genome.fa.s9639.2.7.7.80.10.50.1000.43.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   

This is table  43  of  62  ( 7398 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)
9342473--9342529	22	2.7	21	84	12	80	24	28	17	29	1.97
9342570--9342614	21	2.1	21	84	8	56	26	24	17	31	1.97
9344698--9344760	12	5.3	12	70	24	53	44	1	1	52	1.20
9348475--9348545	31	2.3	31	85	0	97	42	0	7	50	1.29
9351713--9351952	5	49.2	5	91	7	381	60	0	0	40	0.97
9351980--9352037	22	2.8	20	80	14	64	44	6	3	44	1.47
9351995--9352036	22	2.0	22	90	4	68	42	7	2	47	1.43
9352037--9352116	33	2.4	33	81	8	99	36	8	5	50	1.55
9352128--9352227	36	2.8	37	86	6	132	41	8	5	46	1.55
9356779--9356894	58	2.0	58	98	0	223	33	10	18	37	1.84
9360545--9360597	12	4.4	12	77	15	56	32	1	5	60	1.31
9360533--9360589	25	2.3	25	93	0	96	28	3	7	61	1.39
9360548--9360624	25	3.0	25	80	10	77	33	3	3	58	1.35
9360554--9360633	25	3.2	26	78	13	71	36	5	2	56	1.35
9361607--9362252	139	4.7	139	92	0	1003	35	18	20	25	1.95
9363925--9363977	12	4.4	12	77	15	56	32	1	5	60	1.31
9363914--9363969	25	2.2	25	93	0	94	28	3	7	60	1.40
9363928--9363999	25	2.8	25	80	12	76	33	2	4	59	1.31
9373293--9373399	43	2.6	41	81	8	126	36	14	15	33	1.88
9374682--9374723	22	1.9	22	90	9	68	30	16	4	47	1.67
9385286--9385335	17	2.9	17	84	0	64	44	6	12	38	1.66
9387829--9387967	55	2.5	55	90	5	212	34	10	20	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9388174--9389049	81	10.8	81	90	1	1299	37	11	22	27	1.90
9389135--9389253	45	2.6	45	78	2	141	47	9	21	21	1.78
9389231--9389270	17	2.4	17	91	0	62	50	7	22	20	1.73
9390084--9390152	20	3.5	20	75	9	61	36	15	10	37	1.82
9404586--9405064	81	5.9	81	86	2	651	29	22	12	35	1.91
9404586--9405063	241	2.0	241	89	0	724	29	22	12	35	1.91
9406929--9408312	81	17.1	81	85	0	1737	31	20	10	36	1.88
9408643--9408762	55	2.2	55	84	1	152	26	14	20	39	1.90
9408663--9408779	55	2.1	55	80	0	135	29	17	16	36	1.92
9421192--9421274	29	2.8	30	80	10	82	36	9	7	46	1.64
9424697--9424734	20	1.9	20	94	0	67	28	31	18	21	1.97
9424716--9424818	46	2.3	45	81	8	111	33	18	17	30	1.94
9424761--9424882	64	1.9	65	89	1	192	31	22	17	29	1.96
9429280--9429405	47	2.8	45	85	5	164	39	7	23	29	1.83
9431126--9431170	6	7.5	6	100	0	90	15	15	35	33	1.89
9432260--9432343	18	4.5	17	73	16	69	75	0	16	8	1.04
9432288--9432335	11	4.2	12	75	21	50	70	0	20	8	1.12
9432260--9432341	39	2.1	39	82	8	105	76	0	15	7	0.99
9437142--9437200	24	2.5	24	97	0	109	37	6	20	35	1.79
9437867--9437906	18	2.2	18	100	0	80	22	7	32	37	1.82
9443251--9443373	45	2.7	48	86	8	168	30	21	18	30	1.97
9443433--9443487	21	2.6	21	85	0	83	25	20	20	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9450913--9451046	59	2.3	57	77	6	137	32	26	14	26	1.95
9456565--9457873	663	2.0	667	83	5	1694	32	20	12	34	1.90
9461930--9462064	65	2.1	66	92	1	227	40	2	13	44	1.56
9465184--9465216	16	2.1	16	88	11	50	30	27	6	36	1.81
9471544--9471594	18	2.9	18	94	2	86	17	47	21	13	1.82
9471631--9471699	29	2.4	29	82	0	84	26	7	20	46	1.76
9475019--9475099	39	2.1	39	93	4	137	41	8	18	30	1.80
9475164--9475226	24	2.6	24	79	0	72	26	19	15	38	1.92
9475199--9475264	25	2.7	24	72	6	62	27	18	18	36	1.94
9475245--9475337	24	3.9	24	78	9	91	27	22	13	35	1.93
9475293--9475366	24	3.1	24	92	5	116	24	25	16	33	1.95
9475330--9475406	24	3.2	25	80	7	79	20	27	16	35	1.95
9477462--9477502	19	2.2	19	95	0	73	29	17	4	48	1.67
9477462--9477511	19	2.6	19	90	0	64	30	18	4	48	1.66
9479404--9479474	30	2.4	30	95	2	126	49	2	22	25	1.63
9480065--9480107	21	2.0	22	90	4	70	39	16	18	25	1.91
9483478--9483604	46	2.8	46	87	2	175	25	17	11	46	1.80
9483908--9484451	56	9.9	56	84	8	647	34	19	11	34	1.87
9483987--9484081	47	2.0	47	93	0	163	33	24	12	29	1.92
9483902--9484451	168	3.3	166	86	5	735	34	19	11	34	1.87
9484777--9484866	42	2.1	42	83	4	110	26	26	13	33	1.93
9485625--9485853	81	2.8	81	80	7	205	30	11	23	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9485704--9485902	83	2.4	82	79	6	206	33	12	22	32	1.90
9487237--9487280	22	2.0	22	100	0	88	45	4	4	45	1.44
9496457--9496571	43	2.6	45	77	5	121	33	18	15	33	1.92
9496654--9496920	43	6.2	43	76	3	133	34	23	15	26	1.95
9496690--9496887	86	2.3	86	81	0	234	34	23	16	24	1.95
9496740--9496919	86	2.1	86	81	2	209	34	23	17	25	1.96
9496646--9496922	129	2.1	129	79	2	288	34	22	15	26	1.95
9500136--9500238	39	2.6	39	84	0	143	26	16	25	32	1.96
9504911--9504948	20	2.0	20	89	5	60	31	0	28	39	1.57
9506915--9507003	44	2.0	44	82	0	106	40	19	16	23	1.91
9507844--9507933	39	2.3	39	86	3	119	21	14	27	36	1.92
9516052--9516101	23	2.2	23	92	3	84	22	32	22	24	1.98
9516060--9516124	19	3.2	19	86	8	76	23	29	27	20	1.98
9517700--9517747	18	2.7	18	93	0	87	52	16	31	0	1.45
9521535--9521597	22	2.9	21	80	15	65	44	6	3	46	1.45
9521550--9521597	22	2.1	22	92	7	78	50	6	4	39	1.47
9519663--9523368	978	3.8	980	88	2	5286	34	18	10	36	1.85
9529059--9529103	22	2.0	24	82	8	58	44	13	4	37	1.64
9537780--9537823	22	1.9	24	81	9	56	45	11	2	40	1.53
9543372--9543414	22	2.0	22	90	0	68	37	2	16	44	1.60
9555114--9555447	167	2.0	167	95	1	598	37	11	19	31	1.88
9563044--9563251	39	5.3	39	74	2	175	28	20	24	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9574454--9574494	17	2.6	16	81	14	50	51	12	9	26	1.70
9584119--9584254	59	2.3	59	81	5	159	32	23	16	27	1.96
9587658--9588149	244	2.0	245	99	0	977	34	26	15	23	1.94
9589323--9589361	17	2.3	17	100	0	78	30	17	12	38	1.88
9591315--9591353	17	2.3	17	100	0	78	30	17	12	38	1.88
9594978--9595240	44	5.9	44	92	1	400	33	19	7	39	1.80
9600306--9600350	22	2.0	22	95	0	81	33	15	26	24	1.95
9600720--9600774	24	2.3	24	83	0	74	10	16	25	47	1.79
9600741--9600781	14	2.9	14	88	0	64	9	12	21	56	1.65
9601863--9601923	16	3.8	16	88	0	95	9	11	19	59	1.60
9601994--9602026	16	2.1	16	100	0	66	6	12	24	57	1.57
9602649--9602686	2	19.0	2	100	0	76	50	0	0	50	1.00
9611584--9611642	31	1.9	31	85	0	82	47	16	8	27	1.76
9625965--9626010	20	2.3	20	92	7	76	30	26	13	30	1.93
9628757--9628797	21	1.9	22	85	5	57	43	9	12	34	1.75
9628794--9628864	21	3.5	20	73	11	63	33	18	16	30	1.93
9631515--9631556	20	2.1	20	100	0	84	33	23	26	16	1.96
9632305--9632354	24	2.1	24	85	7	66	50	14	4	32	1.61
9634768--9634856	29	3.0	29	73	11	83	43	6	16	32	1.74
9638719--9638769	20	2.7	18	81	6	57	45	0	15	39	1.47
9639874--9639955	17	4.8	17	66	10	51	28	10	15	45	1.80
9639977--9640016	17	2.4	17	86	0	53	42	17	2	37	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9641409--9641440	2	16.0	2	100	0	64	50	0	0	50	1.00
9643187--9643228	12	3.5	12	77	9	50	54	2	2	40	1.26
9645696--9645767	17	4.2	17	75	10	74	41	6	12	38	1.70
9645756--9645817	17	3.6	17	69	16	56	48	11	12	27	1.76
9645699--9645801	52	2.0	52	80	0	116	43	8	11	35	1.72
9646014--9646055	18	2.3	18	87	0	57	42	16	11	28	1.84
9648224--9648278	21	2.8	20	78	15	60	78	0	10	10	0.98
9650702--9650773	17	4.2	17	82	7	83	38	13	6	40	1.72
9652581--9655216	730	3.6	729	86	2	3523	37	18	13	30	1.89
9654176--9654247	17	4.2	17	68	10	56	38	6	15	38	1.74

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62