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 F1 I0 R1	4577	57.4	3436498	77.7%	2670158	63.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	2,399,890	A→G	47.4%	G247G (GGT→GGC)	uvrD ←	DNA‑dependent ATPase I and helicase II

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	2,399,890	0	A	G	47.4%	‑2.5 / 48.7	57	G247G (GGT→GGC)	uvrD	DNA‑dependent ATPase I and helicase II
Reads supporting (aligned to +/- strand): ref base A (19/11); new base G (18/9); total (37/20)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.25e-02

GAAACGCTGAATATTCTCCACCTGCGCCCCGCGCCAGCCGTAGATTGACTGGTCGTCATCACCGACGATCATCACTTTGCCGGTGTCGCCCGCCAGCAGGCGGATCCACGCG  >  minE/2399830‑2399941

gAAACGCTGAATATTCTCCACCTGCGCCCCGCGCCAGCCGTAGATTGACTGGTCGTCATCACcgacga                                              >  1:2585958/1‑68 (MQ=255)

gAAACGCTGAATATTCTCCACCTGCGCCCCGCGCCAGCCGTAGATTGACTGGTCGTCATCACCGACGat                                             >  1:1031458/1‑69 (MQ=255)

gAAACGCTGAATATTCTCCACCTGCGCCCCGCGCCAGCCGTAGATTGACTGGTCGTCATCACCGACGat                                             >  1:2673898/1‑69 (MQ=255)

gAAACGCTGAATATTCTCCACCTGCGCCCCGCGCCAGCCGTAGATTGACTGGTCGTCATCACCGACGat                                             >  1:3237309/1‑69 (MQ=255)

 aaaCGCTGAATATTCTCCACCTGCGCCCCGCGCCAGCCGTAGATTGACTGGTCGTCATCACCGACGatc                                            >  1:1318700/1‑69 (MQ=255)

 aaaCGCTGAATATTCTCCACCTGCGCCCCGCGCCAGCCGTAGATTGACTGGTCGTCATCACCGACGat                                             >  1:523266/1‑68 (MQ=255)

      cTGAATATTCTCCACCTGCGCCCCGCGCCAGCCGTAGATTGACTGGTCGTCATCACCGACGATCATCAc                                       <  1:2238317/69‑1 (MQ=255)

      cTGAATATTCTCCACCTGCGCCCCGCGCCAGCCGTAGATTGACTGGTCGTCATCACCGACGATCATCAc                                       <  1:1500292/69‑1 (MQ=255)

      cTGAATATTCTCCACCTGCGCCCCGCGCCAGCCGTAGATTGACTGGTCGTCATCACCGACGATCATCAc                                       <  1:1603919/69‑1 (MQ=255)

           tatTCTCCACCTGCGCCCCGCGCCAGCCGTAGATTGACTGGTCGTCATCACCGACGATCATCACTTTGc                                  >  1:2535383/1‑69 (MQ=255)

           tatTCTCCACCTGCGCCCCGCGCCAGCCGTAGATTGACTGGTCGTCATCACCGACGATCATCACTTTGc                                  >  1:3047816/1‑69 (MQ=255)

           tatTCTCCACCTGCGCCCCGCGCCAGCCGTAGATTGACTGGTCGTCATCACCGACGATCATCACTTTGc                                  >  1:385326/1‑69 (MQ=255)

           tatTCTCCACCTGCGCCCCGCGCCAGCCGTAGATTGACTGGTCGTCATCACCGACGATCATCACTTTGc                                  >  1:55108/1‑69 (MQ=255)

           tatTCTCCACCTGCGCCCCGCGCCAGCCGTAGATTGACTGGTCGTCATCACCGACGATCATCACTTTGc                                  >  1:736563/1‑69 (MQ=255)

           tatTCTCCACCTGCGCCCCGCGCCAGCCGTAGATTGACTGGTCGTCATCACCGACGATCATCACTTTGc                                  >  1:1037452/1‑69 (MQ=255)

           tatTCTCCACCTGCGCCCCGCGCCAGCCGTAGATTGACTGGTCGTCATCACCGACGATCATCACTTTGc                                  >  1:908462/1‑69 (MQ=255)

             ttCTCCACCTGCGCCCCGCGCCAGCCGTAGATTGACTGGTCGTCATCACCGACGATCATCACTTTGcc                                 <  1:1637879/68‑1 (MQ=255)

             ttCTCCACCTGCGCCCCGCGCCAGCCGTAGATTGACTGGTCGTCATCACCGACGATCATCACTTTGcc                                 <  1:34626/68‑1 (MQ=255)

             ttCTCCACCTGCGCCCCGCGCCAGCCGTAGATTGACTGGTCGTCATCACCGACGATCATCACTTTGcc                                 <  1:519158/68‑1 (MQ=255)

             ttCTCCACCTGCGCCCCGCGCCAGCCGTAGATTGACTGGTCGTCATCACCGACGATCATCACTTTGcc                                 <  1:3169812/68‑1 (MQ=255)

             ttCTCCACCTGCGCCCCGCGCCAGCCGTAGATTGACTGGTCGTCATCACCGACGATCATCACTTTGcc                                 <  1:2674067/68‑1 (MQ=255)

             ttCTCCACCTGCGCCCCGCGCCAGCCGTAGATTGACTGGTCGTCATCACCGACGATCATCACTTTGCCg                                >  1:2831923/1‑69 (MQ=255)

             ttCTCCACCTGCGCCCCGCGCCAGCCGTAGATTGACTGGTCGTCATCACCGACGATCATCACTTTGCCg                                >  1:1019677/1‑69 (MQ=255)

                              gcgcCATCCGTAGATTGACTGGTCGTCATCGCCAACGATCATCACTTTGCCAGTATc                           >  1:2225/1‑57 (MQ=37)

                              gcgcCAGCCGTAGATTGACTGGTCGTCATCGCCAACGATCATCACTTTGCCAgtat                            >  1:9093/1‑54 (MQ=38)

                              gcgcCAGCCGTAGATTGACTGGTCGTCATCGCCAACGATCATCACTTTGCCAgtat                            >  1:3131803/1‑54 (MQ=38)

                              gcgcCAGCCGTAGATTGACTGGTCGTCATCGCCAACGATCATCACTTTGCCAGTATc                           >  1:1397561/1‑57 (MQ=38)

                              gcgcCAGCCGTAGATTGACTGGTCGTCATCGCCAACGATCATCACTTTGCCAGTATc                           >  1:352519/1‑57 (MQ=38)

                              gcgcCAGCCGTAGATTGACTGGTCGTCATCGCCAACGATCATCACTTTGCCAGTATc                           >  1:1795127/1‑57 (MQ=38)

                              gcgcCAGCCGTAGATTGACTGGTCGTCATCGCCAACGATCATCACTTTGCCAGTATc                           >  1:3360753/1‑57 (MQ=38)

                              gcgcCAGCCGTAGATTGACTGGTCGTCATCGCCAACGATCATCACTTTGCCAGTATc                           >  1:2558791/1‑57 (MQ=38)

                              gcgcCAGCCGTAGATTGACTGGTCGTCATCGCCAACGATCATCACTTTGCCAGTATc                           >  1:1520159/1‑57 (MQ=38)

                              gcgcCAGCCGTAGATTGACTGGTCGTCATCGCCAACGATCATCACTTTGCCAGTATc                           >  1:3136046/1‑57 (MQ=38)

                              gcgcCAGCCGTAGATTGACTGGTCGTCATCGCCAACGATCATCACTTTGCCAGTATc                           >  1:213105/1‑57 (MQ=38)

                              gcgcCAGCCGTAGATTGACTGGTCGTCATCGCCAACGATCATCACTTTGCCAGTATc                           >  1:3004999/1‑57 (MQ=38)

                              gcgcCAGCCGTAGATTGACTGGTCGTCATCGCCAACGATCATCACTTTGCCAGTATc                           >  1:137875/1‑57 (MQ=38)

                              gcgcCAGCCGTAGATTGACTGGTCGTCATCGCCAACGATCATCACTTTGCCAGTATc                           >  1:2850536/1‑57 (MQ=38)

                              gcgcCAGCCGTAGATTGACTGGTCGTCATCGCCAACGATCATCACTTTGCCAGTATc                           >  1:1312417/1‑57 (MQ=38)

                              gcgcCAGCCGTAGATTGACTGGTCGTCATCGCCAACGATCATCACTTTGCCAGTATc                           >  1:2413018/1‑57 (MQ=38)

                              gcgcCAGCCGTAGATTGACTGGTCGTCATCGCCAACGATCATCACTTTGCCAGTATc                           >  1:246978/1‑57 (MQ=38)

                              gcgcCAGCCGTAGATTGACTGGTCGTCATAGCCAACGATCATCACTTTGCCAGTATc                           >  1:2603160/1‑57 (MQ=255)

                                     ccGTAGATTGACTGGTCGTCATCACCGACGATCATCACTTTGCCGGTGTCGCCCGCCAGCAGGCGGATc        <  1:2337523/69‑1 (MQ=255)

                                       gTAGATTGACTGGTCGTCATCACCGACGATCATCACTTTGcc                                 >  1:1367643/1‑42 (MQ=255)

                                       gTAGATTGACTGGTCGTCATCACCGACGATCATCACTTTGCCGGTGTcgcc                        >  1:1862475/1‑51 (MQ=255)

                                       gTAGATTGACTGGTCGTCATCACCGACGATCATCACTTTGCCGGTGTCGCCCGCCAGCAGGCGGATCCa      >  1:3225176/1‑69 (MQ=255)

                                       gTAGATTGACTGGTCGTCATCACCGACGATCATCACTTTGCCGGTGTCGCCCGCCAGCAGGCGGATCCa      >  1:2613707/1‑69 (MQ=255)

                                            ttGACTGGTCGTCATCGGCAACGATCATCACTTTGCCAGTATCGCCTGCCAGCAGTCGGATCCAcgcg  <  1:2000434/68‑1 (MQ=255)

                                            ttGACTGGTCGTCATCGCCAACGATCATCACTTTGCCAGTATCGCCTGCCAGCAGTCGGATCCAcgcg  <  1:410985/68‑1 (MQ=255)

                                            ttGACTGGTCGTCATCGCCAACGATCATCACTTTGCCAGTATCGCCTGCCAGCAGTCGGATCCAcgcg  <  1:2989401/68‑1 (MQ=255)

                                            ttGACTGGTCGTCATCGCCAACGATCATCACTTTGCCAGTATCGCCTGCCAGCAGTCGGATCCAcgcg  <  1:521089/68‑1 (MQ=255)

                                            ttGACTGGTCGTCATCGCCAACGATCATCACTTTGCCAGTATCGCCTGCCAGCAGTCGGATCCAcgcg  <  1:2985619/68‑1 (MQ=255)

                                            ttGACTGGTCGTCATCGCCAACGATCATCACTTTGCCAGTATCGCCTGCCAGCAGTCGGATCCAcgcg  <  1:2785107/68‑1 (MQ=255)

                                            ttGACTGGTCGTCATCGCCAACGATCATCACTTTGCCAGTATCGCCTGCCAGCAGTCGGATCCAcgcg  <  1:2690590/68‑1 (MQ=255)

                                            ttGACTGGTCGTCATCGCCAACGATCATCACTTTGCCAGTATCGCCTGCCAGCAGTCGGATCCAcgcg  <  1:92951/68‑1 (MQ=255)

                                            ttGACTGGTCGTCATCGCCAACGATCATCACTTTGCCAGTATCGCCTGCCAGCAGTCGGATCCAcgcg  <  1:944340/68‑1 (MQ=255)

                                            ttGACTGGTCGTCATCACCGACGATCATCACTTTGCCGGTGTCGCCCGCCAGCAGGCGGATCCAcgcg  <  1:1019526/68‑1 (MQ=255)

                                             tGACTGGTCGTCATCACCGACGATCATCACTTTGCCGGTGTCGCCCGCCAGCAGGCGGATCCAcgcg  <  1:613475/67‑1 (MQ=255)

GAAACGCTGAATATTCTCCACCTGCGCCCCGCGCCAGCCGTAGATTGACTGGTCGTCATCACCGACGATCATCACTTTGCCGGTGTCGCCCGCCAGCAGGCGGATCCACGCG  >  minE/2399830‑2399941

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A