genome.fa.s9618.2.7.7.80.10.50.1000.2.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: VEPZ01009618.1 Hibiscus syriacus cultivar Beakdansim tig00117007_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1135495

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 596 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)
208960--209011	23	2.3	23	86	6	70	13	23	44	19	1.86
210602--210689	2	44.0	2	97	0	167	51	0	0	48	1.00
213227--213272	20	2.3	20	85	7	58	41	4	19	34	1.71
214645--214691	19	2.4	20	85	3	60	46	6	14	31	1.70
216912--216952	11	3.7	11	100	0	82	26	17	9	46	1.79
230655--230730	32	2.4	32	100	0	152	27	22	10	39	1.87
231762--231788	11	2.5	11	100	0	54	29	7	7	55	1.55
238836--238870	17	2.1	17	100	0	70	22	0	31	45	1.53
241412--241447	13	2.6	14	86	8	56	55	5	2	36	1.38
242757--242806	16	3.2	16	80	11	59	46	2	0	52	1.12
242778--242871	38	2.5	37	79	10	102	50	1	1	47	1.15
245422--245471	17	2.9	17	87	0	73	42	6	14	38	1.70
249971--250047	29	2.7	29	97	0	145	14	35	27	23	1.93
250103--250140	14	2.7	14	87	0	58	7	28	39	23	1.83
263788--263855	31	2.2	32	81	2	75	50	0	20	29	1.49
270367--270413	24	2.0	24	95	0	85	38	4	10	46	1.58
277427--277660	111	2.1	109	86	4	319	31	15	23	29	1.95
278656--278688	16	2.1	16	100	0	66	57	24	12	6	1.57
278754--278828	10	7.7	10	69	21	61	57	21	12	9	1.62
278758--278822	16	4.1	16	95	0	121	56	23	12	7	1.61
279568--279623	14	4.3	14	80	17	66	53	25	12	8	1.67
279548--279622	24	3.1	24	88	3	98	56	21	10	12	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
286984--287009	13	2.0	13	100	0	52	46	0	23	30	1.53
287214--287269	20	2.8	20	97	0	103	10	23	21	44	1.83
287241--287371	41	3.2	41	91	4	185	19	19	22	38	1.93
287261--287394	22	6.4	22	72	10	111	20	18	23	37	1.94
287494--287532	6	6.5	6	100	0	78	33	51	15	0	1.44
287533--287573	5	8.4	5	97	2	75	36	21	41	0	1.54
288058--288107	5	9.6	5	89	6	73	0	20	56	24	1.43
288235--288328	22	4.4	22	74	12	97	39	23	18	19	1.92
288798--289136	135	2.6	136	85	5	444	25	23	16	33	1.96
290111--290185	19	3.8	20	72	11	73	29	22	22	25	1.99
290051--290181	41	3.2	40	80	8	147	30	22	19	27	1.98
290100--290162	19	3.0	22	65	13	60	30	26	17	25	1.97
290314--290415	42	2.4	42	85	6	152	31	24	21	22	1.98
290458--290700	52	4.5	53	81	6	240	38	18	10	31	1.85
290458--290700	105	2.2	108	80	9	273	38	18	10	31	1.85
290702--290859	39	4.1	39	88	2	205	37	15	18	29	1.91
290721--290889	39	4.5	37	86	5	171	38	15	20	26	1.92
292599--292641	22	2.0	22	95	0	77	37	4	11	46	1.61
302618--303545	386	2.4	386	92	0	1523	34	18	19	26	1.95
307826--307851	13	2.0	13	100	0	52	46	0	23	30	1.53
308073--308122	20	2.5	20	100	0	100	10	24	24	42	1.85
308094--308224	41	3.2	41	91	4	185	19	19	22	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
308114--308247	22	6.4	22	72	10	111	20	18	23	37	1.94
308346--308400	6	9.5	6	94	2	69	30	47	16	5	1.69
309080--309173	22	4.4	22	76	8	113	38	24	18	19	1.93
309102--309192	41	2.2	41	86	5	130	39	24	18	17	1.92
309066--309193	63	2.1	62	88	5	170	39	22	19	17	1.92
309663--310002	136	2.6	136	86	4	462	25	23	16	34	1.95
310658--310788	41	3.2	40	77	8	129	31	22	19	26	1.98
310922--311023	42	2.4	42	85	6	152	31	24	21	22	1.98
311117--311308	52	3.7	53	84	6	230	37	18	11	31	1.88
311329--311467	39	3.6	39	89	2	194	39	15	17	26	1.90
311329--311591	36	7.1	36	82	5	213	39	14	20	25	1.90
311540--311703	64	2.6	63	79	8	179	40	11	20	27	1.87
311848--311920	37	1.9	38	91	2	121	45	8	13	32	1.73
311749--312021	102	2.7	100	84	5	327	40	9	17	31	1.82
311950--312041	36	2.5	38	82	7	109	45	8	18	27	1.78
311950--312063	38	3.1	36	80	7	97	43	8	18	28	1.80
315607--315675	30	2.2	30	85	15	95	34	5	17	42	1.73
315616--315675	30	2.0	30	93	6	104	33	6	16	43	1.74
317141--317172	2	16.0	2	100	0	64	50	0	0	50	1.00
323668--323699	14	2.2	15	94	5	57	15	0	40	43	1.47
326027--326097	34	2.1	35	97	2	135	25	5	29	39	1.78
327117--327172	2	28.0	2	100	0	112	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
328327--328405	19	4.2	19	81	3	79	22	32	16	27	1.96
332552--332612	19	3.2	19	76	6	70	22	29	14	32	1.94
332617--332646	13	2.3	13	94	0	51	16	16	23	43	1.87
336913--336985	19	3.9	18	78	8	74	27	28	12	31	1.93
336913--336985	38	1.9	37	83	8	94	27	28	12	31	1.93
338591--338719	35	3.6	35	75	11	118	29	19	15	35	1.93
340167--340356	95	2.0	96	84	7	253	32	17	23	26	1.96
340189--340390	95	2.1	96	81	8	225	32	17	23	26	1.97
340849--340913	34	1.9	34	83	0	85	35	12	24	27	1.91
340794--340958	79	2.1	79	91	0	267	35	12	24	26	1.92
353175--353423	37	6.7	41	72	16	122	42	4	11	41	1.61
353173--353417	109	2.2	110	82	8	284	43	4	11	40	1.60
353383--353432	24	2.0	26	88	7	77	44	4	10	42	1.56
353362--353513	69	2.2	69	82	6	186	42	3	9	44	1.54
353500--353547	14	3.3	14	81	16	53	29	2	2	66	1.14
353521--353592	33	2.2	33	80	7	85	23	1	1	73	0.99
353498--353590	39	2.3	38	79	15	100	24	1	3	70	1.08
353508--353578	10	7.3	10	76	16	60	25	1	0	73	0.92
356932--357128	98	2.0	98	100	0	394	27	30	19	22	1.98
361027--361131	31	3.4	31	75	9	97	17	13	33	36	1.88
361418--361448	16	1.9	16	100	0	62	38	12	22	25	1.90
361638--361682	16	2.8	16	82	0	54	6	11	28	53	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
366826--366880	20	2.8	20	86	5	67	36	30	18	14	1.91
368007--368060	27	2.0	27	85	0	72	42	25	7	24	1.80
369785--369833	26	1.9	25	87	4	71	38	4	4	53	1.39
369793--369840	26	1.9	26	83	8	64	41	4	4	50	1.41
370071--370132	6	10.5	6	74	20	51	64	0	30	4	1.14
370075--370135	12	5.1	12	77	15	63	65	0	27	6	1.17
370071--370132	18	3.3	18	93	4	97	64	0	30	4	1.14
383189--383242	23	2.3	24	90	3	83	42	0	9	48	1.35
383795--383829	17	2.1	17	88	0	52	45	17	25	11	1.81
384154--384224	34	2.2	32	82	5	79	66	1	4	28	1.19
386837--386885	12	4.2	12	82	12	57	8	8	36	46	1.63
386837--386911	24	3.2	24	82	1	80	9	9	37	44	1.69
386840--386915	12	6.3	12	68	0	53	9	9	39	42	1.69
386865--386915	18	2.8	18	84	0	66	9	9	39	41	1.71
386878--386927	24	2.1	24	85	7	66	10	10	38	42	1.72
386859--386928	18	3.9	18	70	7	61	11	8	37	42	1.72
387668--387788	6	21.3	6	66	24	59	50	1	2	45	1.25
387663--387804	29	5.2	28	75	17	122	50	1	2	46	1.22
387666--387759	22	4.4	21	72	24	72	50	1	2	46	1.20
387744--387854	31	3.5	30	73	18	98	49	1	3	45	1.30
387667--387870	107	1.9	103	84	9	270	49	1	3	45	1.30
387883--387973	36	2.5	36	83	3	121	46	9	4	39	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
388100--388238	2	70.5	2	69	13	74	45	2	6	45	1.44
388097--388242	44	3.1	44	70	23	111	45	4	6	44	1.47
388205--388247	20	2.1	21	91	4	70	44	2	4	48	1.36
388396--388506	49	2.2	48	85	7	150	29	8	11	50	1.67
388478--388519	9	4.7	9	82	8	50	35	7	4	52	1.50
388474--388519	17	2.6	17	82	6	56	36	8	4	50	1.53
388549--388686	28	4.9	27	75	15	100	42	4	6	47	1.49
388615--388662	17	2.8	17	90	3	69	43	2	6	47	1.40
388611--388666	18	3.2	17	82	9	69	44	1	5	48	1.36
388633--388677	11	4.5	11	74	25	55	42	0	6	51	1.28

Tables:   1   2   3   4   5