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
A20 F48 I1 R1	52	61.9	2103308	98.8%	2078068	139.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,252,926	C→A	R141R (CGA→AGA)	ubiC →	chorismate lyase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,252,926	0	C	A	97.5%	125.8 / NA	40	R141R (CGA→AGA)	ubiC	chorismate lyase
Reads supporting (aligned to +/- strand): ref base C (0/0); major base A (27/12); minor base T (1/0); total (28/12)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CCTGTGTCAACGTTAAGCGGGCCGGAGCTGGCGTTACAAAAATTGGGTAAAACGCCGTTAGGACGCTATCTGTTCACATCATCGACATTAACCCGGGACTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGCGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGAAAAAAATATGGAGTGGAGTCTGACGCAGAATAAGCTGCTGGCGTTTCAT  >  NC_000913/4252791‑4253057

ccTGTGTCAACGTTAAGCGGGCCGGAGCTGGCGTTACAAAAATTGGGTAAAACGCCGTTAGGACGCTATCTGTTCACATCATCGACATTAACCCGGGACTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACg                                                                                                                                 >  2:150547/1‑140 (MQ=255)

   gtgtCAACGTTAAGCGGGCCGGGGCTGGCGTTACAAAAATTGGGAAAACCGCCGTTAGGACGCTATCTGTTCACATCATCGACATTACCCGGGGCCTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTc                                                                                                                              <  2:271681/140‑1 (MQ=255)

        aaCGTTAAGCGGGCCGGAGCTGGCGTTACAAAAATTGGGTAAAACGCCGTTAGGACGCTATCTGTTCACATCATCGACATTAACCCGGGACTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGcc                                                                                                                         >  1:536088/1‑140 (MQ=255)

         aCGTTAAGCGGTCCGGAGCTGGCGTTACATAAATTGGGTAAAACGCCGTTAGGACGCTATCTGTTCACATCATCGACATTAACCCGGGACTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCt                                                                                                                        >  1:19261/1‑140 (MQ=255)

                   ggCCGGAGCTGGCGTTACAAAAATTGGGTAAAACGCCGTTAGGACGCTATCTGTTCACATCATCGACATTAACCCGGGACTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGc                                                                                                              >  2:865613/1‑140 (MQ=255)

                    gCCGGAGCTGGCGTTACAAAAATTGGGTAAAACGCCGTTAGGACGCTATCTGTTCACATCATCGACATTAACCCGGGACTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCg                                                                                                             >  2:989781/1‑140 (MQ=255)

                            tGGCGTTACAAAAATTGGGTAAAACGCCGTTAGGACGCTATCTGTTCACATCATCGACATTAACCCGGGACTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCg                                                                                                     <  1:150547/140‑1 (MQ=255)

                              gCGTTACAAAAATTGGGTAAAACGCCGTTAGGACGCTATCTGTTCACATCATCGACATTAACCCGGGACTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCt                                                                                                   >  2:890840/1‑140 (MQ=255)

                                           ggggTAAAACGCCGTTAGGACGCTATCTGTACACATCATATAAATTAACCGGGGACTTTATTGAGATGGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGaa                                                                                      <  2:676474/139‑1 (MQ=255)

                                                     gCCGTTAGGACGCTATCTGTTCACATCATCGACATTAACCCGGGACTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTAc                                                                            <  2:536088/140‑1 (MQ=255)

                                                             gACGCTATCTGTTCACATCATCGACATTAACCCGGGACTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCa                                                                    <  1:890840/140‑1 (MQ=255)

                                                               atgtATCTGTTCACATAATCGACTTTACCCCGGGACTTAATGGAGGAAGTCCGTGATGCCGGGGAGTGGGGGGGAGGTAGCCGCCTGCGATTAAGCGGTAAACCGGTGTTGCTAAAAGAACTGTATTTACCGGCGTCAcc                                                                  <  2:542782/137‑1 (MQ=255)

                                                                 cTATCTGTTCACATCATAGAAATTACCCCGGGACTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGt                                                                <  1:930741/140‑1 (MQ=255)

                                                                    tCTGTTCACATCATCGACATTAACCCGGGGCTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGt                                                             >  2:470844/1‑140 (MQ=255)

                                                                    tCTGTTCACATCATCGACATTAACCCGGGACTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGt                                                             >  2:327578/1‑140 (MQ=255)

                                                                       gTTCACATCATCGACATTAACCCGGGACTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACt                                                          >  2:765764/1‑140 (MQ=255)

                                                                       gTTCACATCATCGACATTAACCCGGGACTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACt                                                          >  2:831909/1‑140 (MQ=255)

                                                                            catcatCGACATTAACCCGGGACTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAagag                                                     >  2:395748/1‑140 (MQ=255)

                                                                              tcatcGACATTAACCCGGGACTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGa                                                   >  1:479214/1‑140 (MQ=255)

                                                                                atcGACATTAACCCGGGACTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGaaa                                                 >  1:713454/1‑140 (MQ=255)

                                                                                atcGACATTAACCCGGGACTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGaaa                                                 <  1:62970/140‑1 (MQ=255)

                                                                                atcGACATTAACCCGGGACTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGaaa                                                 <  1:989781/140‑1 (MQ=255)

                                                                                 tcGACATTAACCCGGGACTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGaaaa                                                >  1:120955/1‑140 (MQ=255)

                                                                                       ttAACCCGGGACTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGAAAAAAatat                                          >  1:311833/1‑140 (MQ=255)

                                                                                             cGGGACTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGAAAAAAATAtggagtg                                    <  1:395748/140‑1 (MQ=255)

                                                                                                gACTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGAAAAAAATAtggagtggag                                 >  2:705000/1‑140 (MQ=255)

                                                                                                gACTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGAAAAAAATAtggagtggag                                 >  2:733211/1‑140 (MQ=255)

                                                                                                    ttATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGAAAAAAATATGGAGTGGAGTCTg                             >  2:949840/1‑140 (MQ=255)

                                                                                                      aTTGAGATAGCCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGAAAAAAATATGGAGTGGAGTCTGAc                           <  2:120955/140‑1 (MQ=255)

                                                                                                          agaTAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGAAAAAAATATGGAGTGGAGTCTGACGCAg                       >  2:190132/1‑140 (MQ=255)

                                                                                                            aTAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGAAAAAAATATGGAGTGGAGTCTGACGCAGaa                     >  1:825980/1‑140 (MQ=255)

                                                                                                            aTAGGCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGAAAAAAATATGGAGTGGAGTCTGACGCAGaa                     >  1:659952/1‑140 (MQ=255)

                                                                                                               ggCCGTGATGCCGGGCTGTGGGGGTGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGAAAAAAATATGGAGTGGAGTCTGACGCAGAATaa                  >  2:631359/1‑140 (MQ=255)

                                                                                                               ggCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGAAAAAAATATGGAGTGGAGTCTGACGCAGAATaa                  >  2:360506/1‑140 (MQ=255)

                                                                                                               ggCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGAAAAAAATATGGAGTGGAGTCTGACGCAGAATaa                  >  1:375380/1‑140 (MQ=255)

                                                                                                                gCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGAAAAAAATATGGAGTGGAGTCTGACGCAGAATAAg                 >  1:118222/1‑140 (MQ=255)

                                                                                                                gCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGAAAAAAATATGGAGTGGAGTCTGACGCAGAATAAg                 >  1:427775/1‑140 (MQ=255)

                                                                                                                gCCGTGATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGAAAAAAATATGGAGTGGAGTCTGACGCAGAATAAg                 >  1:71776/1‑140 (MQ=255)

                                                                                                                     gATGCCGGGCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGAAAAAAATATGGAGTGGAGTCTGACGCAGAATAAgctgct            <  2:71776/140‑1 (MQ=255)

                                                                                                                         ccGGGCTGTGGGGAAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGAAAAAAATATGGAGTGGAGTCTGACGCAGAATAAGCTGCTGGCg        <  1:470844/140‑1 (MQ=255)

                                                                                                                            ggCTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGAAAAAAATATGGAGTGGAGTCTGACGCAGAATAAGCTGCTGGCGttt     >  2:533428/1‑140 (MQ=255)

                                                                                                                              cTGTGGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGAAAAAAATATGGAGTGGAGTCTGACGCAGAATAAGCTGCTGGCGTTTCa   >  1:887936/1‑140 (MQ=255)

                                                                                                                               tgtgGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGAAAAAAATATGGAGTGGAGTCTGACGCAGAATAAGCTGCTGGCGTTTCAt  <  2:887936/140‑1 (MQ=255)

                                                                                                                               tgtgGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGAAAAAAATATGGAGTGGAGTCTGACGCAGAATAAGCTGCTGGCGTTTCAt  <  1:733211/140‑1 (MQ=255)

                                                                                                                               tgtgGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGAAAAAAATATGGAGTGGAGTCTGACGCAGAATAAGCTGCTGGCGTTTCAt  <  2:897077/140‑1 (MQ=255)

                                                                                                                               tgtgGGGGAGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGAAAAAAATATGGAGTGGAGTCTGACGCAGAATAAGCTGCTGGCGTTTCAt  <  2:427775/140‑1 (MQ=255)

CCTGTGTCAACGTTAAGCGGGCCGGAGCTGGCGTTACAAAAATTGGGTAAAACGCCGTTAGGACGCTATCTGTTCACATCATCGACATTAACCCGGGACTTTATTGAGATAGGCCGTGATGCCGGGCTGTGGGGGCGACGTTCCCGCCTGCGATTAAGCGGTAAACCGCTGTTGCTAACAGAACTGTTTTTACCGGCGTCACCGTTGTACTAAGAGGAAAAAAATATGGAGTGGAGTCTGACGCAGAATAAGCTGCTGGCGTTTCAT  >  NC_000913/4252791‑4253057

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A