genome.fa.s8999.2.7.7.80.10.50.1000.2.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: VEPZ01008999.1 Hibiscus syriacus cultivar Beakdansim tig00112380_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  605736

Tables:   1   2   3   

This is table  2  of  3  ( 290 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)
340610--340671	22	2.8	22	80	0	79	22	11	25	40	1.87
342542--342585	23	1.9	23	90	0	70	54	18	6	20	1.66
347009--347039	6	5.0	6	96	4	53	19	0	0	80	0.71
346991--347037	12	3.5	13	83	13	60	23	0	2	74	0.93
347303--347335	9	3.8	9	88	4	50	30	6	3	60	1.36
347302--347335	17	1.9	18	94	5	61	29	5	5	58	1.45
348159--348201	20	2.1	21	86	4	61	51	2	0	46	1.13
349697--349737	11	3.9	11	84	12	50	31	0	2	65	1.05
350096--350193	21	4.8	20	76	6	79	38	22	17	21	1.93
350160--350389	20	11.5	20	81	5	232	36	24	18	19	1.94
351070--351116	24	2.0	24	87	8	69	25	14	21	38	1.92
353597--353807	33	6.2	34	81	13	224	45	18	21	13	1.84
353611--353813	19	11.7	19	74	20	203	45	18	21	14	1.85
353639--353813	52	3.3	52	97	0	323	45	17	22	14	1.85
353803--353919	53	2.2	52	93	4	200	15	23	17	44	1.86
353822--353919	19	5.4	19	85	13	143	16	21	16	45	1.85
353806--353919	52	2.2	53	93	4	196	15	22	16	44	1.86
353884--353927	19	2.3	19	88	0	61	20	20	13	45	1.85
354026--354062	14	2.6	14	91	0	65	45	21	0	32	1.52
355989--356161	19	9.6	19	79	12	168	46	23	19	10	1.81
356083--356139	14	3.7	14	77	20	60	45	22	21	10	1.82
356064--356156	33	2.8	33	95	0	168	47	21	20	10	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
356157--356285	19	7.3	19	73	17	116	8	16	28	46	1.76
356157--356248	33	2.8	33	90	3	141	7	17	28	46	1.75
356333--356708	93	4.1	93	98	0	727	45	19	12	22	1.84
358408--358504	20	5.2	20	72	18	100	46	17	24	11	1.81
358406--358470	21	3.1	21	82	4	96	47	15	26	10	1.78
358455--358511	14	3.7	14	75	20	60	43	22	24	8	1.81
358406--358528	33	3.5	33	90	8	165	46	18	24	10	1.81
358571--358648	41	1.9	41	97	0	147	12	25	16	44	1.83
358572--358647	21	3.7	21	83	3	109	11	25	17	46	1.82
358727--358797	33	2.2	33	92	0	115	47	18	22	11	1.80
358979--359033	22	2.5	22	81	0	74	20	16	40	23	1.91
359180--359353	20	8.6	20	82	3	215	20	19	25	34	1.96
359182--359353	60	2.8	60	86	2	247	20	19	25	34	1.96
359340--359422	21	4.0	21	73	6	78	25	16	24	33	1.96
359321--359418	42	2.4	40	77	8	108	21	17	24	36	1.94
360901--361399	211	2.4	208	88	4	718	23	11	27	37	1.89
361355--361443	38	2.4	37	80	9	108	14	8	35	40	1.78
362827--363008	93	2.0	91	92	4	303	35	21	13	29	1.92
365650--365789	29	4.9	28	73	12	104	34	16	24	25	1.95
365645--365789	58	2.5	58	77	2	148	34	16	24	24	1.95
365850--365879	2	15.0	2	92	0	51	50	3	0	46	1.18
374233--374277	18	2.5	18	92	0	72	35	37	2	24	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
379403--379496	29	3.3	27	81	11	100	45	17	18	19	1.85
379416--379515	29	3.5	28	80	11	98	41	17	20	22	1.91
379596--379643	18	2.7	18	83	6	62	10	4	35	50	1.56
379596--379649	16	3.1	16	80	15	54	14	3	31	50	1.61
380913--381093	59	3.1	59	86	0	245	32	22	16	29	1.96
384005--384084	23	3.5	22	77	11	81	45	2	8	43	1.48
384004--384308	45	6.9	43	71	17	146	44	4	6	44	1.49
384007--384173	21	7.7	21	69	16	99	41	5	8	43	1.59
384188--384242	21	2.7	20	75	5	56	49	5	5	40	1.49
384212--384286	38	2.1	35	87	7	105	48	1	4	46	1.29
384234--384260	2	13.5	2	100	0	54	51	0	0	48	1.00
384244--384300	24	2.3	26	85	11	75	49	0	1	49	1.11
386321--386382	20	3.1	20	90	0	97	30	20	17	30	1.96
390411--390481	19	3.7	19	100	0	142	16	21	30	30	1.95
390449--390534	45	1.9	45	90	4	138	27	19	25	26	1.99
392926--392970	2	22.5	2	100	0	90	48	0	0	51	1.00
393920--394045	68	1.9	67	88	1	171	37	19	14	29	1.91
394314--394356	17	2.5	17	82	17	54	30	6	6	55	1.53
394590--394616	4	6.8	4	100	0	54	22	0	0	77	0.76
394923--394962	20	2.0	20	90	0	62	22	17	12	47	1.81
395699--395882	89	2.1	89	96	0	341	33	15	14	37	1.87
396090--396133	19	2.3	20	81	14	58	22	22	18	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
396173--396222	20	2.5	19	87	12	66	26	28	20	26	1.99
399770--399806	3	12.3	3	100	0	74	32	0	0	67	0.91
408934--408964	16	1.9	16	93	0	53	48	3	0	48	1.17
412787--412811	7	3.6	7	100	0	50	28	0	0	72	0.86
414338--414382	16	2.8	16	86	3	63	75	0	0	24	0.80
416393--416743	59	5.9	59	91	0	542	32	21	11	33	1.90
417008--417054	19	2.5	19	96	0	85	34	25	4	36	1.76
417076--417133	22	2.7	22	79	10	59	25	22	17	34	1.96
423343--423688	59	5.9	59	90	1	525	32	22	12	33	1.91
424011--424082	21	3.4	20	78	14	74	25	30	13	30	1.94
424117--424173	20	2.7	21	89	5	80	26	29	15	28	1.96
425176--425235	21	2.8	22	78	14	79	28	16	18	36	1.93
436193--436237	19	2.4	18	77	3	54	57	11	0	31	1.33
446512--446573	29	2.1	29	84	6	79	32	16	8	43	1.77
449809--449882	23	3.2	23	98	0	139	21	16	12	50	1.77
453028--453072	23	2.0	23	82	8	56	33	6	17	42	1.76
453867--453937	2	35.5	2	74	23	53	46	4	4	45	1.42
457131--457170	18	2.2	18	95	0	71	27	10	22	40	1.86
458331--458626	43	6.9	43	69	11	153	25	17	26	31	1.97
459018--459069	21	2.6	19	77	19	52	7	26	17	48	1.74
459032--459081	21	2.4	21	86	0	64	2	32	20	46	1.62
459051--459156	21	4.9	21	78	3	95	1	37	18	41	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
466652--466698	22	2.1	23	88	7	71	42	12	10	34	1.78
468638--468856	41	5.3	41	81	5	239	31	18	16	33	1.93
468691--468757	22	3.2	22	60	20	52	22	17	20	38	1.93
468645--468837	82	2.4	82	86	4	266	28	18	17	36	1.93
468907--468986	41	2.0	41	82	9	101	28	18	16	36	1.93
470886--470921	18	2.0	18	100	0	72	38	44	5	11	1.63
470945--470981	3	12.3	3	100	0	74	67	0	0	32	0.91
476739--476828	32	2.8	31	77	12	92	31	15	25	27	1.96
478785--478833	14	3.5	14	78	10	55	44	2	2	51	1.24
478841--478928	22	3.9	22	76	11	88	43	1	9	46	1.42
478960--479001	22	1.9	22	85	0	57	38	2	11	47	1.53
478992--479035	21	2.0	22	86	4	63	31	2	2	63	1.19
479024--479103	34	2.5	33	80	13	87	13	10	1	75	1.12
479063--479105	11	3.8	11	87	9	52	16	6	0	76	0.99
479040--479107	28	2.4	28	76	11	75	16	8	1	73	1.15
484871--484909	18	2.2	18	85	0	51	43	2	17	35	1.63
492328--492502	22	7.4	22	74	20	85	45	2	8	44	1.45
492325--492480	26	6.3	26	75	18	106	45	2	7	44	1.46
492351--492428	21	3.6	21	76	11	77	44	2	7	44	1.46
492325--492506	96	1.9	94	83	6	233	45	2	7	45	1.44
492511--492589	24	3.5	22	74	17	72	18	3	0	77	0.92
492519--492607	6	15.5	6	76	19	84	16	4	0	78	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
492519--492589	23	3.1	23	84	8	83	16	4	0	78	0.90
492538--492606	17	4.2	16	83	12	95	17	4	0	78	0.91
492537--492608	33	2.1	34	94	2	128	18	4	0	77	0.92
492518--492607	11	7.9	11	74	19	78	17	4	0	77	0.92
502287--502389	38	2.8	38	88	8	144	32	9	27	31	1.89
518822--519060	121	2.0	122	98	0	462	29	17	17	35	1.93
521615--521643	15	2.0	15	93	6	51	51	27	0	20	1.47
522945--522984	21	2.0	21	90	5	64	60	12	0	27	1.33
524986--525036	25	2.0	25	100	0	102	35	15	7	41	1.76
534767--534800	18	1.9	18	88	5	52	14	26	32	26	1.95

Tables:   1   2   3