genome.fa.s8620.2.7.7.80.10.50.1000.33.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   63   64   

This is table  33  of  64  ( 7674 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)
6620991--6621086	43	2.2	43	79	3	104	26	22	26	25	2.00
6622600--6622643	21	2.1	21	86	0	61	9	40	15	34	1.79
6623814--6623862	19	2.6	19	84	9	57	24	28	20	26	1.99
6627863--6627888	13	2.0	13	100	0	52	15	0	0	84	0.62
6629299--6629351	21	2.5	21	96	0	97	45	16	9	28	1.79
6630624--6630783	55	2.9	55	89	2	241	33	11	20	35	1.88
6630959--6631347	68	5.7	68	88	2	584	29	15	23	31	1.95
6631300--6631943	81	7.9	81	87	0	867	36	12	22	28	1.90
6631912--6631972	29	2.1	29	96	0	113	44	9	22	22	1.82
6631831--6632028	110	1.8	110	86	0	288	39	11	22	26	1.87
6631831--6632053	110	2.0	110	83	1	277	40	11	22	26	1.87
6636608--6636685	39	2.0	39	89	0	120	32	10	21	35	1.87
6636917--6637097	68	2.7	68	87	8	253	30	14	22	33	1.93
6639157--6639838	287	2.4	287	83	3	849	46	7	15	31	1.73
6639899--6639998	4	25.0	4	83	0	119	29	5	21	45	1.73
6640031--6640095	4	15.5	4	80	15	51	44	23	4	27	1.73
6640031--6640092	13	4.5	13	70	18	54	45	22	4	27	1.73
6640031--6640138	42	2.6	42	94	2	182	44	21	5	28	1.74
6640718--6640748	14	2.2	14	100	0	62	61	0	0	38	0.96
6641325--6641429	37	2.7	39	88	2	142	47	6	3	41	1.48
6641404--6641456	27	2.0	27	84	0	70	43	5	3	47	1.45
6642586--6642886	57	5.3	57	90	0	460	48	22	17	11	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6644051--6644118	18	3.8	18	88	1	84	19	25	4	51	1.65
6645124--6645207	3	28.0	3	95	0	150	64	0	0	35	0.94
6645138--6645216	15	5.4	14	95	1	50	65	0	2	31	1.06
6645484--6645608	53	2.4	54	87	2	173	28	20	14	36	1.92
6645432--6645704	145	1.9	145	89	4	426	27	21	15	35	1.94
6645535--6645847	92	3.4	91	93	2	511	24	22	15	37	1.93
6646717--6646780	6	10.7	6	71	18	53	3	15	0	81	0.82
6646706--6646774	21	3.4	19	73	26	61	2	15	1	79	0.92
6650156--6650185	7	4.3	7	91	0	51	66	0	13	20	1.24
6651677--6651712	18	2.0	18	94	0	63	13	33	19	33	1.91
6660470--6660503	17	2.0	17	88	0	50	14	5	0	79	0.91
6670517--6670584	30	2.3	31	87	5	95	14	22	19	44	1.86
6670636--6670703	30	2.3	31	87	5	95	14	22	19	44	1.86
6670516--6670752	119	2.0	118	99	0	465	18	16	23	41	1.89
6672044--6672099	26	2.2	26	100	0	112	33	12	26	26	1.92
6678614--6678671	23	2.6	22	78	5	55	27	27	22	22	1.99
6681382--6681541	65	2.5	63	85	9	198	31	22	18	27	1.97
6681513--6681561	19	2.6	19	84	9	57	24	30	18	26	1.98
6682738--6682778	2	20.5	2	94	0	73	51	2	0	46	1.14
6683215--6683256	16	2.6	16	88	7	59	40	7	16	35	1.76
6683994--6684026	15	2.1	17	88	11	52	33	0	6	60	1.21
6684689--6684727	18	2.3	17	91	8	62	23	0	5	71	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6684696--6684736	18	2.3	18	91	4	66	26	2	2	68	1.15
6685353--6685391	2	20.5	2	84	10	55	56	0	0	43	0.99
6686978--6687007	14	2.2	13	94	5	51	43	33	6	16	1.74
6687001--6687038	17	2.2	18	90	4	60	50	15	0	34	1.45
6689584--6689718	44	3.1	44	97	2	254	45	22	20	11	1.84
6689754--6690031	57	4.9	57	95	0	488	47	23	18	10	1.79
6689672--6690031	114	3.1	114	92	3	580	47	22	18	10	1.79
6689672--6690031	171	2.1	175	90	4	570	47	22	18	10	1.79
6693961--6693997	17	2.1	18	85	14	51	59	13	0	27	1.35
6694208--6694232	2	12.5	2	100	0	50	52	0	0	48	1.00
6695469--6695507	2	19.5	2	100	0	78	51	0	0	48	1.00
6702016--6702069	26	2.1	26	83	10	67	55	1	1	40	1.21
6704668--6704711	23	1.9	23	90	0	70	45	9	13	31	1.75
6704665--6704721	23	2.4	23	79	2	69	38	7	21	33	1.80
6706088--6706147	23	2.6	23	86	0	84	18	21	21	38	1.94
6711879--6711909	6	5.2	6	92	0	53	16	19	35	29	1.93
6713003--6713110	6	17.3	6	71	20	71	76	3	17	1	1.02
6713006--6713079	15	4.7	15	79	15	78	79	4	14	1	0.94
6713047--6713105	21	2.7	22	77	15	68	74	3	20	1	1.05
6713003--6713115	33	3.5	33	82	13	121	76	3	17	2	1.05
6718517--6718554	18	2.1	18	100	0	76	52	5	26	15	1.64
6721432--6721545	46	2.4	47	82	7	133	41	7	19	31	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6721432--6721553	49	2.6	46	79	11	138	40	7	20	31	1.80
6725364--6725418	27	2.0	27	89	0	83	47	7	21	23	1.76
6730286--6730389	51	2.0	51	94	0	181	29	5	25	38	1.79
6740761--6740825	33	2.0	33	90	0	103	24	0	13	61	1.32
6740791--6741011	75	2.9	74	86	6	311	27	4	15	52	1.61
6741311--6741347	6	6.2	6	96	0	65	2	64	16	16	1.40
6748939--6748996	20	2.9	19	80	10	62	44	1	3	50	1.29
6749020--6749052	17	1.9	17	93	0	57	33	0	3	63	1.10
6750912--6750992	38	2.2	38	88	6	121	16	12	32	39	1.85
6754138--6754339	81	2.5	81	95	0	350	33	11	13	41	1.81
6755541--6755608	24	2.8	24	77	0	73	54	16	8	20	1.68
6755569--6755614	24	1.9	24	86	0	65	47	19	10	21	1.80
6759553--6759624	24	3.0	24	85	0	99	51	18	12	18	1.76
6759565--6759624	12	5.0	12	72	8	59	48	18	15	18	1.81
6759584--6759661	24	3.2	25	75	10	65	44	15	17	21	1.86
6764223--6764307	39	2.2	39	82	0	98	36	12	1	49	1.49
6770566--6770608	16	2.7	16	96	0	77	18	32	30	18	1.95
6771294--6771369	30	2.5	30	86	0	116	23	26	22	27	1.99
6786670--6787169	252	2.0	252	95	2	898	29	17	10	42	1.83
6791687--6791728	22	1.9	22	95	0	75	19	38	23	19	1.93
6793647--6793825	89	2.0	90	86	5	256	31	24	22	21	1.98
6796234--6796336	20	5.1	20	75	4	107	15	25	36	22	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6796234--6796336	42	2.5	40	87	6	152	15	25	36	22	1.93
6798971--6799025	25	2.2	26	93	3	94	30	30	10	27	1.91
6799792--6800033	125	1.9	126	80	5	276	35	13	17	33	1.89
6799904--6800272	145	2.6	144	84	2	445	35	11	17	35	1.86
6801639--6801870	125	1.9	125	80	3	279	36	15	14	33	1.88
6801755--6802120	146	2.5	146	84	4	438	34	12	16	36	1.86
6802352--6802448	3	33.3	3	91	6	164	34	1	0	64	1.00
6802464--6802515	17	3.2	17	75	10	54	50	13	3	32	1.60
6805717--6805990	137	2.0	137	100	0	548	35	18	19	26	1.95
6807605--6807634	16	1.9	15	93	6	51	30	0	0	70	0.88
6808894--6809366	181	2.6	181	86	1	644	43	13	15	26	1.84
6809278--6809333	20	2.8	19	81	7	67	55	7	16	21	1.64
6811548--6811612	21	3.1	21	93	0	103	41	10	30	16	1.83
6812877--6812913	4	9.2	4	100	0	74	24	0	27	48	1.51
6813493--6813541	19	2.6	19	96	0	89	32	2	10	55	1.45
6813654--6814417	200	3.8	200	94	0	1307	36	15	17	30	1.91
6815909--6815996	6	14.7	6	80	0	95	39	9	32	18	1.82
6815926--6816024	6	16.5	6	81	0	81	38	7	32	22	1.81
6815909--6815996	12	7.3	12	90	0	140	39	9	32	18	1.82
6815909--6816020	24	4.7	24	86	0	134	39	8	32	20	1.82
6815932--6816021	15	5.8	16	72	14	64	37	7	32	22	1.83
6817235--6818169	183	5.1	183	96	1	1680	34	14	17	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6819444--6819488	22	2.0	22	83	8	56	42	11	8	37	1.72
6819506--6819578	23	3.2	23	92	0	119	34	5	21	38	1.77
6819981--6820056	23	3.5	22	82	8	66	42	2	21	34	1.67
6819993--6820065	23	3.2	23	88	0	101	36	4	20	38	1.72
6819160--6820467	487	2.7	489	96	1	2417	41	7	10	40	1.68
6822878--6822912	6	5.8	6	96	0	52	68	8	5	17	1.35
6822920--6822959	17	2.4	17	84	12	55	0	7	10	82	0.84
6824027--6824054	7	4.0	7	100	0	56	57	0	0	42	0.99
6824407--6824452	21	2.2	21	84	0	56	65	2	6	26	1.28
6824394--6824451	16	3.7	15	79	6	62	65	1	5	27	1.23

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   63   64