genome.fa.s7877.2.7.7.80.10.50.1000.2.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: VEPZ01007877.1 Hibiscus syriacus cultivar Beakdansim tig00110253_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  614694

Tables:   1   2   3   4   

This is table  2  of  4  ( 420 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)
200858--200886	2	15.0	2	92	7	51	48	0	0	51	1.00
202413--202481	30	2.3	30	89	0	102	23	8	31	36	1.85
203467--203505	18	2.2	18	86	9	53	38	2	2	56	1.27
208045--208093	18	2.6	19	80	3	55	55	2	2	40	1.23
222850--222984	42	3.3	42	94	3	231	44	19	25	10	1.82
223684--223718	10	3.3	10	85	14	52	42	0	0	57	0.99
223684--223733	22	2.3	22	89	6	75	48	0	0	52	1.00
228217--228707	134	3.7	133	88	3	668	24	17	30	26	1.97
228722--228797	28	2.7	28	84	8	84	53	13	10	22	1.69
229202--229340	65	2.2	63	88	2	197	43	13	11	31	1.80
229206--229340	63	2.1	64	87	2	191	42	14	11	31	1.81
229441--229562	32	3.8	32	70	10	95	43	12	15	28	1.83
229503--229580	31	2.5	30	83	8	95	38	11	16	33	1.85
229603--229676	30	2.5	30	84	0	85	40	10	21	27	1.86
229890--229948	31	1.9	31	89	3	93	40	16	13	28	1.87
229890--229971	31	2.6	30	80	5	92	37	15	15	30	1.90
229980--230123	36	4.0	35	75	9	123	37	11	15	34	1.85
230062--230309	109	2.3	105	80	11	276	40	10	17	31	1.83
230699--230932	116	2.0	117	99	0	461	29	10	21	39	1.86
230955--230994	16	2.5	16	87	0	53	25	2	25	47	1.64
234664--234724	32	1.9	32	93	3	106	59	11	16	13	1.62
238568--238620	21	2.5	21	87	0	79	20	24	20	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
238610--238660	20	2.5	20	93	0	84	35	19	21	23	1.96
239288--239353	20	3.3	20	85	2	89	12	15	22	50	1.77
241072--241121	18	2.8	18	100	0	100	32	20	6	42	1.76
241269--241356	20	4.4	20	82	0	86	38	23	18	19	1.93
241276--241354	40	2.0	40	89	0	122	41	21	16	20	1.90
241399--241450	20	2.6	20	93	0	86	19	19	26	34	1.95
241399--241462	20	3.3	19	86	4	76	17	18	26	37	1.93
241983--242062	42	1.9	42	82	5	99	23	37	18	20	1.94
243857--243917	32	1.9	32	93	3	106	59	11	16	13	1.62
247764--247816	21	2.5	21	87	0	79	20	24	20	33	1.97
247806--247856	20	2.5	20	93	0	84	35	19	21	23	1.96
248481--248568	20	4.4	20	85	1	88	14	15	23	45	1.84
248532--248575	20	2.2	20	91	0	70	11	13	20	54	1.69
250168--250217	18	2.8	18	100	0	100	32	20	6	42	1.76
250365--250452	20	4.4	20	88	0	122	36	23	21	18	1.95
250500--250546	20	2.3	20	85	0	58	23	17	23	36	1.95
251051--251155	21	5.0	21	74	3	86	20	38	19	21	1.94
251048--251158	42	2.6	42	77	5	109	20	38	18	21	1.93
252560--252596	14	2.6	14	95	0	65	29	0	18	51	1.47
252560--252614	28	1.9	29	85	3	76	32	0	18	49	1.48
252805--252873	20	3.5	20	87	0	75	24	20	24	30	1.99
252880--252935	20	2.8	20	83	0	67	28	16	23	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
256199--256317	20	5.9	20	91	0	193	25	20	27	26	1.99
257733--257831	28	3.5	28	69	12	76	38	3	13	45	1.58
257794--257894	29	3.5	28	74	14	89	36	0	12	49	1.48
257940--257974	15	2.4	15	90	4	54	34	0	0	65	0.93
259720--259759	14	2.9	14	80	0	53	12	12	17	57	1.65
261294--261354	10	5.9	10	72	14	52	9	8	21	60	1.54
261289--261335	16	2.9	16	90	0	76	12	8	17	61	1.55
261287--261347	32	1.9	32	86	0	86	9	9	21	59	1.58
263199--263233	3	11.7	3	100	0	70	68	0	0	31	0.90
263563--263612	2	25.0	2	100	0	100	50	0	0	50	1.00
268515--268569	21	2.7	19	76	13	56	41	30	1	25	1.66
268579--268613	4	8.8	4	87	0	52	25	2	0	71	1.00
274532--274842	99	3.1	100	81	8	387	34	18	9	36	1.84
275090--275606	137	3.7	137	83	3	588	34	24	17	23	1.95
275826--276177	104	3.4	104	82	4	408	35	21	16	26	1.94
276361--276405	3	15.3	3	95	4	83	35	0	0	64	0.94
278864--278911	25	1.9	26	84	16	66	43	8	6	41	1.60
279902--280194	154	1.9	154	91	1	480	30	22	25	21	1.98
280978--281011	2	18.0	2	88	11	54	50	0	0	50	1.00
287980--288057	38	2.1	38	90	0	120	19	8	19	52	1.71
288039--288092	22	2.4	21	80	17	56	11	7	18	62	1.50
289770--289808	19	2.0	21	90	10	64	58	10	7	23	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
290437--290493	22	2.6	22	94	0	96	70	3	7	19	1.26
291862--292009	76	2.0	73	85	9	201	50	12	8	28	1.70
296371--296420	25	2.0	24	84	3	64	56	0	2	42	1.11
323019--323058	20	2.0	20	85	9	55	60	27	0	12	1.33
326877--326934	25	2.3	25	93	0	98	48	6	1	43	1.40
327132--327195	16	3.8	15	76	17	56	35	3	0	60	1.12
327682--327720	21	1.9	20	84	5	51	35	7	0	56	1.28
328300--328337	2	19.0	2	100	0	76	50	0	0	50	1.00
331620--331680	28	2.2	28	100	0	122	16	3	31	49	1.62
332451--332476	12	2.2	12	100	0	52	42	19	15	23	1.89
334985--335027	13	3.5	12	84	9	52	23	0	2	74	0.93
348413--348545	53	2.6	52	82	14	163	43	0	6	49	1.32
348413--348562	55	2.7	54	85	8	178	42	1	5	50	1.33
348413--348594	64	3.0	64	80	13	170	41	1	5	51	1.32
348513--348579	34	1.9	36	81	6	84	37	2	5	53	1.41
348413--348561	2	76.5	2	74	19	129	42	1	5	50	1.33
351490--351537	13	3.9	13	78	15	57	62	12	8	16	1.53
351479--351561	23	3.6	23	91	0	130	61	16	8	13	1.55
351468--351567	10	9.1	10	73	18	56	60	17	9	14	1.59
351511--351557	13	3.8	13	81	16	64	61	19	8	10	1.53
351480--351575	23	4.2	23	87	2	95	61	19	7	11	1.53
351838--351918	34	2.4	34	87	0	108	60	12	11	16	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
351873--351899	14	1.9	14	100	0	54	59	14	11	14	1.62
351837--351909	24	3.0	25	88	4	105	60	12	12	15	1.60
351861--351918	10	5.4	10	80	15	71	60	12	10	17	1.58
351853--351925	24	3.0	24	84	4	76	60	12	10	16	1.59
351853--351925	10	6.1	13	76	23	56	60	12	10	16	1.59
358268--358686	7	57.9	7	70	20	203	40	1	5	52	1.34
358269--358638	16	22.6	16	75	16	246	41	1	5	51	1.35
358278--358614	31	10.7	31	72	17	182	41	1	5	51	1.35
358326--358690	53	7.3	47	73	18	221	40	1	4	53	1.32
358269--358614	2	181.5	2	69	23	207	41	1	5	51	1.35
358400--358660	20	12.6	20	67	22	73	41	1	3	53	1.28
358464--358697	15	15.3	15	67	21	87	38	1	3	56	1.26
360593--360705	46	2.5	46	81	9	124	33	18	19	28	1.95
361634--361872	131	1.8	131	87	0	352	40	14	11	33	1.82
364157--364214	17	3.4	16	86	6	71	75	6	1	15	1.09
385800--386177	191	2.0	191	100	0	756	37	12	15	35	1.85
386485--386578	45	2.1	46	87	2	136	34	18	20	27	1.95
387141--387188	25	1.9	25	95	0	87	14	10	31	43	1.79
389232--389274	19	2.3	19	92	4	70	65	0	9	25	1.22
389960--390043	19	4.5	19	74	14	68	34	4	2	58	1.32
390023--390059	13	2.7	14	84	15	51	37	2	0	59	1.12
390308--390415	54	2.0	54	100	0	216	33	9	20	37	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
392919--393019	6	16.3	6	67	30	54	51	0	0	47	1.07
392916--393053	43	3.1	43	74	18	122	51	1	0	46	1.15
392914--392999	28	3.1	28	96	1	156	52	0	0	47	1.00
393175--393306	58	2.5	51	80	15	174	41	6	6	44	1.57
393191--393428	33	7.5	33	75	16	234	42	6	7	43	1.59
393223--393270	25	1.9	25	86	0	69	41	4	8	45	1.53
393191--393390	58	3.4	57	79	15	210	42	6	8	43	1.60
393175--393401	18	13.1	18	64	21	83	41	5	7	44	1.57
393450--393563	2	56.0	2	69	22	60	46	2	5	45	1.39
393448--393522	11	6.9	11	69	18	50	42	2	4	50	1.35

Tables:   1   2   3   4