                                                                       aaaaTGATGATGAAATTGTAATTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCTGCCCACACACTTAGTAATAATATTGGTACAAGTCTGCAAAAATTGACAATCCCCAGATAAACTGCGTTATGATAAg                                             <  1:341179/141‑1 (MQ=255)

                                                                                        aaaTGATGATGAAATTGTAATTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCTGCCCACACACTTAGTAATAATATTGGTACAAGTCTGCAAAAATTGACAATCCCCAGATAAACTGCGTTATGATAAGt                                            >  1:209534/1‑141 (MQ=255)

                                                                                           tgatgatgaAATTGTAATTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCTGCCCACACACTTAGTAATAATATTGGTACAAGTCTGCAAAAATTGACAATCCCCAGATAAACTGCGTTATGATAAGTGGt                                         <  1:254937/141‑1 (MQ=255)

                                                                                            gatgatgaAATTGTAATTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCTGCCCACACACTTAGTAATAATATTGGTAAAAAAAAAAAAAAATTGACAATCCCCAGATAAACTGCGTTATGATAAGTGGTa                                        <  2:267041/141‑1 (MQ=255)

                                                                                               gatgaAATTGTAATTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCTGCCCACACACTTAGTAATAATATTGGTACAAGTCTGCAAAAATTGACAATCCCCAGATAAACTGCGTTATGATAAGTGGTAAGt                                     <  1:272118/141‑1 (MQ=255)

                                                                                                 tgaAATTGTAATTCTCAGCAATCGCCCTTTATCATATATAGCGGCAATTGCCCCTGCCCACACACTTAGTAATAATATTGGTACAAGTCTGCAAAAATTGACAATCACCAGATAAACTGCGTTATGATAAGTGGTAAGTAc                                   >  1:171451/1‑141 (MQ=255)

                                                                                                      ttGTAATTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCTGCCCACACACTTAGTAATAATATTGGTACAAGTCTGCAAAAATTGACAATCCCCAGATAAACTGCGTTATGATAAGTGGTAAGTACAAAcc                              <  2:392348/141‑1 (MQ=255)

                                                                                                          aaTTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCTGCCCACACACTTAGTAATAATATTGGTACAAGTCTGCAAAAATTGACAATCCCCAGATAAACTGCGTTATGATAAGTGGTAAGTACAAACCAAtt                          >  2:74476/1‑141 (MQ=255)

                                                                                                          aaTTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCTGCCCACACACTTAGTAATAATATTGGTACAAGTCTGCAAAAATTGACAATCCCCAGATAAACTGCGTTATGATAAGTGGTAAGTACAAACCAAtt                          >  2:124195/1‑141 (MQ=255)

                                                                                                           aTTCTCAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCTGCCCACACACTTAGTAATAATATTGGTACAAGTCTGCAAAAATTGACAATCCCCAGATAAACTGCGTTATGATAAGTGGTAAGTACAAACCAAttt                         >  2:220192/1‑141 (MQ=255)

                                                                                                               tcAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCTGCCCACACACTTAGTAATAATATTGGTACAAGTCTGCAAAAATTGACAATCCCCAGATAAACTGCGTTATGATAAGTGGTAAGTACAAACCAATTTAGcc                     <  2:127623/141‑1 (MQ=255)

                                                                                                               tcAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCTGCCCACACACTTAGTAATAATATTGGTACAAGTCTGCAAAAATTGACAATCCCCAGATAAACTGCGTTATGATAAGTGGTAAGTACAAACCAATTTAGcc                     >  1:142988/1‑141 (MQ=255)

                                                                                                                cAGCAATCGCCCTTTATCATATATATCGGCAATTGCCCCTGCCCACACACTTAGTAATAATATTGGTACAAGTCTGCAAAAATTGACAATCCCCAGATAAACTGCGTTATGATAAGTGGTAAGTACAAACCAATTTAGccc                    <  1:365242/141‑1 (MQ=255)

                                                                                                                        gCCCTTTATCATATATATCGGCAATTGCCCCTGCCCACACACTTAGTAATAATATTGGTACAAGTCTGCAAAAATTGACAATCCCCAGATAAACTGCGTTATGATAAGTGGTAAGTACAAACCAATTTAGCCCTATTTGtc            >  2:361701/1‑141 (MQ=255)

                                                                                                                                  atatatatCGGCAATTGCCCCTGCCCACACACTTAGTAataata                                                                                                   >  2:180302/1‑44 (MQ=255)

                                                                                                                                  atatatatCGGCAATTGCCCCTGCCCACACACTTAGTAataata                                                                                                   <  1:180302/44‑1 (MQ=255)

                                                                                                                                  atatatatCGGCAATTGCCCCTGCCCACACACTTAGTAATAATATTGGTACAAGTCTGCAAAAATTGACAATCCCCAGATAAACTGCGTTATGATAAGTGGTAAGTACAAACCAATTTAGCCCTATTTGTCCAATCCAAtt  <  1:56213/141‑1 (MQ=255)

TCCCTCTTAATGTCGCATATATAATAATGACGCTAATTGGAATTGCAGTGAAACTATACGTGAGCACACATAAAATTGCAGTTACTAAAAATGATGATGAAATTGTAATTCTCAGCAATCGCCCTTTATCATATTTATCGGCAATTGCCCCTGCCCACACACTTAGTAATAATATTGGTACAAGTCTGCAAAAATTGACAATCCCCAGATAAACTGCGTTATGATAAGTGGTAAGTACAAACCAATTTAGCCCTATTTGTCCAATCCAATT  >  CP000730/2314954‑2315224

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

GATK/CNVnator alignment

N/A