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
A1 F1 I2 R1	765	46.1	2269152	93.8%	2128464	105.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,639,030	C→T	166 (TAG→TAA)	rzpQ ←	Rz‑like protein, Qin prophage

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,639,030	0	C	T	100.0%	73.1 / NA	24	166 (TAG→TAA)	rzpQ	Rz‑like protein, Qin prophage
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (11/13); total (11/13)

TTAAGACCTTTTATCTTACCCTTAAGATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCCTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGTAGCGTTCGTCAGCAATTTCAGCATAAAGCTGAGCTTCTGCTGCAATATCTCCGAGCAT  >  NC_000913/1638920‑1639152

ttAAGACCTTTTATCTTACCCTTAAGATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAg                                                                                                <  2:65070/139‑1 (MQ=255)

       cTTTTATCTTACCCTTAAGATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATa                                                                                         <  1:902918/139‑1 (MQ=255)

       cTTGTATCTTTCCCTTTAGATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATa                                                                                         <  1:1040974/139‑1 (MQ=255)

         tttATCTTACCCTTAATATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAg                                                                                        <  1:7624/138‑1 (MQ=255)

         tttATCTTACCCTTAAGATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTa                                                                                                          >  1:256038/1‑120 (MQ=255)

         tttATCTTACCCTTAAGATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTa                                                                                                          <  2:256038/120‑1 (MQ=255)

         tttATCTTACCCTTAAGATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAg                                                                                        >  2:7624/1‑138 (MQ=255)

         tttATCTTACCCTTAAGATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGa                                                                                       >  2:609028/1‑139 (MQ=255)

                       aaGATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTAt                                                                                                         >  1:640066/1‑107 (MQ=255)

                       aaGATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTAt                                                                                                         <  2:640066/107‑1 (MQ=255)

                            ttCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGa                                                                                                                   >  1:1036639/1‑92 (MQ=255)

                            ttCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGa                                                                                                                   <  2:1036639/92‑1 (MQ=255)

                                                           tttatttaAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGTAGCGTTCGTCAGCAATTTCAGCa                                     >  1:642955/1‑139 (MQ=255)

                                                                               cgcgATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGTAGCGTTCGTCAGCAATTTCAGCATAAAGCTGAGCtt                        >  2:785019/1‑132 (MQ=255)

                                                                               cgcgATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGTAGCGTTCGTCAGCAATTTCAGCATAAAGCTGAGCtt                        <  1:785019/132‑1 (MQ=255)

                                                                                    tGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGTAGCGTTCGTCAGc                                               >  2:848877/1‑104 (MQ=255)

                                                                                    tGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGTAGCGTTCGTCAGc                                               <  1:848877/104‑1 (MQ=255)

                                                                                        aaTGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGTAGCGTTCGTCAGCAATTTCAGCATAAAGCTGAGCTTCTGCTGCAATATCTcc        <  1:983224/139‑1 (MQ=255)

                                                                                            ttCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGTAGCGTTCGTCAGCAATTTCAGCATAAAGCTGAGCTTCTGCTGCAATATCTCCGAGc    <  1:609028/139‑1 (MQ=255)

                                                                                              ccGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTaaa                                                                                                 <  2:254697/44‑1 (MQ=255)

                                                                                              ccGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTaaa                                                                                                 >  1:254697/1‑44 (MQ=255)

                                                                                              ccGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGTAGCGTTCGTCAGCAATTTCAGCATAAAGCTg                             >  1:828158/1‑112 (MQ=255)

                                                                                              ccGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGTAGCGTTCGTCAGCAATTTCAGCATAAAGCTg                             <  2:828158/112‑1 (MQ=255)

                                                                                              ccGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGTAGCGTTCGTCAGCAATTTCAGCATAAAGCTGAGCTTCTGCTGCAATATCTCCGAGCAt  >  1:962456/1‑139 (MQ=255)

TTAAGACCTTTTATCTTACCCTTAAGATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCCTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGTAGCGTTCGTCAGCAATTTCAGCATAAAGCTGAGCTTCTGCTGCAATATCTCCGAGCAT  >  NC_000913/1638920‑1639152

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A