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
A2 F50 I1 R1	170	39.5	1266514	99.2%	1256381	150.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,674,770	T→C	R286R (CGT→CGC)	tqsA →	pheromone AI‑2 transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,674,770	0	T	C	97.5%	126.2 / ‑3.5	40	R286R (CGT→CGC)	tqsA	pheromone AI‑2 transporter
Reads supporting (aligned to +/- strand): ref base T (1/0); new base C (24/15); total (25/15)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.60e-01

AATATTGGTTCAGTCCTCGCGGCAATCCCCCCTATCGCTCAGGTACTGGTGTTTAATGGCTTCTACGAAGCGTTGCTGGTGCTGGCGGGATATCTGCTGATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGTGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAGGACCGGTGGGTATGCTGCTTTCCGTGCCGTTGACAATTATTGTCAAAATTGCGCTTGAACAAACAGCGGGAGGTCAAAGCAT  >  NC_000913/1674624‑1674913

aaTATTGGTTCAGTCCTCGCGGCAATCCCCCCTATCGCTCAGGTACTGGTGTTTAATGGCTTCTACGAAGCGTTGCTGGTGCTGGCGGGCTATCTGCTGATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGCggg                                                                                                                                              >  2:220474/1‑150 (MQ=255)

aaTATTGGTTCAGTCCTCGCGGCAATCCCCCCTATCGCTCAGGTACTGGTGTTTAATGGCTTCTACGAAGCGTTGCTGGTGCTGGCGGGCTATCTGCTGATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGCgg                                                                                                                                               >  2:308179/1‑149 (MQ=255)

   atTGGTTCAGTCCTCGCGGCAATCCCCCCTATCGCTCAGGTACTGGTGTTTAATGGCTTCTACGAAGCGTTGCTGGTGCTGGCGGGATATCTGCTGATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTg                                                                                                                                           <  2:500003/150‑1 (MQ=255)

     tGGTTCAGTCCTCGCGGCAATCCCCCCTATCGCTCAGGTACTGGTGTTTAATGGCTTCTACGAAGCGTTGCTGGTGCTGGCGGGATATCTGCTGATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTgggg                                                                                                                                        >  1:142860/1‑151 (MQ=255)

     tGGTTCAGTCCTCGCGGCAATCCCCCCTATCGCTCAGGTACTGGTGTTTAATGGCTTCTACGAAGCGTTGCTGGTGCTGGCGGGATATCTGCTGATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTggg                                                                                                                                         <  2:157368/150‑1 (MQ=255)

          cAGTCCTCGCGGCAATCCCCCCTATCGCTCAGGTACTGGTGTTTAATGGCTTCTACGAAGCGTTGCTGGTGCTGGCGGGATATCTGCTGATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTc                                                                                                                                   >  1:176657/1‑151 (MQ=255)

            gTCCTCGCGGCAATCCCCCCTATCGCTCAGGTACTGGTGTTTAATGGCTTCTACGAAGCGTTGCTGGTGCTGGCGGGATATCTGCTGATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCca                                                                                                                                 <  1:315300/151‑1 (MQ=255)

                    ggCAATCCCCCCTATCGCTCAGGTACTGGTGTTTAATGGCTTCTACGAAGCGTTGCTGGTGCTGGCGGGATATCTGCTGATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCACATtggtg                                                                                                                         <  2:385832/151‑1 (MQ=255)

                          ccccccTATCGCTCAGGTACTGGTGTTTAATGGCTTCTACGAAGCGTTGCTGGTGCTGGCGGGATATCTGCTGATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTAttt                                                                                                                   <  1:390411/151‑1 (MQ=255)

                                     cTCAGGTACTGGTGTTTAATGGCTTCTACGAAGCGTTGCTGGTGCTGGCGGGATATCTGCTGATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGGATTTTTGTCGtt                                                                                                           >  2:629800/1‑148 (MQ=255)

                                       cAGGTACTGGTGTTTAATGGCTTCTACGAAGCGTTGCTGGTGCTGGCGGGATATCTGCTGATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGAttt                                                                                                      >  1:50924/1‑151 (MQ=255)

                                       cAGGTACTGGTGTTTAATGGCTTCTACGAAGCGTTGCTGGTGCTGGCGGGATATCTGCTGATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGAt                                                                                                        <  2:194241/149‑1 (MQ=255)

                                          gTACTGGTGTTTAATGGCTTCTACGAAGCGTTGCTGGTGCTGGCGGGATATCTGCTGATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGAtttttt                                                                                                   >  2:174348/1‑151 (MQ=255)

                                               ggTGTTTAATGGCTTCTACGAAGCGTTGCTGGTGCTGGCGGGATATCTGCTGATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGCATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTgggg                                                                                               >  2:418347/1‑150 (MQ=255)

                                                         ggCTTCTACGAAGCGTTGCTGGTGCTGGCGGGGTATCTGCTGATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGGTGgttgtt                                                                                      >  2:352144/1‑149 (MQ=255)

                                                          gCTTCTACGAAGCGTTGCTGGTGCTGGCGGGATATCTGCTGATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAgg                                                                                   >  1:150734/1‑151 (MQ=255)

                                                           cTTCTACGAAGCGTTGCTGGTGCTGGCGGGATATCTGCTGATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCCCATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAgg                                                                                   >  1:336382/1‑150 (MQ=255)

                                                             tCTACGAAGCGTTGCTGGTGCTGGCGGGATATCTGCTGATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAGGAc                                                                                 <  1:115766/150‑1 (MQ=255)

                                                                  gAAGCGTTGCTGGTGCTGGCGGGATATCTGCTGATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAGGACCgg                                                                              >  1:90253/1‑148 (MQ=255)

                                                                         tgctggtgctggCGGGATATCTGCTGATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTTTCGTTGATTTTTTGGGGATGGTTGTTAGGACCGGTGGGTAtgc                                                                     >  2:561260/1‑150 (MQ=255)

                                                                                  tggCGGGATATCTGCTGATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGAGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAGGACCGGTGGGTATGCTGCTTTCCGt                                                           >  1:537674/1‑151 (MQ=255)

                                                                                   ggCGGGATATCTGATGATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAGGACCGGTGGGTATGCTGCTTTCCGTg                                                          >  1:314367/1‑151 (MQ=255)

                                                                                      gggATATCTGCTGATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAGGACCGGTGGGTATGCTGCTTTCCGTGCCg                                                       <  2:311487/151‑1 (MQ=255)

                                                                                         atatCTGCTGATTAATCTTGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAGGACCGGTGGGTATGCTGCTTTCCGTGCCGTTg                                                    <  2:402449/151‑1 (MQ=255)

                                                                                              tgctgATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAGGACCGGTGGGTATGCTGCTTTCCGTGCCGTTGACAat                                               >  1:560292/1‑151 (MQ=255)

                                                                                                           ggTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAGGACCGGTGGGTATGCTGCTTTCCGTGCCGTTGACAATTATTGTCAAAAtt                                  >  2:362426/1‑151 (MQ=255)

                                                                                                                 cGGCAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAGGACCGGTGGGTATGCTGCTTTCCGTGCCGTTGACAATTATTGTCAAAATTGCGCtt                            <  1:213341/151‑1 (MQ=255)

                                                                                                                  ggCAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAGGACCGGTGGGTATGCTGCTTTCCGTGCCGTTGACAATTATTGTCAAAATTGCGCTTg                           <  2:537663/151‑1 (MQ=255)

                                                                                                                    cAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAGGACCGGTGGGTATGCTGCTTTCCGTGCCGTTGACAATTATTGTCAAAATTGCGCt                             <  1:133548/147‑1 (MQ=255)

                                                                                                                    cAATATTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAGGACCGGTGGGTATGCTGCTTTCCGTGCCGTTGACAATTATTGTCAAAATTGCGCt                             >  2:133545/1‑147 (MQ=255)

                                                                                                                      atatTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAGGACCGGTGGGTATGCTGCTTTCCGTGCCGTTGACAATTATTGTCAAAATTGCGCTTGaac                        >  2:88993/1‑150 (MQ=255)

                                                                                                                       tatTCTGGAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAGGACCGGTGGGTATGCTGCTTTCCGTGCCGTTGACAATTATTGTCAAAATTGCGCTTGaaca                       >  1:282007/1‑150 (MQ=255)

                                                                                                                             ggAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAGGACCGGTGGGTATGCTGCTTTCCGTGCCGTTGACAATTATTGTCAAAATTGCGCTTGaacaaaca                   <  1:625941/148‑1 (MQ=255)

                                                                                                                              gAGCCGCGTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAGGACCGGTGGGTATGCTGCTTTCCGTGCCGTTGACAATTATTGTCAAAATTGCGCTTGAACAAACAGCgg               >  1:476690/1‑151 (MQ=255)

                                                                                                                                  cgcgTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAGGACCGGTGGGTATGCTGCTTTCCGTGCCGTTGACAATTATTGTCAAAATTGCGCTTGAACAAACAGCGGGAgg           >  2:309250/1‑151 (MQ=255)

                                                                                                                                     gTATCATGGGGCGTGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAGGACCGGTGGGTATGCTGCTTTCCGTGCCGTTGACAATTATTGTCAAAATTGCGCTTGAACAAACAGCGGGAGGTc         >  2:436172/1‑150 (MQ=255)

                                                                                                                                     gTATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAGGACCGGTGGGTATGCTGCTTTCCGTGCCGTTGACAATTATTGTCAAAATTGCGCTTGAACAAACAGCGGGAGGTCa        <  1:193336/151‑1 (MQ=255)

                                                                                                                                      tATCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAGGACCGGTGGGTATGCTGCTTTCCGTGCCGTTGACAATTATTGTCAAAATTGCGCTTGAACAAACAGCGGGAGGTCa        >  1:482597/1‑150 (MQ=255)

                                                                                                                                        tCATGGGGCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAGGACCGGTGGGTATGCTGCTTTCCGTGCCGTTGACAATTATTGTCAAAATTGCGCTTGAACAAACAGCGGGAGGTCaa       >  1:237524/1‑149 (MQ=255)

                                                                                                                                            ggggCGCGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAGGACCGGTGGGTATGCTGCTTTCCGTGCCGTTGACAATTATTGTCAAAATTGCGCTTGAACAAACAGCGGGAGGTCAAAGCAt  <  2:482587/150‑1 (MQ=255)

AATATTGGTTCAGTCCTCGCGGCAATCCCCCCTATCGCTCAGGTACTGGTGTTTAATGGCTTCTACGAAGCGTTGCTGGTGCTGGCGGGATATCTGCTGATTAATCTGGTCTTCGGCAATATTCTGGAGCCGCGTATCATGGGGCGTGGGCTGGGGCTTTCCACATTGGTGGTATTTTTGTCGTTGATTTTTTGGGGATGGTTGTTAGGACCGGTGGGTATGCTGCTTTCCGTGCCGTTGACAATTATTGTCAAAATTGCGCTTGAACAAACAGCGGGAGGTCAAAGCAT  >  NC_000913/1674624‑1674913

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A