genome.fa.s235.2.7.7.80.10.50.1000.2.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: VEPZ01000235.1 Hibiscus syriacus cultivar Beakdansim tig00000405_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  589249

Tables:   1   2   3   

This is table  2  of  3  ( 271 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)
257249--257329	10	7.1	10	72	24	63	60	19	9	9	1.56
257259--257335	23	3.0	25	81	16	88	61	20	9	9	1.53
257248--257329	37	2.4	34	87	8	112	60	19	9	9	1.55
257276--257329	23	2.3	23	96	0	99	62	22	7	7	1.46
261155--261191	19	1.9	19	88	0	56	35	29	13	21	1.92
261226--261270	20	2.3	20	88	3	65	20	17	20	42	1.90
261470--261507	17	2.2	17	100	0	76	31	36	5	26	1.79
262161--262214	24	2.2	24	90	0	81	20	20	20	38	1.93
262404--262440	14	2.6	14	91	4	56	51	21	21	5	1.68
262566--262600	18	1.9	18	94	0	61	54	25	2	17	1.57
262771--262827	20	2.8	20	81	0	69	29	17	22	29	1.97
262866--262908	19	2.2	20	91	4	70	13	18	23	44	1.86
262866--262922	20	2.9	20	87	7	73	14	19	26	40	1.89
262974--263152	71	2.6	69	82	12	192	51	16	2	29	1.59
264442--264562	42	2.9	42	80	7	147	23	19	36	21	1.95
264442--264556	21	5.5	21	73	4	97	21	19	37	21	1.94
265040--265083	20	2.2	20	95	0	79	50	22	13	13	1.77
265070--265117	20	2.4	20	89	0	69	35	25	18	20	1.95
265123--265180	19	3.0	19	84	2	80	51	22	15	10	1.73
267135--267175	20	2.0	20	90	0	64	58	17	12	12	1.63
267142--267211	20	3.5	20	86	0	77	44	22	17	15	1.86
267150--267240	20	4.7	19	82	6	85	45	21	17	15	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
267631--267687	22	2.6	22	88	0	87	19	19	42	19	1.90
275402--275434	16	2.1	16	100	0	66	42	6	0	51	1.26
278996--279037	13	3.4	13	74	12	52	61	0	14	23	1.32
278986--279036	24	2.1	24	100	0	102	60	0	11	27	1.31
278992--279043	24	2.2	24	89	0	77	63	0	13	23	1.29
284028--284060	6	5.5	6	96	0	57	12	15	18	54	1.71
286886--287286	117	3.4	117	94	0	694	18	15	33	32	1.92
291396--291438	20	2.2	20	86	0	59	32	13	13	39	1.85
295885--295927	20	2.2	20	86	0	59	34	11	16	37	1.85
300621--301019	117	3.4	117	93	0	672	17	14	33	34	1.90
309221--310171	106	9.0	106	91	0	1456	23	18	24	34	1.96
311703--311774	22	3.2	21	77	13	72	4	13	8	73	1.21
311703--311792	46	2.0	46	86	4	128	6	12	8	72	1.28
312932--312957	7	3.7	7	100	0	52	53	15	15	15	1.73
314716--314755	21	2.0	20	85	5	53	72	2	10	15	1.21
319847--319928	23	3.5	24	73	14	73	18	17	18	46	1.85
326623--326653	11	2.8	11	95	0	53	29	25	9	35	1.88
334802--334846	24	1.9	24	95	4	83	28	22	28	20	1.98
334796--334878	23	3.5	24	79	11	75	34	24	22	18	1.96
334845--334908	24	2.7	24	83	9	69	35	25	15	23	1.94
334866--334916	24	2.2	23	82	10	59	33	23	17	25	1.96
337527--337655	65	2.0	65	95	0	231	26	17	17	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
342319--342387	26	2.7	26	90	4	104	37	4	0	57	1.18
346493--346530	18	2.2	18	90	4	60	21	10	5	63	1.46
352070--352107	15	2.5	15	100	0	76	23	13	0	63	1.30
361582--361636	17	3.4	16	80	10	58	21	34	27	16	1.95
361568--361636	32	2.2	32	91	0	111	23	33	26	17	1.96
361568--361624	15	3.7	15	79	9	69	22	35	26	15	1.94
363244--363292	14	3.8	14	74	20	61	8	16	26	48	1.73
363251--363303	24	2.3	23	90	9	83	9	15	22	52	1.70
363272--363318	21	2.3	21	85	3	60	14	12	17	55	1.70
364394--364456	16	4.1	16	83	8	85	9	14	20	55	1.67
364395--364440	14	3.1	14	87	6	65	8	13	21	56	1.63
364395--364457	30	2.1	30	90	0	99	9	14	20	55	1.67
365119--365174	25	2.2	25	84	6	69	17	3	37	41	1.67
375034--375114	42	1.9	42	89	0	126	28	3	19	48	1.66
375028--375272	125	2.0	120	85	8	329	28	7	17	46	1.75
400027--400110	41	2.0	42	86	2	116	26	2	15	55	1.52
405388--405422	16	2.2	16	100	0	70	40	5	17	37	1.73
410961--411005	3	15.0	3	95	0	81	64	2	0	33	1.06
411685--411752	21	3.2	21	82	12	84	42	0	5	51	1.26
411698--411752	22	2.6	21	86	11	76	43	0	3	52	1.18
412104--412164	25	2.4	25	94	2	104	37	34	11	16	1.85
416399--416603	64	3.2	64	83	2	216	33	20	18	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
419274--419478	64	3.2	64	83	2	216	33	20	18	27	1.96
420092--420278	31	6.0	31	93	1	313	19	18	22	39	1.92
425936--425982	2	23.5	2	91	0	76	48	4	0	46	1.21
431545--431604	18	3.4	17	81	6	66	43	0	6	50	1.28
431587--431748	22	7.1	22	79	12	148	40	1	6	52	1.34
431544--431631	18	4.7	17	70	21	61	43	0	6	50	1.29
431533--431633	17	5.4	18	73	17	73	41	0	7	50	1.31
431797--431822	13	2.0	13	100	0	52	23	0	0	76	0.78
432791--432834	20	2.2	20	100	0	88	34	4	25	36	1.76
433141--433181	20	2.0	21	90	4	66	12	21	0	65	1.25
434314--434476	77	2.1	79	87	7	237	38	11	4	44	1.62
435571--435620	21	2.4	22	80	10	59	76	0	6	18	0.99
438446--438515	12	5.6	12	72	14	52	72	1	5	20	1.12
439491--439524	13	2.6	13	95	0	59	76	0	11	11	1.02
439656--439685	3	10.0	3	92	0	51	70	0	0	30	0.88
442868--442992	65	1.9	65	82	6	155	33	21	17	27	1.96
442897--443056	65	2.5	65	83	6	191	31	24	16	26	1.96
443028--443072	19	2.4	18	85	10	56	26	24	20	28	1.99
448871--448950	24	3.5	24	69	20	73	23	25	21	30	1.99
451585--451726	65	2.2	64	83	8	173	31	23	18	26	1.97
452599--452623	12	2.1	12	100	0	50	76	0	0	24	0.80
459249--459295	23	2.0	23	91	0	76	34	12	31	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
464153--464446	150	2.0	149	91	2	475	30	16	11	41	1.83
464508--465492	113	8.8	113	91	1	1550	44	14	18	21	1.86
469762--469901	36	3.9	35	80	2	163	37	19	22	20	1.94
471639--471666	14	2.0	14	100	0	56	42	7	14	35	1.73
475086--475689	168	3.6	166	83	5	635	34	10	11	44	1.74
480948--480979	2	16.0	2	100	0	64	50	0	0	50	1.00
484021--484063	12	3.7	11	78	9	50	74	4	2	18	1.10
489125--489153	9	3.3	9	90	9	51	75	0	13	10	1.04
489499--489568	18	3.7	19	71	16	56	62	2	2	31	1.24
490046--490142	37	2.6	37	83	0	131	31	12	15	40	1.84
490873--492341	106	14.0	106	88	3	2102	23	18	24	34	1.96
491789--491944	43	3.4	43	68	13	132	21	17	25	34	1.96
493166--493235	22	3.2	22	89	0	104	22	14	24	38	1.91
493862--493918	17	3.1	19	82	12	66	0	15	3	80	0.84
498299--498328	4	7.2	4	92	7	51	73	0	3	23	0.98
499160--499264	37	2.8	37	85	0	147	30	15	14	40	1.87
500701--501041	169	2.0	170	98	1	659	34	20	12	33	1.89
501413--501458	24	1.9	24	100	0	92	41	15	13	30	1.85
508768--509252	43	11.2	43	89	2	729	18	22	23	35	1.95
508768--509252	173	2.8	173	90	1	758	18	22	23	35	1.95
508768--509252	130	3.7	130	90	1	749	18	22	23	35	1.95
519721--519797	37	2.1	37	85	4	102	48	1	3	46	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
519943--519980	20	1.9	20	88	0	58	21	26	10	42	1.85
523755--523815	18	3.6	18	66	28	51	21	16	1	60	1.44
523765--523828	33	1.9	33	93	0	110	21	21	1	54	1.53
523997--524058	3	19.3	3	87	12	72	33	1	0	64	1.03
523997--524058	27	2.4	26	86	7	90	33	1	0	64	1.03
525500--525528	12	2.3	13	94	5	51	31	0	0	68	0.89
529285--529960	106	6.6	105	91	4	1002	34	25	17	23	1.96
529532--529781	43	5.4	43	68	14	167	35	25	17	21	1.95
529669--529817	51	3.1	51	66	15	143	32	25	17	24	1.97
530085--530190	36	2.9	36	92	0	176	26	22	14	36	1.92

Tables:   1   2   3