Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	AE015451	4,583,571	0	G	.	30.8%	24.1 / 10.2	13	intergenic (‑144/+27)	treSB/glgE	fused trehalose synthase B/maltokinase/Alpha‑1,4‑glucan:maltose‑1‑phosphate maltosyltransferase
Reads supporting (aligned to +/- strand):  ref base G (4/5);  new base . (3/1);  total (7/6)
Fisher's exact test for biased strand distribution p-value = 5.59e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

GGGTCGTCGATGAAGGCTGCCGGGCGGGAACGCTTGGCCATGTGCGACTCCTTTCAATTGCATGCACAGACATCCGAGCTTGCTCGATCCCCCGTAGGAGCGGGTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTTCGCCGGTGTTCGCGGATAAACCCGCTCCTACGGGGGGGGGGGCACAGTCTGAACCTTGTTAACGGGCTTTTTCGATGCGCCAGATGCCGAACGGCAGGTGCCAGGGCTCTATGCGCATCCATTGGGTCTTGCCGTACCACGACCAGCGGTGGCCGTTCATCAGGTCTTCACCCTGGGTTTCGGCGTTGTCGTCCAGCCCCAACTCCCACAGGGGCAACTCGAAGTGCGCCTCC  >  AE015451/4583387‑4583772                                                                                                                                                                                         |                                                                                                                                                                                                          gggTCGTCGATGAAGGCTGCCGGGCGGGAACGCTTGGCCATGTGCGACTCCTTTCAATTGCATGCACAGACATCCGAGCTTGCTCGATCCCCCGTAGGAGCGGGTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTTCGCCGGTGTTCGCGGATAAACCCGCCCCTAC‑GGGGGGGGGGCACAGTCTGa                                                                                                                                                                                       >  1:32278/1‑204 (MQ=255)                            gcaCGCTTGGCCATGTGCGACTCCTTTCAATTGCATGCACAGACATCCGAGCTTGCTCGATCCCCCGTAGGAGCGGGTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTTCGCCGGTGGTCGCGGATAAACCCGCTCCTACGGGGGGGGGGGcc                                                                                                                                                                                               >  2:139877/3‑169 (MQ=255)                                               aCTCCTTTCAATTGCATGCACAGACATCCGAGCTTGCTCGATCCCCCGTAGGAGCGGGTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTTCGCCGGTGTTCGCGGATAAACCCGCTCCTACGGGGGGGGGGGCACAGTCTGAACCTTGTTAACGGGCTTTTTCGATGCGCCAGATGCCGAACGGCAGGTGCCAGGGCTCTATGCGCATCCATTGGGTCtt                                                                                                         <  1:171104/237‑1 (MQ=255)                                                                                                       ggTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTTCGCCGGTGTTCGCGGATAAACCCGCTCCTACGGGGGGGGGGGCACAGTCTGAACCTTGTTAACGGGCTTTTTCGATGCGCCAGATGCCGAACGGCAGGTGCCAGGGCTCTATGCGCATCCATTGGGTCTTGCCGTACCACGACCAGCGGTgg                                                                                   >  1:354339/1‑203 (MQ=255)                                                                                                          ttACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTTCGCCGGTGTTCGCGGATAAACCCGCTCCTACGGGGGGGGGGGCACAGTCTGAACCTTGTTAACGGGCTTTTTCGATg                                                                                                                                                              >  1:92667/1‑125 (MQ=255)                                                                                                                                               ggCACCGTCTTTGCCGGTGTTCGCGGATAAACCCGCTCCTAC‑GGGGGGGGGGCACAGTCTGaa                                                                                                                                                                                      >  2:345592/1‑63 (MQ=25)                                                                                                                                                     ggCTTCACCGGTGTTCGCGGGTAAACCCGCTCTTACGGGGGGGGGGGCACAGTCTGAACCTTGTTAACGGGCTTTTTCGATGCGCCAGATGCCGAACGGCAGGTGCCAGGGCTCTATg                                                                                                                          <  2:342801/118‑1 (MQ=255)                                                                                                                                                      gCTTCGCCGGTGTTCGCGGATAAACCCGCTCCTAC‑GGGGGGGGGGTACAGTCTGAACCtt                                                                                                                                                                                  >  2:173403/1‑60 (MQ=21)                                                                                                                                                       cTTCGCCGGTGTTCGCGGATAAACCCGCTCCTACGGGGGGGGGGGCACAGTCTGAACCTTGTTAACGGGCTTTTTCGATGCGCCAGATGCCGAACGGCAGGTGCCAGGGCTCTATGCGCATCCATTGGGTCTTGCCGTACCACGACCAGCGGTGGCCGTTCATCAGGTCTTCACCCTGGGTTTCGGCGTTGTCGTCCAGCCCCAACTCCCACAGGGGCAACTCGAAGTGCGcctcc  >  1:248437/1‑236 (MQ=255)                                                                                                                                                                tgtTCGCGGATAACCCCGCTCCTAC‑GGGGGGGGGGCACAGTCTGAACCTTGTTAACGGGCTTTTTCGATGCGCCAGATGACGAACGTCAGGTGCCAGGGCTCTATGCGCATCCATTGGGTCTTGCCGTACCACGACCAGCGGt                                                                                     <  1:345594/143‑1 (MQ=255)                                                                                                                                                                    cgcgGATAAACCCGCTCCTACGGGGGGGGGGGCACAGTCTGAACCTTGTTAACGGGCTTTTTCGATGCGCCAGATGCCGAACGGCAGGTGCCAGGGCTCTATGCGCATCCATTGGGTCTTGCCGTACCACGACCAGCGGTGGCCGTTCATCAGGTCTTCAc                                                                <  2:354337/161‑1 (MQ=255)                                                                                                                                                                                       aCGGGGGGGGGGGCACAGTCTGAACCTTGTTAACGGGCTTTTTCGATGCGCCAGATGCCGAACGGc                                                                                                                                            <  2:275412/66‑1 (MQ=255)                                                                                                                                                                                       aCGGGGGGGGGGGCACAGTCTGAACCTTGTTAACGGGCTTTTTCGATGCGCCAGATGCCGAACGGCAGGTGCCAGGGCTCTATGCGCATCCATTGGGTCTTGCCGTACCACGACCAGCGGTGGCCGTTCATCAGGTCTTCACCCTGGGTTTCGGCGTTGTCGTCCAGCCCCAACTCCCACAgg                       <  1:209928/183‑1 (MQ=255)                                                                                                                                                                                        ggggggggggggCACAGTCTGAACCTTGTTAACGGGCTTTTTCGATGCGCCAGATGCCGAACGGCAGGTGCCAGGGCTCTATGCGCATCCATTGGGTCTTGCCGTACCACGACCAGCGGTGGCCGTtca                                                                            <  2:248709/128‑1 (MQ=255)                                                                                                                                                                                         gggggggggggCACAGTCTGAACCTTGTTAACGGGCTTTTTCGATGCGCCAGATGCCGAACg                                                                                                                                              <  1:70872/62‑1 (MQ=255)                                                                                                                                                                                         |                                                                                                                                                                                                          GGGTCGTCGATGAAGGCTGCCGGGCGGGAACGCTTGGCCATGTGCGACTCCTTTCAATTGCATGCACAGACATCCGAGCTTGCTCGATCCCCCGTAGGAGCGGGTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTTCGCCGGTGTTCGCGGATAAACCCGCTCCTACGGGGGGGGGGGCACAGTCTGAACCTTGTTAACGGGCTTTTTCGATGCGCCAGATGCCGAACGGCAGGTGCCAGGGCTCTATGCGCATCCATTGGGTCTTGCCGTACCACGACCAGCGGTGGCCGTTCATCAGGTCTTCACCCTGGGTTTCGGCGTTGTCGTCCAGCCCCAACTCCCACAGGGGCAACTCGAAGTGCGCCTCC  >  AE015451/4583387‑4583772

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑