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 F40 I1 R2	9	47.0	1202306	84.5%	1015948	134.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP000730	1,744,428	T→C	K82E (AAA→GAA)	apt ←	adenine phosphoribosyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	1,744,428	0	T	C	84.6%	88.8 / 4.8	39	K82E (AAA→GAA)	apt	adenine phosphoribosyltransferase
Reads supporting (aligned to +/- strand): ref base T (4/2); new base C (15/18); total (19/20)
Fisher's exact test for biased strand distribution p-value = 4.07e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTG  >  CP000730/1744291‑1744565

aaTCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACATGGTTTAATTGCATCTTAGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTcccc                                                                                                                                        <  2:515567/141‑1 (MQ=255)

  tCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTCCCctt                                                                                                                                      >  1:411082/1‑141 (MQ=255)

       ccaccaGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTCCCCTTCtttt                                                                                                                                 <  1:225255/141‑1 (MQ=255)

                 cTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTCCCCTTCTTTTCTAACaatga                                                                                                                       >  2:356237/1‑137 (MQ=255)

                 cTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTCCCCTTCTTTTCTAACAGGTg                                                                                                                       >  2:560183/1‑141 (MQ=255)

                  taataaATCATCTGTAATTAACACACGTTGACCTGGATTAATTGCATCTTTATGCATTGTTAAAACATTTGTACCATATTCTCGGTCATACTCATAACCAATGACTTCACGAATTGATTTGCCTGCTTTTCTAACATGttc                                                                                                                      >  2:546690/1‑139 (MQ=255)

                                tAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCa                                                                                                        <  2:561180/141‑1 (MQ=255)

                                     aaCACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGa                                                                                                    >  2:170824/1‑140 (MQ=255)

                                     aaCACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGaa                                                                                                   <  2:310926/141‑1 (MQ=255)

                                     aaCACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGaa                                                                                                   <  1:68870/141‑1 (MQ=255)

                                     aaCACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTGAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGa                                                                                                    <  1:170824/140‑1 (MQ=255)

                                          acGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGc                                                                                              <  1:453711/141‑1 (MQ=255)

                                             ttGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTAc                                                                                           <  1:273596/141‑1 (MQ=255)

                                               gACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAg                                                                                         <  2:195861/141‑1 (MQ=255)

                                                     gTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGc                                                                                   >  1:133200/1‑141 (MQ=255)

                                                      tttAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGcc                                                                                  <  1:408872/141‑1 (MQ=255)

                                                          aTTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATg                                                                              >  1:188515/1‑141 (MQ=255)

                                                                tCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAg                                                                        >  2:231372/1‑141 (MQ=255)

                                                                tCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGGAATGCCCCTTCTTTTCTAACAGGTGCAAATCCACTCCACATTGAAACAGCTGCGGGACAGCCAATGATAAAg                                                                        >  2:599324/1‑141 (MQ=255)

                                                                                aaaCATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTc                                                        <  1:514342/141‑1 (MQ=255)

                                                                                aaaCATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTc                                                        <  1:370486/141‑1 (MQ=255)

                                                                                      ttGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAAt                                                                               >  1:448085/1‑112 (MQ=255)

                                                                                      ttGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAAt                                                                               <  2:448085/112‑1 (MQ=255)

                                                                                                   tAGGTCATACTCATAACGAATGCCTTCACGAGGTATTTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGGATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACAtc                                     >  1:288880/1‑141 (MQ=255)

                                                                                                   tAGGTCATACTCATAACGAATGACTTCACGAGGTAATTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACAtc                                     >  1:551336/1‑141 (MQ=255)

                                                                                                    aGGTCATACTCATAACGAATGACTTCACGAGGTAATTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACAtct                                    <  2:579515/141‑1 (MQ=255)

                                                                                                     ggTCATACTCATAACGAATGACTTCACGAGGTAATTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACAtctc                                   >  1:471486/1‑141 (MQ=255)

                                                                                                      gTCATACTCATAACGAATGACTTCACGAGGTAATTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATctct                                  <  2:188515/141‑1 (MQ=255)

                                                                                                                tAACGAATGACTTCACGAGGTAATTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCg                        <  2:506013/141‑1 (MQ=255)

                                                                                                                    gAATGACTTCACGAGGTAATTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTAtt                    >  1:236641/1‑141 (MQ=255)

                                                                                                                      aTGACTTCACGAGGTAATTCCCCTTCTTTTCTAACAGGTGCAAAGACAATCCCCATTGa                                                                                                    >  1:301547/1‑59 (MQ=255)

                                                                                                                      aTGACTTCACGAGGTAATTCCCCTTCTTTTCTAACAGGTGCAAAGACAATCCCCATTGa                                                                                                    <  2:301547/59‑1 (MQ=255)

                                                                                                                        gACTTCACGAGGTAATTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAAc                                                 <  1:348955/108‑1 (MQ=255)

                                                                                                                        gACTTCACGAGGTAATTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAAc                                                 >  2:348955/1‑108 (MQ=255)

                                                                                                                             cACGAGGTAATTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAAttt           >  1:274557/1‑141 (MQ=255)

                                                                                                                             cACGAGCTAATTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAAttt           <  1:190015/141‑1 (MQ=255)

                                                                                                                              aCGAGGTAATTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGAt                                                                            <  1:63865/75‑1 (MQ=255)

                                                                                                                              aCGAGGTAATTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGAt                                                                            >  2:63865/1‑75 (MQ=255)

                                                                                                                                  ggTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCt      >  2:242308/1‑141 (MQ=255)

                                                                                                                                      aTTCCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTg  <  1:468636/141‑1 (MQ=255)

AATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTG  >  CP000730/1744291‑1744565

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