New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 4296093	0 (0.000)	13 (0.160)	5/164	NT	100%	noncoding (259/600 nt)	RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites	RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites
	?	NC_000913	= 4296173	NA (NA)					noncoding (339/600 nt)	RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites	RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites

CGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTA  >  NC_000913/4295994‑4296190                                                                                                    |                                                                                                  cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGC                                                                                                   <  1:1598818‑M1/100‑1 (MQ=255)   cAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGCCATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCt                                                                                                 >  2:1493911/1‑100 (MQ=255)   cAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCt                                                                                                 >  2:83890/1‑100 (MQ=25)   cAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCt                                                                                                 >  2:1705345/1‑100 (MQ=25)     aTAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTat                                                                                               >  2:1166351/1‑99 (MQ=25)       aGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTatct                                                                                             <  1:2038585/100‑4 (MQ=12)         ccTGATTTCGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTatctta                                                                                           <  2:1296917/100‑6 (MQ=11)         ccTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTatctta                                                                                           >  1:1701299/1‑95 (MQ=2)                                    gATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCcttgatgtcggatgcggcgtaaacgccttatccga                                                                >  2:1012154‑M1/1‑65 (MQ=255)                                                                 aaCGCCTGATGCGACGCTTAACGCGTCTTATCAGGCgttgatgtcggatgcggcataaacgccttatccgacctacaaaatcacgctaaatcaggctatt                                   >  2:641328‑M1/1‑36 (MQ=255)                                                                 aaCGCCTGATGCGACGCTTAACGCGTCTTATCAGGCgttgatgtcggatgcggcataaacgccttatccgacctacaaaatcacgctaaatcaggctatt                                   >  1:1883338‑M1/1‑36 (MQ=255)                                                                  atgccTGATGCGACGCTTGCCGCGTCTTATCAGGCattgatgtcggatgcggcgtaaacgccttatccgacctacaaaatcacgctaaatcaggctattg                                  >  2:119310‑M1/3‑35 (MQ=255)                                                                  aCGCCTGATGCGACGCTTAACGCGTCTTATCAGGCgttgatgtcggatgcggcataaacgccttatccgacctacaaaatcacgctaaatcaggctattg                                  >  1:1334495‑M1/1‑35 (MQ=255)                                                                  aCGCCTGATGCGACGCTTAACGCGTCTTATCAGGCgttgatgtcggatgcggcataaacgccttatccgacctacaaaatcacgctaaatcaggctattg                                  >  1:242701‑M1/1‑35 (MQ=255)                                                                    gCCTGATGCGACGCTTCACGCGTCTTATCAGGCgttgatgtcggatgcggcataaacgccttatcctacctacaaaatgacgctaaatcaggctattccg                                >  2:977507‑M1/1‑33 (MQ=255)                                                                    gCCTGATGCGACGCTTAACGCGTCTTATCAGGCgttgatgtcggatgcggcataaacgccttatccgacctacaaaatcacgctaaatcaggctattgcg                                >  2:1721997‑M1/1‑33 (MQ=255)                                                                     ccTGATGCGACGCTTGCCGCGTCTTATCAGGCattgatgtcggatgcggcgtaaacgccttatccgacctacaaaatcacgctaaatcaggctattgcgc                               >  2:1241948‑M1/1‑32 (MQ=255)                                                                     ccTGATGCGACGCTTGCCGCGTCTTATCAGGCattgatgtcggatgcggcgtaaacgccttatccgacctacaaaatcacgctaaatcaggctattgcgc                               >  1:1458354‑M1/1‑32 (MQ=255)                                                                     ccTGATGCGACGCTTAACGCGTCTTATCAGGCgttgatgtcggatgcggcataaacgccttatccgacctacaaaatcacgctaaatcaggctattgcgc                               >  1:510767‑M1/1‑32 (MQ=255)                                                                         aTGCGACGCTTGCCGCGTCGCATCAGGCattgatgtcggatgcggcgtaaacgccttatccgacctacaaaatcacgctaaatcaggctattgcgctgtc                           >  1:2215914‑M1/1‑28 (MQ=255)                                                                          tGCGACGCTTAACGCGTCTTATCAGGCgttgatgtcggatgcggcataaacgccttatccgacctacaaaatcacgctaaatcaggctattgcgctgtct                          >  2:259229‑M1/1‑27 (MQ=255)                                                                                                cAGGCgttgatgtcggatgcggcataaacgccttatccgacctacaaaatcacgctaaatccggccattgcgctgtctggcgtaggcctgataagacgcg    >  2:753062‑M1/1‑5 (MQ=255)                                                                                                cAGGCgttgatgtcggatgcggcataaacgccttatccgacctacaaaatcacgctaaatcaggctattgcgctgtctggcgtaggcctgataagacgcg    <  1:1945027‑M1/100‑96 (MQ=255)                                                                                                cAGGCgttgatgtcggatgcggcataaacgccttatccgacctacaaaatcacgctaaatcaggctattgcgctgtctggcgtaggcctgataagacgcg    >  1:1663125‑M1/1‑5 (MQ=255)                                                                                                cAGGCgttgatgtcggatgcggcataaacgccttatccgacctacaaaatcacgctaaatcaggctattgcgctgtctggcgtaggcctgataagacgcg    <  1:1012158‑M1/100‑96 (MQ=255)                                                                                                 aGGCgttgatgtcggatgcggcataaacgccttatccgacctacaaaatcacgctaaatcaggctattgcgctgtctggcgtaggcctgataagacgcgg   >  1:226945‑M1/1‑4 (MQ=255)                                                                                                  ggCgttgatgtcggatgcggcataaacgccttatccgacctacaaaatcacgctaaatcaggctattgcgctgtctggcgtaggcctgataagacgcggc  >  1:1537624‑M1/1‑3 (MQ=255)                                                                                                    |                                                                                                  CGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTA  >  NC_000913/4295994‑4296190

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ 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.