genome.fa.s9644.2.7.7.80.10.50.1000.3.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: VEPZ01009644.1 Hibiscus syriacus cultivar Beakdansim tig00117060_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  611714

Tables:   1   2   3   4   

This is table  3  of  4  ( 419 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)
352575--352633	18	3.2	18	79	11	66	47	5	1	45	1.34
352547--352634	29	2.9	29	74	22	83	48	4	2	44	1.35
352811--352893	19	3.9	20	72	23	71	42	0	30	27	1.56
352856--352896	20	2.1	19	90	4	64	43	0	31	24	1.54
352811--352912	46	2.2	45	86	8	134	44	0	28	27	1.55
353306--353389	20	4.1	21	90	4	102	50	3	1	45	1.27
353317--353380	2	32.0	2	90	6	103	50	1	0	48	1.10
353419--353461	7	6.1	7	88	0	59	44	37	0	18	1.50
353583--353734	57	2.6	58	80	11	168	42	8	9	40	1.67
353625--353668	20	2.2	20	84	4	54	45	6	9	38	1.63
353659--353712	24	2.3	23	84	6	65	40	7	5	46	1.55
353729--353838	36	3.3	35	68	21	101	39	5	8	47	1.57
353765--353816	20	2.5	21	87	3	79	40	5	5	48	1.51
353744--353845	22	4.8	22	74	16	88	37	4	8	49	1.56
353834--354109	15	17.4	14	69	22	99	45	3	2	48	1.33
353881--353941	14	4.3	14	74	12	52	44	6	3	45	1.46
353834--354109	65	4.3	65	78	13	263	45	3	2	48	1.33
353857--353945	43	2.1	41	87	8	126	44	6	2	46	1.42
353748--353982	116	2.0	115	79	9	246	41	5	5	48	1.47
353959--354005	24	1.9	25	86	4	69	40	2	4	53	1.32
353828--354106	31	8.7	31	69	19	139	44	3	2	48	1.34
353998--354112	44	2.4	45	80	11	124	49	1	0	47	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
354027--354243	6	37.3	6	67	22	76	48	0	4	47	1.24
353827--354108	131	2.2	125	81	12	308	45	3	2	48	1.34
354178--354210	15	2.2	15	94	0	57	45	3	0	51	1.16
354202--354243	17	2.3	19	88	12	61	45	0	2	52	1.13
354750--354830	25	3.2	25	84	3	83	48	17	9	24	1.77
354763--354831	25	2.8	25	88	0	102	49	15	11	23	1.77
355675--355728	23	2.3	24	96	3	101	48	9	0	42	1.35
355946--356002	16	3.6	16	79	11	64	42	12	19	26	1.86
356458--357003	149	3.7	146	85	4	701	33	18	12	35	1.89
356467--357003	296	1.8	290	85	4	747	32	18	12	35	1.89
362264--362492	57	4.0	57	91	0	341	15	19	30	34	1.93
364188--364220	17	1.9	17	88	11	50	42	0	6	51	1.26
364186--364262	21	3.8	20	70	19	61	46	1	5	46	1.33
364261--364309	22	2.2	22	85	7	73	34	10	0	55	1.34
364457--364502	24	1.9	24	86	8	67	50	0	10	39	1.38
367006--367100	32	3.0	30	73	4	82	20	25	26	28	1.99
375810--375978	3	57.0	3	94	2	297	65	0	1	32	1.04
376165--376612	130	3.4	130	90	3	641	25	19	30	25	1.98
376262--376638	40	8.7	42	71	16	213	23	19	32	24	1.97
376255--376652	134	3.0	134	90	2	592	23	19	32	25	1.97
376658--376753	28	3.3	28	83	12	106	44	13	15	26	1.83
376755--376937	66	2.8	63	72	8	152	38	14	19	26	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
377730--377856	37	3.6	37	69	19	117	44	11	12	31	1.77
377773--377903	30	4.1	30	72	21	115	41	12	12	33	1.81
377719--377886	67	2.5	67	97	0	311	45	11	13	30	1.78
377835--377912	30	2.7	29	81	15	90	43	15	8	32	1.78
377891--377994	52	2.0	53	94	3	183	37	16	12	33	1.86
377986--378074	29	3.1	29	88	8	128	44	12	12	30	1.79
377991--378088	28	3.4	27	79	13	99	47	14	12	25	1.78
378333--378436	36	3.0	36	81	4	124	37	11	18	32	1.87
378334--378452	36	3.4	36	79	6	111	37	12	19	30	1.89
378404--378636	105	2.3	101	85	8	292	37	12	19	30	1.89
380284--380318	12	2.8	12	86	4	52	5	11	11	71	1.30
386029--386101	3	25.0	3	83	5	96	65	1	2	30	1.15
386034--386101	32	2.1	32	91	0	109	66	1	2	29	1.15
386036--386106	14	5.1	14	76	8	65	69	1	2	26	1.11
388734--388864	44	3.0	44	88	2	192	34	21	20	23	1.97
393166--393419	3	84.7	3	75	9	124	35	7	3	54	1.43
393332--393419	38	2.3	38	90	3	133	36	9	0	54	1.32
394460--394540	39	2.1	39	88	0	117	51	11	9	27	1.68
395625--395778	45	3.4	45	90	2	238	31	24	6	37	1.81
395775--395817	20	2.2	20	91	0	68	55	20	4	18	1.60
395879--396007	59	2.2	59	84	4	170	28	25	17	27	1.98
398231--398384	58	2.7	57	81	3	191	38	22	7	31	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
398221--398383	29	5.7	29	74	11	138	40	21	6	31	1.79
398384--398460	22	3.5	23	80	8	106	10	27	44	18	1.82
401740--402019	138	2.0	137	85	6	370	29	12	16	40	1.86
414961--415318	131	2.7	131	86	1	495	34	9	17	38	1.82
418684--418723	14	2.9	14	84	0	53	80	0	12	7	0.91
419571--420073	105	4.8	105	84	3	611	38	16	18	25	1.92
420371--420718	3	119.3	3	71	11	179	35	5	4	55	1.42
420537--420718	56	3.3	56	87	7	232	36	6	1	56	1.32
422749--422775	2	13.5	2	100	0	54	51	0	0	48	1.00
432173--432197	5	5.0	5	100	0	50	20	0	0	80	0.72
432324--432364	2	20.5	2	100	0	82	51	0	0	48	1.00
440579--440633	23	2.3	25	84	6	78	60	12	18	9	1.58
440631--440663	14	2.2	15	89	10	50	81	0	18	0	0.68
440631--440663	5	6.6	5	89	10	50	81	0	18	0	0.68
443629--443809	91	2.0	91	80	6	206	22	25	22	30	1.99
459947--460001	5	10.8	5	75	16	51	7	14	0	78	0.96
459959--460001	15	2.9	15	86	3	61	9	13	0	76	1.01
459954--460001	20	2.4	20	92	0	78	8	14	0	77	0.99
462264--462301	15	2.5	15	91	0	67	31	26	2	39	1.70
470107--470145	19	2.1	19	85	9	53	53	10	7	28	1.62
473151--473711	243	2.3	243	81	4	637	36	20	15	27	1.93
473927--473998	35	2.1	35	83	0	90	34	23	13	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
476177--476297	60	2.0	60	100	0	242	38	16	19	25	1.93
476352--476442	36	2.7	33	82	12	121	45	21	12	20	1.84
476370--476443	36	2.1	36	97	0	139	41	22	12	22	1.87
482169--482202	6	5.5	6	92	3	50	20	17	0	61	1.34
485808--485854	18	2.6	18	82	0	58	21	25	14	38	1.92
498141--498217	30	2.6	29	79	8	84	24	20	10	44	1.83
498385--498529	57	2.5	57	82	8	197	31	31	12	24	1.92
498499--498629	43	2.9	45	85	6	158	32	31	15	20	1.94
498498--498671	48	3.7	48	84	7	182	33	30	13	22	1.93
502810--502849	21	2.0	20	85	5	53	37	20	15	27	1.92
515291--515333	22	2.0	22	86	4	61	58	2	4	34	1.32
518404--518444	22	1.9	22	85	5	57	36	31	17	14	1.90
518926--518965	14	2.9	14	78	14	55	32	15	5	47	1.66
520608--520660	22	2.5	22	79	14	65	43	0	41	15	1.46
522423--522453	12	2.6	12	100	0	62	25	41	0	32	1.56
525966--526012	22	2.1	24	84	11	64	55	8	14	21	1.66
528065--528125	12	5.1	12	76	11	63	1	22	0	75	0.89
528054--528141	36	2.5	36	77	15	103	5	22	0	71	1.07
528205--528320	41	2.8	41	75	3	117	31	20	20	27	1.98
528633--528701	23	3.0	23	97	0	129	27	13	2	56	1.51
534165--534216	18	2.9	18	91	0	77	26	30	21	21	1.98
534683--534724	2	20.5	2	85	4	57	47	4	2	45	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
534663--534725	29	2.2	28	81	15	76	47	9	1	41	1.45
535739--535792	21	2.5	22	85	11	76	24	31	16	27	1.96
540230--540594	84	4.4	84	82	1	365	24	18	23	33	1.97
540287--540590	168	1.8	168	84	1	421	24	17	23	34	1.96
542339--542601	95	2.7	95	85	4	323	32	16	17	33	1.92
546702--546778	30	2.7	28	78	6	75	74	3	9	12	1.20
546740--546779	18	2.2	18	91	8	64	80	0	5	15	0.88
546954--547056	9	11.4	9	73	20	51	65	1	1	31	1.15
546919--547055	28	4.9	28	74	14	86	67	1	3	27	1.16
547028--547053	3	8.7	3	100	0	52	69	0	0	30	0.89

Tables:   1   2   3   4