genome.fa.s6529.2.7.7.80.10.50.1000.2.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01006529.1 Hibiscus syriacus cultivar Beakdansim tig00015910_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  646883

Tables:   1   2   3   

This is table  2  of  3  ( 315 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
337608--337806	36	5.3	36	78	14	213	60	4	26	8	1.43
337495--337837	63	5.8	63	76	18	385	60	3	26	9	1.44
337474--337834	117	3.2	115	82	12	444	60	3	27	8	1.43
337560--337837	144	2.0	139	85	8	382	60	3	26	9	1.45
337526--337650	28	4.8	24	86	12	142	59	4	27	9	1.47
339000--339131	66	2.0	67	90	1	212	31	21	15	30	1.95
345637--345680	23	1.9	23	95	0	79	40	2	15	40	1.60
345637--345688	23	2.3	23	89	0	77	44	1	15	38	1.58
346350--346461	56	2.0	56	100	0	224	44	10	3	41	1.56
363562--363633	15	4.9	15	87	1	110	37	6	19	36	1.79
363562--363642	30	2.7	30	92	1	128	39	6	18	35	1.76
363626--363695	20	3.5	20	94	0	122	40	8	14	37	1.76
363861--364014	29	5.5	28	71	20	101	51	1	1	46	1.17
363862--364109	28	9.0	27	68	21	85	50	1	2	46	1.20
363861--364007	54	2.6	57	76	15	139	51	1	1	46	1.18
363861--363960	28	3.5	27	80	13	87	53	2	1	44	1.19
363976--364019	22	2.0	23	86	4	63	54	0	0	45	0.99
363980--364036	21	2.6	22	81	10	64	52	0	0	47	1.00
363916--364036	54	2.3	51	77	19	133	50	0	0	47	1.12
364208--364326	41	2.9	42	96	2	222	44	18	21	15	1.87
365232--365261	2	15.0	2	100	0	60	50	0	0	50	1.00
366252--366338	43	2.0	43	88	0	129	27	32	8	32	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
366440--366485	22	2.1	22	83	0	56	30	0	13	56	1.37
366502--366542	20	2.2	20	91	8	68	31	0	4	63	1.15
366502--366542	10	4.3	10	84	12	59	31	0	4	63	1.15
367760--367817	31	1.9	30	86	10	82	20	15	20	43	1.88
367849--368077	102	2.3	101	80	3	246	26	20	23	29	1.99
368779--368821	21	2.0	22	95	4	79	13	25	18	41	1.88
368785--368831	21	2.2	21	85	7	60	19	25	19	36	1.95
368821--368869	21	2.4	20	86	3	62	38	16	22	22	1.92
368926--368983	20	2.9	20	82	5	64	46	17	15	20	1.84
369573--369694	14	7.6	14	69	24	73	10	23	22	43	1.84
369556--369718	33	4.9	33	93	0	254	11	23	21	44	1.84
369684--369743	20	3.0	20	75	18	61	13	23	18	45	1.84
371542--371574	17	1.9	17	88	11	50	24	15	15	45	1.84
371885--371954	21	3.3	21	66	7	52	24	35	20	20	1.96
371833--371921	42	2.1	42	80	0	106	21	38	16	23	1.93
373304--373337	14	2.4	14	100	0	68	32	0	26	41	1.56
373446--373537	19	5.4	19	63	24	69	44	18	20	16	1.87
373446--373558	33	3.4	32	84	4	154	45	19	20	15	1.86
373564--373714	19	8.7	19	65	21	80	15	23	19	41	1.89
373568--373694	33	3.9	32	87	8	193	14	23	18	42	1.88
373561--373693	66	2.0	66	97	0	248	16	23	18	41	1.90
377004--377059	21	2.7	21	97	0	103	41	16	21	21	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
377023--377135	20	5.6	20	71	7	77	38	20	19	21	1.93
377349--377416	20	3.4	20	72	8	75	39	23	20	16	1.91
377333--377436	40	2.9	34	77	15	109	40	22	22	15	1.91
377448--377501	14	3.5	14	77	22	63	11	20	20	48	1.80
377430--377500	33	2.2	33	84	0	88	19	19	21	39	1.93
379075--379163	42	2.2	40	84	7	119	22	15	40	21	1.91
379527--379581	20	2.8	20	88	2	76	32	25	25	16	1.96
379602--379659	14	3.8	14	71	20	53	12	15	22	50	1.77
379584--379675	33	2.8	33	93	0	157	13	17	20	48	1.80
379583--379675	19	5.4	18	67	23	67	13	17	20	48	1.81
379660--379714	20	2.8	19	83	8	65	16	23	23	36	1.94
380789--380847	20	3.0	20	87	0	73	44	22	18	15	1.87
381111--381155	22	2.0	23	86	4	65	20	15	42	22	1.89
381322--381459	41	3.4	41	79	2	161	23	15	24	35	1.94
381342--381455	20	5.7	20	77	2	102	24	16	26	32	1.96
381389--381477	41	2.2	41	84	8	110	21	20	23	34	1.96
381450--381496	20	2.3	20	85	3	58	21	21	17	40	1.91
381486--381538	21	2.5	22	81	6	74	33	18	26	20	1.96
382866--382908	19	2.3	18	80	7	50	74	2	2	20	1.04
384876--384924	24	2.0	24	100	0	98	12	16	16	55	1.70
401378--401482	37	2.8	37	88	0	156	40	15	14	30	1.87
402022--402077	2	28.5	2	89	3	87	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
403378--403414	19	1.9	19	89	10	58	8	24	0	67	1.17
406810--406868	17	3.5	17	80	17	52	79	5	13	1	0.97
406816--406882	30	2.2	29	84	5	80	79	4	13	2	1.01
406816--406881	8	8.7	7	73	26	55	80	4	12	3	0.98
407656--407732	22	3.5	22	90	0	127	38	27	12	20	1.89
408548--410226	106	15.9	106	91	1	2586	33	24	18	22	1.96
410959--411062	36	2.8	37	85	2	147	39	15	15	29	1.88
411558--411625	21	3.3	19	75	22	66	32	1	1	64	1.11
411959--411994	17	2.2	16	90	9	56	13	8	0	77	0.98
415952--416004	2	27.0	2	96	3	99	49	0	0	50	1.00
428423--428472	24	2.1	24	100	0	100	38	20	30	12	1.88
429261--429302	21	2.0	21	100	0	84	38	9	23	28	1.86
434561--434735	94	1.9	94	91	3	291	29	13	20	36	1.91
434648--434861	115	1.9	115	89	3	333	31	14	20	33	1.92
434765--434952	93	2.0	93	88	4	281	28	14	20	36	1.92
434529--435057	208	2.5	209	94	1	895	31	14	21	33	1.93
436161--436328	74	2.3	74	80	4	178	34	15	19	30	1.93
437199--437315	55	2.1	54	90	4	182	41	17	20	21	1.91
438377--438451	31	2.4	31	97	0	141	26	14	21	37	1.92
438496--438594	29	3.4	29	100	0	198	18	18	25	38	1.93
438554--438746	76	2.5	76	100	0	386	20	20	23	35	1.96
438355--438955	105	5.7	105	85	7	869	20	19	22	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
438706--438775	29	2.4	29	100	0	140	18	18	25	37	1.94
438799--438879	29	2.8	29	96	1	144	18	18	24	38	1.93
438839--439031	76	2.5	76	100	0	386	20	20	23	35	1.96
438915--439342	105	4.1	105	98	0	829	20	20	22	37	1.95
438991--439060	29	2.4	29	100	0	140	18	18	25	37	1.94
439096--439165	29	2.4	29	100	0	140	18	18	25	37	1.94
438829--439494	181	3.7	178	78	10	658	21	20	22	36	1.95
439189--439267	29	2.7	29	94	4	131	18	20	21	39	1.93
439230--439605	76	4.9	75	91	3	601	23	19	21	35	1.96
439748--439827	3	26.7	3	79	5	90	41	0	0	58	0.98
439748--439827	30	2.6	31	90	3	119	41	0	0	58	0.98
439752--439822	24	2.9	25	87	6	110	43	0	0	56	0.99
439834--439888	26	2.1	26	86	0	74	41	32	16	9	1.80
445430--445475	19	2.4	19	96	0	83	30	17	19	32	1.95
448184--448284	45	2.3	42	81	5	112	16	40	18	23	1.91
450972--450999	14	2.0	14	100	0	56	21	14	21	42	1.88
450982--451032	21	2.5	21	93	3	86	23	15	17	43	1.88
454323--454400	31	2.5	31	85	2	104	37	16	20	25	1.93
462438--462550	20	5.6	20	80	3	127	40	16	23	18	1.91
462536--462613	41	1.9	41	86	0	111	38	23	16	21	1.93
462539--462653	20	5.7	19	78	11	86	34	24	17	23	1.96
462821--462864	22	2.0	22	100	0	88	22	45	13	18	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
463098--463150	20	2.7	20	79	2	63	13	15	22	49	1.79
464471--464514	17	2.5	18	85	3	63	27	43	15	13	1.85
464996--465041	20	2.3	20	88	0	65	36	26	21	15	1.93
465051--465140	14	5.9	14	73	19	81	47	22	17	12	1.80
465035--465157	32	3.8	32	93	2	201	47	21	17	13	1.81
465174--465231	14	3.9	14	75	16	62	8	15	24	51	1.71
465169--465247	32	2.4	33	87	2	124	10	17	22	49	1.77
465220--465286	19	3.5	19	83	4	89	14	23	23	37	1.93
465232--465286	20	2.8	19	89	5	83	16	25	23	34	1.95
466184--466219	14	2.6	14	90	0	54	30	0	22	47	1.52

Tables:   1   2   3