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	1,901,157	G→A	35.8%	I628I (ATC→ATT)	recB ←	exonuclease V (RecBCD complex), beta subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,901,157	0	G	A	35.8%	42.2 / 35.7	64	I628I (ATC→ATT)	recB	exonuclease V (RecBCD complex), beta subunit
Reads supporting (aligned to +/- strand): ref base G (31/10); new base A (14/9); total (45/19)
Fisher's exact test for biased strand distribution p-value = 2.60e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.17e-01

AACCATCGAACTCTTCGACTACCACATCCCACGCATGTTCGTCATTGTTCAGCGTTTCGATATCCAGCGCGTTCAGCCCCATCATTGACGTTGCCAGCGCACTACGCAGGGTGT  >  minE/1901099‑1901212

aaCCATCGAACTCTTCGACTACCACATCCCACGCATGTTCGTCATTGTTCAGCGTTTCGATATCCAgcg                                               >  1:715777/1‑69 (MQ=255)

aaCCATCGAACTCTTCGACTACCACATCCCACGCATGTTCGTCATTGTTCAGCGTTTCGATATCCAgcg                                               >  1:1941883/1‑69 (MQ=255)

aaCCATCGAACTCTTCGACTACCACATCCCACGCATGTTCGTCATTGTTCAGCGTTTCGATATCCAgcg                                               >  1:1972807/1‑69 (MQ=255)

aaCCATCGAACTCTTCGACTACCACATCCCACGCATGTTCGTCATTGTTCAGCGTTTCGATATCCAgcg                                               >  1:2136316/1‑69 (MQ=255)

aaCCATCGAACTCTTCGACTACCACATCCCACGCATGTTCGTCATTGTTCAGCGTTTCGATATCCAgcg                                               >  1:2937659/1‑69 (MQ=255)

aaCCATCGAACTCTTCGACTACCACATCCCACGCATGTTCGTCATTGTTCAGCGTTTCGATATCCAgcg                                               >  1:1710810/1‑69 (MQ=255)

aaCCATCGAACTCTTCGACTACCACATCCCACGCATGTTCGTCATTGTTCAGCGTTTCGATATCCAgcg                                               >  1:1658908/1‑69 (MQ=255)

aaCCATCGAACTCTTCGACTACCACATCCCACGCATGTTCGTCATTGTTCAGCGTTTCGATATCCAgcg                                               >  1:2750194/1‑69 (MQ=255)

aaCCATCGAACTCTTCGACTACCACATCCCACGCATGTTCGTCATTGTTCAGCGTTTCGATATCCAgcg                                               >  1:2938034/1‑69 (MQ=255)

aaCCATCGAACTCTTCGACTACCACATCCCACGCATGTTCGTCATTGTTCAGCGTTTCGATATCCAgcg                                               >  1:3410116/1‑69 (MQ=255)

aaCCATCGAACTCTTCGACTACCACATCCCACGCATGTTCGTCATTGTTCAGCGTTTCGATATCCAgcg                                               >  1:735064/1‑69 (MQ=255)

aaCCATCGAACTCTTCGACTACCACATCCCACGCATGTTCGTCATTGTTCAGCGTTTCGATATCCAgcg                                               >  1:3167896/1‑69 (MQ=255)

aaCCATCGAACTCTTCGACTACCACATCCCACGCATGTTCGTCATTGTTCAGCGTTTCGATATCCAgcg                                               >  1:971237/1‑69 (MQ=255)

aaCCATCGAACTCTTCGACTACCACATCCCACGCATGTTCGTCATTGTTCAGCGTTTCGATATCCAgcg                                               >  1:1242357/1‑69 (MQ=255)

aaCCATCGAACTCTTCGACTACCACATCCCACGCATGTTCGTCATTGTTCAGCGTTTCGATATCCAgcg                                               >  1:2603492/1‑69 (MQ=255)

aaCCATCGAACTCTTCGACTACCACATCCCACGCATGTTCGTCATTGTTCAGCGTTTCGATATCCAgcg                                               >  1:3273643/1‑69 (MQ=255)

aaCCATCGAACTCTTCGACTACCACATCCAACGCATGTTCGTCATTGTTCAGCGTATCGATATCCAgcg                                               >  1:1415872/1‑69 (MQ=255)

            ctTCGACTACCGCATCCCACGCATGTTCGTCATTATTCAGCGTTTCAATATCCAGCGCATTCAGCCCca                                   <  1:582955/69‑1 (MQ=255)

            ctTCGACTACCGCATCCCACGCATGTTCGTCATTATTCAGCGTTTCAATATCCAGCGCATTCAGCCCca                                   <  1:2321438/69‑1 (MQ=255)

            ctTCGACTACCGCATCCCACGCATGTTCGTCATTATTCAGCGTTTCAATATCCAGCGCATTCAGCCCca                                   <  1:1152314/69‑1 (MQ=255)

            ctTCGACTACCGCATCCCACGCATGTTCGTCATTATTCAGCGTTTCAATATCCAGCGCATTCAGCCCca                                   <  1:2185511/69‑1 (MQ=255)

            ctTCGACTACCGCATCCCACGCATGTTCGTCATTATTCAGCGTTTCAATATCCAGCGCATTCAGCCCca                                   <  1:2745888/69‑1 (MQ=255)

            ctTCGACTACCGCATCCCACGCATGTTCGTCATTATTCAGCGTTTCAATATCCAGCGCATTCAGCCCca                                   <  1:1957973/69‑1 (MQ=255)

            ctTCGACTACCGCATCCCACGCATGTTCGTCATTATTCAGCGTTTCAATATCCAGCGCATTCAGCCCca                                   <  1:702369/69‑1 (MQ=255)

            ctTCGACTACCGCATCCCACGCATGTTCGTCATTATTCAGCGTTTCAATATCCAGCGCATTCAGCCCca                                   <  1:848687/69‑1 (MQ=255)

            ctTCGACTACCGCATCCCACGCATGTTCGTCATTATTCAGCGTTTCAATATCCAGCGCATTCAGCCCca                                   <  1:1280235/69‑1 (MQ=255)

                             cACGCATGTTCGTCATTGTTCAGCGTTTCGATATCCAGCGCGTTCAGCCCCATCATTGa                            >  1:2622591/1‑59 (MQ=255)

                             cACGCATGTTCGTCATTGTTCAGCGTTTCGATATCCAGCGCGTTCAGCCCCATCATTGAc                           >  1:2115174/1‑60 (MQ=255)

                             cACGCATGTTCGTCATTGTTCAGCGTTTCGATATCCAGCGCGTTCAGCCCCATCATTGAc                           >  1:1642098/1‑60 (MQ=255)

                             cACGCATGTTCGTCATTGTTCAGCGTTTCGATATCCAGCGCGTTCAGCCCCATCATTGAc                           >  1:2476637/1‑60 (MQ=255)

                                 cATGTTCGTCATTGTTCAGCGTTTCGATATCCAGCTCGTTCAGCCCCATCATTGACGTTGCCAGCGCAc              <  1:121856/69‑1 (MQ=255)

                                 cATGTTCGTCATTGTTCAGCGTTTCGATATCCAGCGCGTTCAGCCCCATCATTGACGTTGCCAGCGCAc              <  1:1853653/69‑1 (MQ=255)

                                 cATGTTCGTCATTGTTCAGCGTTTCGATATCCAGCGCGTTCAGCCCCATCATTGACGTTGCCAGCGCAc              <  1:496769/69‑1 (MQ=255)

                                 cATGTTCGTCATTGTTCAGCGTTTCGATATCCAGCGCGTTCAGCCCCATCATTGACGTTGCCAGCGCAc              <  1:2801361/69‑1 (MQ=255)

                                 cATGTTCGTCATTGTTCAGCGTTTCGATATCCAGCGCGTTCAGCCCCATCATTGACGTTGCCAGCGCAc              <  1:2547072/69‑1 (MQ=255)

                                  aTGTTCGTCATTGTTCAGCGTTTCGATATCCAGCGCGTTCAGCCCCATCATTGACGTTGCCAGCGCAc              <  1:2023993/68‑1 (MQ=255)

                                  aTGTTCGTCATTGTTCAGCGTTTCGATATCCAGCGCGTTCAGCCCCATCATTGACGTTGCCAGCGCAc              <  1:1621848/68‑1 (MQ=255)

                                     ttCGTCATTGTTCAGCGTTTCGATATCCAGCGCGTTCAGc                                       <  1:986201/40‑1 (MQ=255)

                                     ttCGTCATTGTTCAGCGTTTCGATATCCAGCGCGTTCAGc                                       <  1:1627853/40‑1 (MQ=255)

                                     ttCGTCATTGTTCAGCGTTTCGATATCCAGCGCGTTCAGc                                       <  1:154365/40‑1 (MQ=255)

                                     ttCGTCATTGTTCAGCGTTTCGATATCCAGCGCGTTCAGCCCCATCATTGACGTTGCCAGCGCACTa            >  1:551093/1‑67 (MQ=255)

                                     ttCGTCATTGTTCAGCGTTTCGATATCCAGCGCGTTCAGCCCCATCATTGACGTTGCCAGCGCACTa            >  1:2318095/1‑67 (MQ=255)

                                     ttCGTCATTGTTCAGCGTTTCGATATCCAGCGCGTTCAGCCCCATCATTGACGTTGCCAGCGCACTa            >  1:2050756/1‑67 (MQ=255)

                                     ttCGTCATTGTTCAGCGTTTCGATATCCAGCGCGTTCAGCCCCATCATTGACGTTGCCAGCGCACTa            >  1:2046787/1‑67 (MQ=255)

                                     ttCGTCATTGTTCAGCGTTTCGATATCCAGCGCGTTCAGCCCCATCATTGACGTTGCCAGCGCACTa            >  1:1814983/1‑67 (MQ=255)

                                     ttCGTCATTGTTCAGCGTTTCGATATCCAGCGCGTTCAGCCCCATCATTGACGTTGCCAGCGCACTa            >  1:3020365/1‑67 (MQ=255)

                                     ttCGTCATTGTTCAGCGTTTCGATATCCAGCGCGTTCAGCCCCATCATTGACGTTGCCAGCGCACTa            >  1:305474/1‑67 (MQ=255)

                                     ttCGTCATTGTTCAGCGTTTCGATATCCAGCGCGTTCAGCCCCATCATTGACGTTGCCAGCGCACTa            >  1:3166948/1‑67 (MQ=255)

                                     ttCGTCATTGTTCAGCGTTTCGATATCCAGCGCGTTCAGCCCCATCATTGACGTTGCCAGCGCACTa            >  1:92702/1‑67 (MQ=255)

                                     ttCGTCATTGTTCAGCGTTTCGATATCCAGAGCGTTCAGCCCCATCATTGACGTTGCCAGCGCACTa            >  1:2400026/1‑67 (MQ=255)

                                             tattCAGCGTTTCAATATCCAGCGCATTCAGCCCCATCATTGACGTTGCCAGCGCACTGCGCAGGgtgt  >  1:2967814/3‑69 (MQ=255)

                                             tattCAGCGTTTCAATATCCAGCGCATTCAGCCCCATCATTGACGTTGCCAGCGCACTGCGCAGGgtgt  >  1:2907740/3‑69 (MQ=255)

                                             tattCAGCGTTTCAATATCCAGCGCATTCAGCCCCATCATTGACGTTGCCAGCGCACTGCGCAGGgtgt  >  1:2565046/3‑69 (MQ=255)

                                             tattCAGCGTTTCAATATCCAGCGCATTCAGCCCCATCATTGACGTTGCCAGCGCACTGCGCAGGgtgt  >  1:1848835/3‑69 (MQ=255)

                                             tattCAGCGTTTCAATATCCAGCGCATTCAGCCCCATCATTGACGTTGCCAGCGCACTGCGCAGGgtgt  >  1:1659770/3‑69 (MQ=255)

                                             tattCAGCGTTTCAATATCCAGCGCATTCAGCCCCATCATTGACGTTGCCAGCGCACTGCGCAGGgtgt  >  1:1555806/3‑69 (MQ=255)

                                             tattCAGCGTTTCAATATCCAGCGCATTCAGCCCCATCATTGACGTTGCCAGCGCACTGCGCAGGgtgt  >  1:1513974/3‑69 (MQ=255)

                                             tattCAGCGTTTCAATATCCAGCGCATTCAGCCCCATCATTGACGTTGCCAGCGCACTGCGCAGGgtgt  >  1:816600/3‑69 (MQ=255)

                                             tattCAGCGTTTCAATATCCAGCGCATTCAGCCCCATCATTGACGTTGCCAGCGCACTGCGCAGGgtgt  >  1:1404426/3‑69 (MQ=255)

                                             tattCAGCGTTTCAATATCCAGCGCATTCAGCCCCATCATTGACGTTGCCAGCGCACTGCGCAGGgtgt  >  1:886310/3‑69 (MQ=255)

                                             tattCAGCGTTTCAATATCCAGCGCATTCAGCCCCATCATTGACGTTGCCAGCGCACTGCGCAGGgtgt  >  1:889485/3‑69 (MQ=255)

                                             tattCAGCGTTTCAATATCCAGCGCATTCAGCCCCATCATTGACGTTGCCAGCGCACTGCGCAGGgtgt  >  1:1324516/3‑69 (MQ=255)

                                             tattCAGCGTTTCAATATCCAGCGCATTCAGCCCCATCATTGACGTTGCCAGCGCACTGCGCAGGgtgt  >  1:1275721/3‑69 (MQ=255)

                                             tattCAGCGTTTCAATATCCAGCGCATTCAGCCCCATCATTGACGTTGCCAGCGCACTGCGCAGGgtgt  >  1:1207288/3‑69 (MQ=255)

AACCATCGAACTCTTCGACTACCACATCCCACGCATGTTCGTCATTGTTCAGCGTTTCGATATCCAGCGCGTTCAGCCCCATCATTGACGTTGCCAGCGCACTACGCAGGGTGT  >  minE/1901099‑1901212

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 21 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A