genome.fa.s1840.2.7.7.80.10.50.1000.2.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: VEPZ01001840.1 Hibiscus syriacus cultivar Beakdansim tig00003725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2412736

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  2  of  12  ( 1360 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)
263944--265529	399	4.0	400	95	0	2883	36	14	18	30	1.90
263944--265529	799	2.0	799	96	0	2899	36	14	18	30	1.90
269482--269536	20	2.7	21	80	8	69	40	20	21	18	1.92
270111--270155	19	2.4	19	92	0	72	48	26	15	8	1.74
270151--270296	19	8.1	19	74	17	123	12	23	20	43	1.86
270192--270247	14	3.6	14	74	21	58	10	25	25	39	1.87
270173--270271	33	3.0	33	95	1	171	11	25	23	40	1.87
272438--272504	21	3.2	21	66	6	55	23	35	20	19	1.95
272386--272504	42	2.8	42	81	5	107	22	36	18	22	1.95
273858--273894	14	2.6	14	86	0	56	29	0	21	48	1.50
274001--274062	19	3.6	18	68	24	53	43	19	24	12	1.86
274001--274090	33	2.7	33	87	0	126	42	18	23	15	1.89
274092--274150	19	3.4	19	68	22	56	15	22	16	45	1.84
274136--274173	20	2.0	20	89	5	60	21	15	23	39	1.92
276440--276464	12	2.1	12	100	0	50	0	28	0	72	0.86
276639--276692	24	2.2	24	90	0	81	40	20	16	22	1.91
277444--277527	20	4.2	20	75	6	98	39	22	21	16	1.92
277559--277612	14	3.5	14	77	22	63	11	20	20	48	1.80
277541--277611	33	2.2	33	84	0	88	19	19	21	39	1.93
279632--279751	33	3.5	35	75	23	121	45	21	19	13	1.84
279658--279746	33	2.7	32	91	1	142	47	21	17	13	1.82
279760--279854	19	5.6	18	68	24	80	13	21	21	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
279765--279854	33	2.7	33	96	0	162	13	21	21	44	1.85
279782--279838	14	3.7	14	70	20	51	10	17	22	49	1.77
279827--279882	20	2.9	19	78	2	58	17	21	19	41	1.91
280377--280420	18	2.4	18	80	0	52	18	15	38	27	1.91
281736--281793	20	2.9	20	84	0	62	44	22	15	17	1.86
282269--282384	20	5.7	21	75	10	82	24	17	21	37	1.94
282273--282382	41	2.7	41	84	4	143	24	17	21	36	1.94
282330--282383	20	2.7	20	88	5	83	27	18	20	33	1.96
282269--282386	61	1.9	62	82	5	150	23	16	21	38	1.93
282454--282494	21	2.0	21	85	0	55	34	29	17	19	1.94
283172--283231	25	2.3	26	83	13	72	43	1	0	55	1.10
286039--286104	23	2.9	23	90	0	105	18	25	24	31	1.97
288669--288711	19	2.3	18	88	4	59	27	9	2	60	1.40
288669--288730	21	3.0	22	75	17	53	30	11	1	56	1.44
290503--290675	49	3.5	49	94	0	301	27	20	13	38	1.91
292246--292307	29	2.2	29	91	2	99	43	16	17	22	1.87
292264--292314	15	3.5	15	67	5	50	39	13	19	27	1.90
292253--292315	29	2.2	29	97	2	119	44	17	15	22	1.86
297976--298065	28	3.3	28	84	12	125	37	38	3	20	1.69
297978--298051	25	2.8	26	91	6	114	41	35	4	18	1.70
300259--300294	2	18.0	2	100	0	72	50	0	0	50	1.00
302938--303231	54	5.4	54	82	3	281	30	10	18	40	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
305574--305618	3	14.7	3	95	4	81	33	0	0	66	0.92
307229--307267	17	2.4	17	86	4	53	17	5	7	69	1.32
311636--311687	18	2.9	18	94	0	86	38	3	30	26	1.74
312140--312225	35	2.5	35	84	0	100	40	20	1	37	1.61
312194--312236	21	2.0	21	100	0	86	46	13	0	39	1.44
312356--312389	16	2.0	18	88	11	54	26	2	5	64	1.30
312857--313104	130	1.9	130	93	0	424	36	13	14	35	1.86
313912--314496	256	2.3	252	85	10	718	41	18	11	28	1.85
319358--319391	2	17.0	2	93	0	59	52	0	0	47	1.00
320891--320944	18	2.9	18	79	17	58	68	1	0	29	1.00
320914--320959	20	2.3	21	78	17	53	67	4	2	26	1.21
321620--321659	19	2.0	20	85	4	55	22	0	5	72	1.04
333635--333676	14	2.9	15	85	7	59	21	26	23	28	1.99
333637--333687	14	3.6	14	81	5	57	25	27	21	25	1.99
337807--337847	14	2.9	15	78	10	50	24	29	17	29	1.97
340541--340592	22	2.4	22	96	0	95	44	13	5	36	1.68
341824--341939	20	6.0	20	75	11	91	23	20	29	26	1.99
341845--341937	18	4.9	18	83	7	105	21	21	30	26	1.98
341845--341939	38	2.5	38	85	0	145	23	21	29	26	1.99
345510--345577	15	4.7	14	76	18	68	23	29	22	25	1.99
345517--345572	29	1.9	29	89	7	87	23	28	23	25	1.99
345512--345577	14	4.6	14	75	19	64	24	28	22	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
353514--353590	22	3.6	22	77	19	74	46	2	10	40	1.52
353520--353585	20	3.4	19	78	14	62	43	3	12	40	1.57
353537--353589	20	2.6	20	82	14	72	43	1	11	43	1.51
353611--353646	18	2.0	18	100	0	72	44	22	0	33	1.53
353614--353653	18	2.2	18	90	0	62	47	25	0	27	1.52
354426--354477	14	3.9	14	75	12	56	42	0	17	40	1.49
354684--354714	2	15.5	2	93	0	53	51	0	0	48	1.00
359807--359913	36	3.0	36	93	5	182	34	14	16	34	1.89
368546--368570	13	1.9	13	100	0	50	24	4	32	40	1.73
368576--368600	12	2.1	12	100	0	50	16	0	44	40	1.47
371855--372041	60	3.1	58	73	8	142	42	6	19	31	1.76
373126--373179	17	3.2	17	97	0	99	53	1	5	38	1.35
374071--374477	202	2.0	202	95	0	733	32	18	9	38	1.84
379458--379506	20	2.4	21	80	13	57	24	28	22	24	1.99
380303--380384	31	2.7	31	88	1	112	31	18	20	29	1.96
381154--381212	29	2.0	29	83	3	73	37	25	6	30	1.82
385381--385433	23	2.3	23	84	9	65	49	0	3	47	1.19
386142--386212	37	1.9	37	82	5	90	50	1	1	46	1.18
386134--386220	37	2.4	36	75	9	86	48	1	1	49	1.16
385829--386288	232	2.0	227	97	2	859	42	6	7	43	1.58
387953--388011	31	1.9	30	83	10	75	59	1	1	37	1.18
388454--388506	21	2.5	21	84	0	70	20	22	18	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
388730--388789	22	2.7	22	86	0	84	25	36	15	23	1.93
389127--389217	20	4.6	20	84	1	94	14	16	23	46	1.83
389181--389224	20	2.2	20	87	0	61	11	11	20	56	1.64
391087--391145	20	3.0	20	92	0	91	42	20	18	18	1.90
391130--391173	14	3.1	14	86	0	61	52	22	13	11	1.72
391251--391442	20	9.8	20	83	8	225	20	19	21	38	1.94
391236--391433	96	2.1	95	94	1	344	20	20	21	37	1.95
393277--393312	14	2.6	14	90	0	54	30	0	22	47	1.52
393414--393453	20	2.0	20	85	0	53	42	22	20	15	1.88
393418--393518	34	3.0	34	85	2	132	46	18	21	12	1.83
393418--393518	33	3.0	33	85	2	130	46	18	21	12	1.83
393561--393654	20	4.7	20	90	2	145	18	23	24	34	1.96
396072--396125	24	2.2	24	93	0	90	40	20	18	20	1.91
396072--396139	24	2.8	24	84	0	64	38	20	17	23	1.93
396962--397028	20	3.3	20	87	8	100	22	17	28	31	1.97
397015--397147	20	6.7	20	89	0	203	22	21	18	38	1.93
402154--402182	13	2.1	14	93	6	51	31	6	10	51	1.62
407802--407879	23	3.6	21	78	13	77	20	25	28	25	1.99
407812--407877	23	2.9	22	82	6	78	21	24	31	22	1.98
415598--415685	29	3.0	29	94	3	149	29	32	3	34	1.74
422137--422706	39	15.0	39	80	6	338	28	18	15	37	1.91
422217--422411	76	2.6	71	81	10	223	32	14	14	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
422137--422598	78	6.0	76	79	7	375	30	16	15	37	1.91
422506--422875	101	3.5	102	83	6	377	26	21	14	38	1.91
422721--422898	36	5.1	36	69	8	143	25	21	14	38	1.91
422749--422873	66	1.9	66	88	3	189	25	21	15	37	1.92
423388--423661	91	3.0	90	86	1	350	40	13	21	24	1.90
423495--423558	17	3.2	20	63	20	53	43	10	21	23	1.84
423866--423949	30	2.8	30	83	7	107	29	33	2	34	1.71
426118--426161	21	1.9	23	82	17	56	43	9	2	45	1.48
426931--426979	22	2.1	24	85	7	66	57	10	18	14	1.65
429147--429202	29	1.9	29	85	7	78	17	17	10	53	1.72

Tables:   1   2   3   4   5   6   7   8   9   10   11   12