genome.fa.s8424.2.7.7.80.10.50.1000.2.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: VEPZ01008424.1 Hibiscus syriacus cultivar Beakdansim tig00111207_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4198033

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  2  of  16  ( 1819 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)
223941--223983	22	2.0	22	95	0	77	32	9	30	27	1.88
224085--224131	18	2.6	18	82	3	58	34	12	23	29	1.92
224124--224196	19	3.7	19	88	5	83	28	13	23	34	1.93
224105--224236	20	6.7	20	77	6	108	25	12	23	37	1.91
224105--224196	39	2.3	41	83	5	109	29	13	22	34	1.92
224204--224375	80	2.2	79	84	2	218	26	14	19	40	1.90
224242--224281	20	2.0	20	95	0	71	32	15	12	40	1.84
224248--224287	20	2.0	20	90	0	62	27	17	17	37	1.92
224329--224367	20	2.0	20	84	0	51	25	12	20	41	1.88
224369--224412	21	2.1	21	91	0	70	40	11	22	25	1.87
224420--224473	20	2.7	21	77	8	67	25	14	31	27	1.95
228569--228623	27	2.0	27	96	0	101	47	18	16	18	1.83
236389--236430	22	2.0	22	85	4	59	66	7	9	16	1.42
237883--237927	12	3.8	12	82	11	56	31	13	4	51	1.61
238702--238745	13	3.4	13	87	0	52	50	2	0	47	1.13
238968--239030	14	4.8	13	75	18	60	15	12	14	57	1.66
238955--239015	24	2.5	23	82	12	68	18	11	13	57	1.65
239289--239329	17	2.2	17	87	12	55	2	12	26	58	1.46
250285--250329	22	2.0	22	86	4	63	62	8	15	13	1.54
255057--255088	16	2.0	16	100	0	64	18	31	12	37	1.88
256777--256809	4	8.2	4	100	0	66	24	0	24	51	1.48
260894--260939	23	1.9	23	86	8	65	21	13	8	56	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
268539--269053	54	9.7	54	82	3	589	33	19	24	22	1.97
268856--269038	100	1.8	100	86	0	267	32	19	25	22	1.97
270907--270972	4	16.5	4	100	0	132	25	0	24	50	1.50
274643--274711	35	2.0	35	88	0	102	17	26	31	24	1.97
274847--274892	19	2.4	19	96	0	83	52	6	15	26	1.67
275296--275436	31	4.5	31	94	0	237	19	19	21	39	1.92
275306--275451	62	2.4	62	90	2	204	20	19	22	37	1.94
281232--281270	2	19.5	2	100	0	78	51	0	0	48	1.00
280975--281805	438	1.9	429	82	8	1028	42	12	12	33	1.80
283883--283982	40	2.5	40	80	6	107	33	21	22	24	1.98
289136--289182	18	2.7	18	93	3	78	27	31	8	31	1.87
289704--289866	42	3.8	42	72	17	129	26	14	6	52	1.65
289704--290074	43	8.7	42	72	15	194	26	16	5	50	1.68
289775--289878	44	2.3	44	82	12	124	23	16	3	56	1.56
289843--289950	41	2.7	40	82	5	121	23	17	7	51	1.70
289791--290074	124	2.2	129	81	7	316	26	16	5	51	1.67
289882--290074	86	2.3	85	80	8	223	26	17	6	49	1.70
292375--292405	16	1.9	16	93	0	53	54	6	3	35	1.42
292422--292470	19	2.6	19	100	0	98	46	16	0	36	1.47
292838--292922	32	2.7	32	85	3	100	54	3	9	32	1.50
293708--294282	301	1.9	307	84	6	790	45	13	11	29	1.79
296746--296829	23	3.7	23	82	4	89	21	26	23	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
298542--298749	106	2.0	106	99	0	407	31	12	20	36	1.89
300957--301248	43	6.8	43	89	3	428	17	27	23	31	1.97
305053--305085	2	16.5	2	100	0	66	51	0	0	48	1.00
308336--308367	2	16.5	2	93	6	57	50	0	0	50	1.00
313478--313572	48	2.0	48	81	4	111	27	12	31	28	1.93
321862--321887	5	5.2	5	100	0	52	80	0	19	0	0.71
321841--321890	14	3.5	14	81	10	57	82	0	16	2	0.77
322667--322739	36	2.0	36	84	5	94	38	4	19	38	1.71
322733--322772	16	2.3	18	87	8	57	47	0	17	35	1.48
342613--342689	24	3.4	24	72	17	74	79	0	14	6	0.92
344966--345180	64	3.3	64	78	9	204	33	14	12	40	1.83
346867--346944	22	3.2	22	67	32	61	17	8	10	62	1.52
346741--346971	51	4.5	51	86	1	302	21	10	9	58	1.59
347048--347081	18	1.9	17	88	5	50	26	0	5	67	1.13
348644--348904	20	11.6	20	66	21	90	43	11	24	21	1.85
348624--349127	183	2.7	183	86	3	678	44	10	22	22	1.83
348624--349123	229	2.2	229	86	3	677	44	10	22	22	1.83
349011--349088	20	3.6	20	71	18	66	43	10	23	23	1.84
349089--349159	33	2.2	33	89	5	108	46	9	21	22	1.80
348624--349126	46	11.0	46	85	3	647	44	10	22	22	1.83
349133--349172	20	2.0	21	90	5	64	40	12	25	22	1.89
351376--351417	2	22.0	2	90	9	70	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)
353538--353589	20	2.6	20	87	9	79	30	17	32	19	1.95
353620--353684	22	3.2	19	75	14	58	32	13	24	29	1.94
353818--353889	13	5.5	13	73	12	67	51	11	20	16	1.75
353812--353915	26	4.0	26	91	2	156	48	11	23	17	1.79
353908--354231	20	14.7	20	70	19	182	43	10	25	20	1.84
353881--354271	46	8.7	41	81	10	241	44	10	24	20	1.83
353928--354290	46	8.0	46	87	4	490	44	10	23	20	1.83
354196--354258	12	5.4	12	68	21	53	42	11	26	19	1.84
354198--354283	20	4.0	20	76	16	55	45	12	24	17	1.83
382144--382594	55	8.3	55	85	1	523	35	15	17	30	1.92
388590--388757	83	2.0	83	83	4	214	30	11	22	35	1.90
388594--388783	83	2.3	82	80	5	211	32	13	18	35	1.90
389242--389294	21	2.5	22	75	9	56	18	13	24	43	1.86
389291--389343	22	2.4	22	93	0	88	43	7	16	32	1.76
392664--392712	21	2.3	22	75	10	57	46	14	34	4	1.63
393655--394111	55	8.3	55	85	0	592	35	15	17	31	1.92
397792--397897	6	16.8	6	69	15	54	71	0	22	4	1.10
397792--397866	24	3.2	24	81	7	75	73	0	20	6	1.05
397858--397895	19	1.9	19	89	5	58	68	2	28	0	1.03
405659--405743	6	13.5	6	73	22	68	77	1	17	3	0.97
405684--405754	15	5.2	13	75	23	58	78	1	16	2	0.94
405692--405739	23	2.0	24	88	8	71	81	2	16	0	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
405656--405754	21	5.0	19	71	21	71	76	1	18	4	0.99
405620--405728	43	2.5	44	72	16	104	76	3	15	4	1.10
405649--405754	11	9.7	11	70	20	71	76	0	18	3	0.99
408527--408556	15	1.9	16	93	6	53	20	26	0	53	1.46
408769--408817	25	2.0	25	87	0	71	75	4	16	4	1.11
409092--409125	17	2.0	17	94	0	59	32	32	0	35	1.58
415493--415675	64	2.8	64	80	8	163	31	19	10	38	1.85
418639--419879	629	2.0	631	93	0	2155	34	12	18	34	1.88
428888--428948	24	2.5	24	94	0	104	34	21	22	21	1.97
428946--429005	24	2.5	24	86	2	77	33	20	15	31	1.93
434257--434305	3	16.3	3	100	0	98	32	0	0	67	0.91
434861--434885	13	1.9	13	100	0	50	60	0	0	40	0.97
440673--440978	155	2.0	156	92	0	506	34	31	13	20	1.91
441010--441092	24	3.5	24	86	0	112	43	18	12	26	1.84
442992--443065	30	2.5	30	88	4	105	36	16	25	21	1.94
444582--444607	13	2.0	13	100	0	52	38	23	15	23	1.92
447233--447272	6	6.7	6	94	0	71	67	17	15	0	1.23
448088--448127	14	2.8	14	88	3	53	57	0	5	37	1.21
449697--449737	6	7.3	6	81	15	52	80	0	0	19	0.71
449656--449726	11	6.8	10	72	19	56	76	1	2	19	0.99
449697--449737	22	1.9	22	90	5	66	80	0	0	19	0.71
449690--449734	16	3.1	15	84	12	58	82	0	2	15	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
449661--449737	33	2.3	36	77	20	87	75	1	2	20	1.00
451044--451112	26	2.7	24	77	16	66	79	0	4	15	0.88
451072--451113	7	5.9	7	83	5	57	83	0	0	16	0.65
451073--451113	11	3.6	11	90	3	64	82	0	0	17	0.66
451191--451250	2	30.5	2	86	3	86	50	0	3	46	1.18
451232--451508	37	7.6	37	70	19	158	45	6	2	45	1.43
451244--451375	63	2.1	63	80	8	144	43	6	3	47	1.43
451293--451355	26	2.5	26	87	7	94	44	7	3	44	1.49
451322--451421	38	2.6	38	75	17	100	44	7	4	45	1.49
451405--451520	36	3.1	37	82	7	137	48	9	0	41	1.42

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16