genome.fa.s8488.2.7.7.80.10.50.1000.30.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   

This is table  30  of  54  ( 6450 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)
7224624--7224754	26	5.5	26	67	20	97	48	9	19	22	1.78
7224660--7224697	20	1.9	20	94	0	67	50	5	18	26	1.68
7224634--7224754	46	2.6	46	82	0	161	47	9	20	22	1.78
7229648--7230094	46	9.6	46	88	2	633	44	10	24	21	1.82
7229648--7230106	26	19.5	26	70	20	278	44	10	24	21	1.82
7230057--7230113	26	2.2	26	87	0	78	50	7	19	22	1.71
7229871--7230106	72	3.4	72	72	19	235	43	9	24	22	1.82
7231900--7231977	22	3.6	22	77	19	83	38	11	19	30	1.87
7232392--7232814	46	9.2	46	91	0	648	44	8	24	21	1.81
7233385--7233489	2	55.0	2	89	9	166	53	0	0	46	1.00
7235143--7235169	2	13.5	2	100	0	54	48	0	0	51	1.00
7243961--7244009	2	24.5	2	100	0	98	51	0	0	48	1.00
7247405--7247447	19	2.3	19	87	0	68	34	16	4	44	1.68
7249178--7249222	21	2.1	21	87	0	63	33	8	0	57	1.30
7258776--7258850	31	2.5	31	91	2	116	30	20	9	40	1.84
7259796--7259845	18	2.8	17	75	25	50	36	0	2	62	1.07
7259804--7259855	27	2.0	26	85	11	70	32	0	3	63	1.12
7263097--7263158	29	2.1	30	84	3	81	38	6	20	33	1.79
7265654--7265769	39	3.0	39	92	0	187	26	16	23	33	1.95
7283278--7284079	54	14.9	54	88	1	1117	32	19	26	20	1.97
7288615--7288732	39	3.0	38	79	11	132	27	13	23	35	1.92
7298257--7298281	11	2.3	11	100	0	50	32	20	24	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7298600--7298857	138	1.9	136	88	1	327	42	16	15	25	1.88
7298401--7299039	320	2.0	318	91	1	1021	41	15	16	26	1.87
7298738--7299228	182	2.7	181	87	2	675	42	14	15	26	1.86
7301615--7301679	21	3.1	21	95	0	112	44	7	33	13	1.73
7301713--7301778	33	2.0	32	91	2	105	30	1	43	24	1.63
7304514--7305234	201	3.6	199	82	5	816	39	14	14	30	1.87
7305235--7305296	23	2.7	23	97	0	115	37	22	8	32	1.83
7305787--7306127	180	1.9	180	80	7	406	39	10	11	38	1.76
7305787--7306178	180	2.2	180	80	6	404	40	10	11	38	1.75
7306037--7306870	414	2.0	411	84	3	1084	38	9	8	43	1.67
7307960--7308001	22	1.9	22	85	9	59	28	0	2	69	1.01
7325411--7325488	2	39.0	2	92	0	129	51	2	0	46	1.14
7329994--7330114	60	2.0	60	100	0	242	39	4	4	50	1.46
7331466--7331496	16	1.9	16	100	0	62	38	6	25	29	1.81
7332067--7332158	37	2.5	37	89	0	148	36	38	11	13	1.81
7332277--7332338	28	2.2	28	94	2	108	41	35	8	14	1.75
7334895--7335324	196	2.2	197	85	2	580	46	9	6	36	1.63
7343488--7343530	19	2.2	20	91	4	70	58	23	0	18	1.40
7343568--7343600	14	2.2	16	89	10	52	48	27	3	21	1.64
7345035--7345080	22	2.1	21	84	11	58	65	13	0	21	1.26
7349455--7349503	23	2.2	23	81	3	55	30	12	6	51	1.64
7354134--7354202	2	34.5	2	100	0	138	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7354428--7354471	15	2.8	16	75	10	54	75	2	0	22	0.92
7354422--7354464	22	1.9	23	90	4	70	72	0	2	25	0.97
7358053--7358152	9	11.1	9	70	22	59	62	0	1	37	1.02
7358072--7358132	3	20.3	3	83	12	72	63	0	0	36	0.94
7358072--7358134	13	4.6	14	92	4	94	63	0	0	36	0.95
7358657--7358908	86	3.0	85	84	2	299	25	18	23	32	1.97
7359055--7359809	121	6.2	121	90	0	1123	22	15	27	35	1.94
7359814--7359983	64	2.7	64	88	0	250	31	14	17	36	1.90
7365436--7365474	18	2.2	18	86	4	53	66	12	2	17	1.35
7365867--7365927	23	2.9	21	85	7	70	19	21	32	26	1.97
7372147--7372254	46	2.4	45	89	4	164	37	6	24	32	1.81
7375638--7375664	12	2.2	12	100	0	54	55	0	7	37	1.28
7382404--7382437	3	11.3	3	87	12	52	64	0	0	35	0.94
7382386--7382438	27	2.0	26	85	10	72	62	0	1	35	1.06
7382401--7382436	16	2.3	15	90	4	54	63	0	0	36	0.94
7382574--7382738	79	2.1	78	86	6	219	28	25	8	37	1.85
7385165--7385207	18	2.4	18	92	0	68	20	6	0	72	1.08
7385255--7385356	5	19.4	5	68	20	57	22	4	0	71	1.11
7389759--7390536	200	3.9	200	85	1	957	32	19	20	27	1.97
7391132--7391168	18	2.1	18	95	5	67	32	0	5	62	1.18
7391228--7391286	23	2.5	23	81	13	68	16	3	5	74	1.13
7403946--7404139	36	5.3	36	71	10	133	30	18	11	39	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7403910--7404169	74	3.5	73	81	5	276	33	17	10	39	1.83
7404458--7405101	137	4.7	135	80	7	647	35	16	15	32	1.90
7404427--7405101	273	2.5	274	79	4	747	35	15	16	32	1.90
7407649--7408020	43	8.7	44	87	2	442	29	23	27	18	1.98
7407649--7408020	86	4.3	85	86	3	498	29	23	27	18	1.98
7407649--7408027	129	2.9	127	88	3	510	30	23	27	18	1.98
7410799--7410849	13	3.3	16	82	17	56	27	25	31	15	1.96
7410824--7410853	13	2.3	13	100	0	60	26	23	33	16	1.96
7410832--7410893	18	3.4	18	84	0	79	16	22	45	16	1.85
7418719--7418776	30	1.9	31	89	3	91	27	3	32	36	1.74
7421127--7421611	183	2.7	181	81	6	529	39	9	10	40	1.72
7421127--7421616	182	2.7	178	80	6	531	39	9	10	40	1.72
7423856--7423971	42	2.8	42	86	5	162	18	16	18	46	1.84
7424166--7424234	22	3.1	22	72	15	61	52	1	0	46	1.09
7424083--7424194	57	2.0	57	80	7	129	43	3	0	51	1.25
7424157--7424233	31	2.4	32	79	16	88	49	1	0	49	1.09
7424278--7424330	20	2.7	19	73	18	54	49	0	1	49	1.12
7424325--7424369	23	2.0	23	86	0	63	53	2	2	42	1.25
7426813--7426868	30	2.0	27	82	10	67	35	3	5	55	1.40
7427631--7427670	21	2.0	21	85	5	55	55	2	10	32	1.47
7428165--7428232	12	6.4	11	76	20	56	33	0	2	63	1.10
7428165--7428221	29	2.0	29	86	6	80	35	0	3	61	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7432440--7432481	20	2.2	19	83	12	50	42	4	0	52	1.22
7434896--7434924	14	2.1	14	100	0	58	44	0	6	48	1.29
7435161--7435225	22	2.9	22	84	6	69	47	0	1	50	1.10
7435384--7435421	16	2.4	16	100	0	76	39	28	0	31	1.57
7435728--7435817	28	3.2	28	70	17	96	46	3	5	44	1.43
7435728--7435835	56	1.9	56	100	0	216	46	3	6	43	1.47
7435746--7435833	28	3.1	28	69	18	92	45	4	6	43	1.51
7436154--7436200	20	2.4	20	85	3	60	44	0	2	53	1.12
7440423--7440493	27	2.7	27	91	2	108	25	33	1	39	1.65
7452450--7452500	23	2.2	22	89	6	75	19	35	23	21	1.96
7452482--7452521	20	2.0	20	85	4	55	25	37	25	12	1.91
7458474--7458513	21	1.9	21	90	10	64	25	32	10	32	1.89
7458550--7458591	18	2.3	19	87	4	59	54	2	19	23	1.55
7469548--7469582	18	2.0	17	88	5	52	28	14	22	34	1.93
7469544--7469706	65	2.5	64	81	3	202	26	15	26	30	1.96
7469654--7469704	19	2.7	19	85	8	70	25	15	35	23	1.94
7472279--7472335	22	2.8	20	84	10	62	28	17	22	31	1.97
7474152--7474208	28	2.0	28	100	0	114	21	17	15	45	1.85
7477617--7477779	65	2.5	64	84	3	220	26	15	26	30	1.96
7477727--7477777	19	2.7	19	85	8	70	25	15	35	23	1.94
7478568--7478670	23	4.4	24	84	6	122	21	20	25	33	1.97
7478634--7478689	24	2.3	24	82	11	62	30	16	17	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7485888--7485943	2	28.0	2	100	0	112	50	0	0	50	1.00
7492555--7492621	2	35.0	2	91	8	113	49	0	0	50	1.00
7492558--7492621	19	3.5	19	91	4	105	50	0	0	50	1.00
7493032--7493082	19	2.8	19	74	8	54	50	1	0	47	1.12
7494178--7494224	21	2.2	21	84	0	67	19	23	17	40	1.91
7494276--7494349	20	3.7	20	78	5	78	36	22	10	29	1.89
7497926--7497994	20	3.5	20	85	0	75	23	13	20	43	1.86
7498108--7498242	37	3.5	37	71	7	126	49	15	1	33	1.54
7498161--7498199	14	2.8	13	88	11	60	46	17	0	35	1.49
7498097--7498289	78	2.5	77	89	6	284	50	16	2	30	1.56

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