genome.fa.s8876.2.7.7.80.10.50.1000.2.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: VEPZ01008876.1 Hibiscus syriacus cultivar Beakdansim tig00112114_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1683876

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 708 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)
153467--153493	2	13.5	2	100	0	54	48	0	0	51	1.00
153511--153774	142	1.9	135	88	6	395	38	9	3	48	1.55
166892--166969	31	2.6	30	85	4	104	53	6	7	32	1.55
166892--166980	29	3.0	29	80	9	99	53	5	8	31	1.55
168146--168452	170	1.8	171	91	2	510	34	23	13	28	1.92
169907--169942	18	2.0	18	100	0	72	27	11	5	55	1.57
174553--174611	29	2.0	29	96	0	109	25	11	13	49	1.76
174562--174619	29	2.0	29	86	3	82	31	10	15	43	1.80
175051--175167	57	2.1	57	90	7	186	29	11	13	45	1.79
204309--204349	20	2.1	19	86	4	55	60	0	2	36	1.10
222264--222432	87	2.0	86	85	3	232	24	21	15	38	1.92
227159--227206	24	2.0	24	84	8	62	41	12	22	22	1.88
234477--234515	17	2.4	17	86	4	53	51	0	2	46	1.14
241139--241206	33	2.1	33	94	0	118	45	1	16	36	1.56
246500--246546	22	2.1	22	84	7	60	51	0	2	46	1.13
247141--247499	177	2.0	177	96	2	668	25	20	15	37	1.93
251894--252304	200	2.0	204	95	3	751	31	16	7	44	1.75
254468--254514	14	3.4	14	76	8	51	46	10	2	40	1.50
273645--273824	29	6.2	29	71	7	107	37	3	15	43	1.63
273773--273834	29	2.1	29	84	0	79	32	3	14	50	1.59
274772--274934	42	3.9	41	86	5	220	19	23	22	33	1.97
274765--274934	84	2.0	84	89	4	263	20	24	22	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
285454--285517	31	2.1	31	100	0	128	25	9	26	39	1.86
292935--292997	28	2.4	27	84	10	78	60	1	6	31	1.31
293267--293314	21	2.3	21	85	7	62	58	2	2	37	1.22
304752--304803	24	2.2	24	82	0	59	9	13	26	50	1.72
304763--304809	24	2.0	24	100	0	94	8	8	25	57	1.57
304768--304823	24	2.3	24	87	0	76	12	8	19	58	1.60
306858--306898	8	5.1	8	91	8	66	9	26	0	63	1.25
310592--310649	24	2.5	24	94	2	100	24	24	24	27	2.00
318810--318837	2	14.0	2	100	0	56	50	0	0	50	1.00
336939--336976	15	2.5	15	91	0	58	71	0	5	23	1.07
336937--336989	26	2.0	26	82	13	65	69	0	3	26	1.05
337001--337188	36	5.3	35	71	16	118	46	5	4	43	1.49
337203--337372	36	4.7	35	76	10	101	44	7	3	44	1.49
337175--337359	37	5.0	38	74	16	131	44	6	3	45	1.45
337059--337299	122	2.0	120	91	4	396	43	6	4	44	1.50
337230--337397	36	4.6	36	77	10	157	45	7	3	43	1.50
337410--337434	8	3.1	8	100	0	50	88	0	0	12	0.53
344134--344191	28	2.1	28	100	0	116	36	3	29	31	1.74
353788--353995	105	2.0	105	97	0	389	25	12	19	43	1.85
354258--354297	2	20.0	2	100	0	80	50	0	0	50	1.00
359321--359380	30	2.0	30	83	3	77	31	11	15	41	1.82
362461--362580	23	5.2	23	73	10	84	35	23	16	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
362483--362570	46	1.9	46	88	0	131	38	23	17	20	1.93
363976--364040	27	2.5	28	76	19	68	20	3	3	73	1.10
364660--364724	33	2.0	33	87	0	94	26	20	13	40	1.89
364875--364920	22	2.1	22	84	15	60	39	0	13	47	1.42
368194--368228	18	1.9	18	94	0	61	37	37	8	17	1.80
368242--368288	23	2.0	23	83	0	58	40	25	4	29	1.75
368921--369048	23	5.5	24	72	9	97	24	16	23	35	1.94
368921--369039	46	2.6	46	81	2	123	25	17	21	35	1.95
372935--372963	15	1.9	15	100	0	58	75	6	0	17	1.01
372940--372979	21	1.9	21	85	10	55	75	5	5	15	1.15
373191--373221	9	3.3	9	91	8	53	90	0	0	9	0.46
373183--373221	10	3.9	10	90	10	62	87	2	0	10	0.65
373183--373221	19	2.0	20	95	5	71	87	2	0	10	0.65
374995--375060	25	2.7	24	82	13	73	60	3	1	34	1.21
374993--375060	28	2.3	30	82	12	88	60	2	1	35	1.21
374995--375060	3	21.7	3	77	14	64	60	3	1	34	1.21
382872--382906	18	1.9	18	94	0	61	14	20	48	17	1.81
387867--387909	22	2.0	22	86	4	61	16	27	11	44	1.82
394529--394647	60	2.0	60	86	0	166	42	12	9	36	1.75
396354--396770	207	2.0	204	97	2	782	35	14	14	35	1.87
400859--400941	41	2.0	41	97	0	157	39	12	15	32	1.84
402517--402549	17	1.9	17	93	0	57	24	21	0	54	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
402947--402989	21	2.0	21	100	0	86	37	30	4	27	1.77
429678--429762	33	2.6	33	77	3	91	45	9	2	42	1.49
432803--432842	20	2.0	19	85	9	53	22	7	15	55	1.65
432969--433046	10	7.1	10	70	18	57	12	11	16	58	1.62
437810--437851	20	2.0	21	86	4	59	69	0	0	30	0.89
441835--441864	2	15.5	2	93	6	53	50	0	0	50	1.00
451997--452043	24	2.0	24	95	0	85	27	21	17	34	1.95
454589--454680	33	2.8	33	88	3	134	47	18	21	11	1.80
454680--454754	19	4.2	19	70	19	63	13	21	22	42	1.87
454690--454755	19	3.7	19	75	19	79	10	22	21	45	1.82
454862--454898	14	2.6	14	91	0	65	45	21	0	32	1.52
456245--456314	21	3.3	21	66	5	52	21	20	35	22	1.96
456787--456870	19	4.6	19	80	15	88	46	26	17	9	1.79
456803--456867	33	1.9	34	90	3	105	49	26	16	7	1.73
456876--457009	19	7.3	19	85	9	179	8	20	22	48	1.76
457098--457473	94	4.1	93	92	2	580	47	18	11	22	1.81
459161--459267	20	5.8	19	78	14	116	48	19	20	11	1.79
459161--459272	19	6.1	19	77	14	117	47	19	21	11	1.81
459268--459360	33	2.8	33	88	1	123	11	21	23	43	1.86
459893--459967	20	3.7	20	85	1	96	21	20	20	38	1.93
459891--459983	41	2.3	40	84	1	123	22	20	20	36	1.95
459891--459989	20	4.9	20	81	4	92	22	20	20	37	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
459911--459998	20	4.3	20	82	2	113	20	20	19	39	1.92
459890--460041	61	2.5	61	76	4	162	25	19	22	32	1.97
474579--474660	21	3.9	21	88	0	119	26	26	23	23	2.00
474737--474892	21	7.4	21	73	16	135	37	23	17	21	1.94
474733--474911	42	4.3	42	91	0	295	37	23	17	21	1.94
474758--474917	21	7.6	20	72	15	110	36	24	18	20	1.94
476790--476821	7	4.6	7	100	0	64	28	0	0	71	0.86
479223--479264	2	21.0	2	100	0	84	50	0	0	50	1.00
481071--481096	2	13.0	2	100	0	52	50	0	0	50	1.00
486612--486645	16	2.1	16	94	0	59	23	20	26	29	1.99
495288--495388	43	2.3	43	91	0	157	44	13	28	12	1.81
498664--498693	6	5.0	6	100	0	60	33	0	16	50	1.46
499221--499286	30	2.2	30	100	0	132	46	3	9	40	1.51
499497--499539	20	2.0	21	82	8	52	39	0	2	58	1.11
501330--501448	42	2.8	42	94	0	211	16	19	19	44	1.87
501651--501758	30	4.0	26	67	21	71	44	0	1	52	1.18
501700--501804	30	3.5	29	77	16	92	44	0	2	52	1.15
501724--501803	28	2.9	27	77	17	83	43	0	2	53	1.14
502131--502169	20	2.0	20	84	0	51	33	17	7	41	1.79
502143--502200	15	3.9	15	86	4	91	29	20	6	43	1.78
502370--502403	13	2.6	14	86	13	54	23	0	8	67	1.18
504161--504216	28	2.0	29	86	10	80	30	1	14	53	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509267--509305	16	2.4	16	91	8	62	33	0	0	66	0.92
511141--511340	102	2.0	100	94	5	350	22	24	17	36	1.95
518512--518549	16	2.4	16	86	8	51	65	5	2	26	1.27
518896--519014	31	3.8	31	84	0	148	42	25	14	17	1.87
518896--519022	62	2.0	62	86	0	173	41	25	14	18	1.88
518937--519024	31	2.8	31	89	0	131	43	27	11	18	1.84
519287--519329	20	2.2	20	86	0	59	32	4	2	60	1.30
523256--523314	23	2.6	22	76	10	57	59	15	10	15	1.61
525620--525909	148	2.0	148	92	0	481	47	10	5	36	1.61
526084--526163	35	2.3	35	91	0	124	33	0	22	43	1.53

Tables:   1   2   3   4   5   6