New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AP009048	= 3838032	51 (0.630)	17 (0.230)	10/88	NT	26.2%	coding (676/1020 nt)	rfaI	UDP‑D‑galactose:(glucosyl)lipopolysaccharide‑ alpha‑1,3‑D‑galactosyltransferase
	?	AP009048	= 3838051	50 (0.680)					coding (695/1020 nt)	rfaI	UDP‑D‑galactose:(glucosyl)lipopolysaccharide‑ alpha‑1,3‑D‑galactosyltransferase

CACGAGCTATTGCAATGCTAAATGAGCCAGAAATAATCAAAAAAATAACACATCCTGATCAGGATGTGTTAAATA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  AP009048/3837958‑3838032 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑aaataAGTTTATCCGCCAGCAACATATTTAACACATCCTGATCAGGATGTGTTA‑TTTTTTTGATTATTTCTGGC  <  AP009048/3838051‑3837983                                                                                                                                                   CACGAGCTATTGCAATGCTAAATGAGCC‑‑AAATAATCAAAAAAATAACACATCCTGATCAGGATGTGTTA                                                                            <  1:162483/69‑1  ACGAGCTATTGCAATGCTAAATGAGCCAGAAATAATCAAAAAAATAACACATCCTGATCAGGATGTGTTA                                                                            >  1:3961563/1‑70  ACGAGCTATTGCAATGCTAAATGAGCCAGAAATAATCAAAAAAATAACACATCCTGATCAGGATGTGTTA                                                                            >  1:2678812/1‑70          TTGCAATGCTAAATGAGCCAGAAATAATCAAAAAAATAACACATCCTGATCAGGATGTGTTAAAT                                                                         <  1:7618843/65‑1                TGCTAAATGAGCCAGAAATAATCAAAAAAATAACACATCCTGATCAGGATGTGTTA                                                                            >  1:4851056/1‑56                TGCTAAATGAGCCAGAAATAATCAAAAAAATAACACATCCTGATCAGGATGTGTTA                                                                            >  1:5728159/1‑56                TGCTAAATGAGCCAGAAATAATCAAAAAAATAACACATCCTGATCAGGATGTGTTA                                                                            >  1:5751448/1‑56                   TAAATGAGCCAGAAATAATCAAAAAAATAACACATCCTGATCAGGATGTGTTAAATA                                                                        <  1:3255494/57‑1                       TGAGCCAGAAATAATCAAAAAAATAACACATCCTGATCAGGATGTGTTAAATAAGTTTATCCGCGAGCAAC                                                      <  1:1017397/71‑1                         AGCCAGAAATAATCAAAAAAATAACACATCCTGATCAGGATGTGTTAAA                                                                          >  1:7780/1‑49                            CAGAAATAATCAAAAAAATAACACATCCTGATCAGGATGTGTTAAATAAGTTTATCCGCCAGCAACATATT                                                 <  1:5025980/71‑1                              GAAATAATCAAAAAAATAACACATCCTGATCAGGATGTGTTAAATAAGTTTATCCGCCAGCAA                                                       <  1:2517450/63‑1                               AAATAATCAAAAAAATAACACATCCTGATCAGGATGTGTTAAA                                                                          >  1:1889492/1‑43                                AATAATCAAAAAAATAACACATCCTGATCAGGATGTGTTAAATAAGTTTATCCGCCAGCAACA                                                     >  1:2872057/1‑63                                 ATAATCAAAAAAATAACACATCCTGATCAGGATGTGTTAAATAAGTTTATCCGCCAGCAACATATTT                                                >  1:3253488/1‑67                                      CAAAAAAATAACACATCCTGATCAGGATGTGTTAAATAAGTTTATCCGCCAGCAACATATTTAA                                              >  1:2084758/1‑64                                      CAAAAAAATAACACATCCTGATCAGGATGTGTTAAATAAGTTTATCCGCCAGCAACATATTTAA                                              >  1:2988467/1‑64                                               AACACATCCTGATCAGGATGTGTTAAATAAGTTTATCC                                                               >  1:316940/1‑38                                                  ACATCCTGATCAGGATGTGGTAAATAAGTTTATCCGCCAGCAACATATT                                                 >  1:4793159/1‑49                                                    ATCCTGATCAGGATGTGTTAAATAAGTTTATCCGCCAGCAACATAT                                                  >  1:1275086/1‑46                                                    ATCCTGATCAGGATGTGTTAAATAAGTTTATCCGCCAGCAACA                                                     >  1:891874/1‑43                                                    ATCCTGATCAGGATGTGTTAAATAAGTTTATCCGCCAGCAACA                                                     >  1:3293511/1‑43                                                    ATCCTGATCAGGATGTGTTAAATAAGTTTATCCGCCAGCAACA                                                     >  1:4011970/1‑43                                                    ATCCTGATCAGGATGTGTTAAATAAGTTTATCCGCCAGCAACA                                                     >  1:1615772/1‑43                                                    ATCCTGATCAGGATGTGTTAAATAAGTTTATCCGCCAGCAAC                                                      >  1:3912662/1‑42                                                     TCCTGATCAGGATGTGTTAAATAAGTTTATCCGCCAGCAACATA                                                   >  1:2203868/1‑44                                                     TCCTGATCAGGATGTGTTAAATAAGTTTATCCGCCAGCAACATA                                                   >  1:1543208/1‑44                                                                      aatATAAGTTTATCCGCCAGCAACATATTTAACACATCCTGATCAGGATGTGTTA‑TTTTTTTGATTAT         >  1:1730548/4‑68                                                                       AAATAAGTTTATCCGCCAGCAACATATTTAACACATCCTGAT                                   >  1:3204150/1‑42                                                                        AATAAGTTTATCCGCCAGCAACATATTTAACACATCCTGATCAGGATGTGTTA‑TTTTTTT               >  1:2749143/1‑60                                                                        AATAAGTTTATCCGCCAGCAACATATTTAACACATCCTGATCAG                                <  1:814433/44‑1                                                                         ATAAGTTTATCCGCCAGCAACATATTTAACACATCCTGATCAGGATGTGTTA‑TTTTTTTGATTATTTCTGG   <  1:534870/71‑1                                                                         ATAAGTTTATCCGCCAGCAACATATTTAACACATCCTGATCAGGATGTGTTA‑TTTTTTTGATTATTTCTGG   <  1:6290041/71‑1                                                                         ATAAGTTTATCCGCCAGCAACATATTTAACACATCCTGATCAGGATGTGTTA‑TTTTTTTGATTATTTCTGG   >  1:774153/1‑71                                                                          TAAGTTTATCCGCCAGCAACATATTTAACACATCCTGATCAGGATGTGTTA‑TTTTTTTGATTATTTCTGGC  >  1:4319490/1‑71                                                                          TAAGTTTATCCGCCAGCAACATATTTAACACATCCTGATCAGGATGTGTTA‑TTTTTTTGATTATTTCTGGC  >  1:938651/1‑71                                                                           AAGTTTATCCGCCAGCAACATATTTAACACATCCTGATCAGGATGTGTTATTTTTTTTGATTATTTCTGGC  >  1:6777742/1‑71                                                                                                                                                   CACGAGCTATTGCAATGCTAAATGAGCCAGAAATAATCAAAAAAATAACACATCCTGATCAGGATGTGTTAAATA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  AP009048/3837958‑3838032 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑aaataAGTTTATCCGCCAGCAACATATTTAACACATCCTGATCAGGATGTGTTA‑TTTTTTTGATTATTTCTGGC  <  AP009048/3838051‑3837983

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: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.