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
A19 F18 I1 R1	9	51.1	1137152	92.7%	1054139	141.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP000730	1,702,890	A→C	T44T (ACT→ACG)	yqeM ←	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	1,702,890	0	A	C	98.0%	188.6 / ‑6.0	51	T44T (ACT→ACG)	yqeM	hypothetical protein
Reads supporting (aligned to +/- strand): ref base A (0/1); new base C (19/31); total (19/32)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01

GCAAATCAAAAGATGTCATATCTCCTTCAAGCCAATTTACATTTGCTGATTTTTGAGCTGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCAGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCAAACCATTTTTCATATGGTTGATCTTGAGTCAATTGATCGTACACTAGGCTCATTTCTGCATATTGCGACAT  >  CP000730/1702754‑1703021

gCAAATCAAAAGATGTCATATCTCCTTCAAGCCAATTTACATTTGCTGATTTTTGAGCTGCAACAGTCAACATATCACCACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTAc                                                                                                                                 <  2:540352/141‑1 (MQ=255)

gCAAATCAAAAGATGTCATATCTCCTTCAAGCCAATTTACATTTGCTGATTTTTGAGCTGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTAc                                                                                                                                 <  2:545611/141‑1 (MQ=255)

gCAAATCAAAAGATGTCATATCTCCTTCAAGCCAATTTACATTTGCTGATTTTTGAGCTGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTAc                                                                                                                                 <  2:540364/141‑1 (MQ=255)

 cAAATCAAAAGATGTCATATCTCCTTCAAGCCAATTTACATTTGCTGATTTTTGAGCTGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTAcc                                                                                                                                <  2:495191/141‑1 (MQ=255)

 cAAATCAAAAGATGTCATATCTCCTTCAAGCCAATTTACATTTGCTGATTTTTGAGCTGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTAcc                                                                                                                                <  2:496676/141‑1 (MQ=255)

      cAAAAGATGTCATATCTCCTTCAAGCCAATTTACATTTGCTGATTTTTGAGCTGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATc                                                                                                                           <  1:20885/141‑1 (MQ=255)

          agagGTCATATCTCCTTCAAGCCAATTTACCTTTGCTGATTTTTGAGCTGCAACAGTCAACATATCAACGCTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAat                                                                                                                       >  2:405904/1‑141 (MQ=255)

              gTCATATCTCCTTCAAGCCAATTTACATTTGCTGATTTTTGAGCTGCAACAGTCAACATATCAACACTTCAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCt                                                                                                                   <  1:200651/141‑1 (MQ=255)

              gTCATATCTCCTTCAAGCCAATTTACATTTGCTGATTTTTGAGCTGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCt                                                                                                                   <  2:522157/141‑1 (MQ=255)

              gTCATATCTCCTTCAAGCCAATTTACATTTGCTGATTTTTGAGCTGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCt                                                                                                                   <  2:240083/141‑1 (MQ=255)

              gTCATATCTCCTTCAAGCCAATTTACATTTGCTGATTTTTGAGCTGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCt                                                                                                                   <  1:380991/141‑1 (MQ=255)

                 atatCTCCTTCAAGCCAATTTACATTTGCTGATTTTTGAGCTGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTaaa                                                                                                                >  2:135339/1‑141 (MQ=255)

                          tCAAGCCAATTTACATTTGCTGATTTTTGAGCTGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCACTATCTAACATATTTGAt                                                                                                       >  1:31237/1‑141 (MQ=255)

                           cAAGCCAATTTACATTTGCTGATTTTTGAGCTGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGAtt                                                                                                      <  2:213754/141‑1 (MQ=255)

                                 aaTTTACATTTGCTGATTTTTGAGCTGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCtt                                                                                                <  1:336253/141‑1 (MQ=255)

                                      aCATTTGCTGATTTTTGAGCTGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAg                                                                                           >  1:89852/1‑141 (MQ=255)

                                      aCATTTGCTGATTTTTGAGCTGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAg                                                                                           >  2:538176/1‑141 (MQ=255)

                                       cATTTGCTGATTTTTGAGCTGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGt                                                                                          <  2:272807/141‑1 (MQ=255)

                                       cATTTGCTGATTTTTGAGCTGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGt                                                                                          <  1:462540/141‑1 (MQ=255)

                                       cATTTGCTGATTTTTGAGCTGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGt                                                                                          <  1:208840/141‑1 (MQ=255)

                                                 tttttGAGCTGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTAc                                                                                <  2:303732/141‑1 (MQ=255)

                                                 tttttGAGCTGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTAc                                                                                <  1:42156/141‑1 (MQ=255)

                                                     tGAGCTGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAAtt                                                                            >  1:84815/1‑141 (MQ=255)

                                                     tGAGCTGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAAtt                                                                            <  1:507888/141‑1 (MQ=255)

                                                          tGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCaaa                                                                       >  2:121051/1‑141 (MQ=255)

                                                          tGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCaaa                                                                       >  2:555744/1‑141 (MQ=255)

                                                          tGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCaaa                                                                       >  2:134020/1‑141 (MQ=255)

                                                          tGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCaaa                                                                       <  1:414790/141‑1 (MQ=255)

                                                                    aaCATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCAAACCATTTTTCa                                                             <  1:228196/141‑1 (MQ=255)

                                                                    aaCATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCAAACCATTTTTCa                                                             <  2:17382/141‑1 (MQ=255)

                                                                     aCATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCAAACCATTTTTCat                                                            >  1:350932/1‑141 (MQ=255)

                                                                          tCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCAAACCATTTTTCATATGGt                                                       <  1:127299/141‑1 (MQ=255)

                                                                              cacTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCAAACCATTTTTCATATGGTTGAt                                                   >  1:194194/1‑141 (MQ=255)

                                                                               acTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCAAACCATTTTTCATATGGTTGATc                                                  >  2:131427/1‑141 (MQ=255)

                                                                               acTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCAAACCATTTTTCATATGGTTGATc                                                  >  1:135979/1‑141 (MQ=255)

                                                                                     aTCCATACCAGTAACATTACCTAAAGCTTCTAATTGCACTGTTAACATGCGAGTACAGGATACAAGATCTAGCATATTCGATTCATCTTTGCAGTGATTTTTTACAATTTCAAACCATTTTTCATATGGTTGATCTTGAGt                                            <  1:112755/141‑1 (MQ=255)

                                                                                     aTCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCAAACCATTTTTCATATGGTTGATCTTGAGt                                            <  2:444168/141‑1 (MQ=255)

                                                                                         aTACCAGTGGCATTACCTGGAGCTGCTAATTGAGCTGTTAAACTACCCGTACCGCATCCGATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCAAACCATTTTTCATATGGTTGATCTTGAGTCAAt                                        <  2:31237/141‑1 (MQ=255)

                                                                                           aCCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCAAACCATTTTTCATATGGTTGATCTTGAGTCAATTg                                      <  2:191091/141‑1 (MQ=255)

                                                                                            ccAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCAAACCATTTTTCATATGGTTGATCTTGAGTCAATTGa                                     >  2:174326/1‑141 (MQ=255)

                                                                                            ccAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCCAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCAAACCATTTTTCATATGGTTGATCTTGAGTCAATTGa                                     >  2:177796/1‑141 (MQ=255)

                                                                                                  aCATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCAAACCATTTTTCATATGGTTGATCTTTAGTCAATTGATCGTac                               >  1:272585/1‑141 (MQ=255)

                                                                                                  aCATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCAAACCATTTTTCATATGGTTGATCTTGAGTCAATTGATCGTac                               >  1:66320/1‑141 (MQ=255)

                                                                                                  aCATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCAAACCATTTTTCATATGGTTGATCTTGAGTCAATTGATCGTac                               >  1:107136/1‑141 (MQ=255)

                                                                                                  aCATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCAAACCATTTTTCATATGGTTGATCTTGAGTCAATTGATCGTac                               >  1:149874/1‑141 (MQ=255)

                                                                                                   cATTCCCTAAAGCTTCTATTTAATCTGTTAAACTACCCGTACCGCATCCTATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCAAACCATTTTTCATATGGTTGATCTTGAGTCAATTGATCGTaca                              <  2:265720/141‑1 (MQ=255)

                                                                                                   cATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCAAACCATTTTTCATATGGTTGATCTTGAGTCAATTGATCGTaca                              <  2:140524/141‑1 (MQ=255)

                                                                                                   cATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCAAACCATTTTTCATATGGTTGATCTTGAGTCAATTGATCGTaca                              <  2:50474/141‑1 (MQ=255)

                                                                                                                   tAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCAAACCATTTTTCATATGGTTGATCTTGAGTCAATTGATCGTACACTAGGCTCATTTCTGc              <  2:487975/141‑1 (MQ=255)

                                                                                                                   tAATTGAACTGTTAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCAAACCATTTTTCATATGGTTGATCTTGAGTCAATTGATCGTACACTAGGCTCATTTCTGc              <  1:464041/141‑1 (MQ=255)

                                                                                                                               tAAACTACCCGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCAAACCATTTTTCATATGGTTGATCTTGAGTCAATTGATCGTACACTAGGCTCATTTCTGCATATTGCGACAt  <  1:135339/141‑1 (MQ=255)

GCAAATCAAAAGATGTCATATCTCCTTCAAGCCAATTTACATTTGCTGATTTTTGAGCTGCAACAGTCAACATATCAACACTTAAATCCATACCAGTAACATTACCTAAAGCTTCTAATTGAACTGTTAAACTACCAGTACCGCATCCAATATCTAAAATATTTGATTCATCTTTGCAGTGATTTTTTACAATTTCAAACCATTTTTCATATGGTTGATCTTGAGTCAATTGATCGTACACTAGGCTCATTTCTGCATATTGCGACAT  >  CP000730/1702754‑1703021

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