genome.fa.s8747.2.7.7.80.10.50.1000.48.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: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

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   

This is table  48  of  51  ( 6054 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)
11927184--11927222	16	2.4	16	91	0	60	28	15	28	28	1.96
11931635--11931996	182	2.0	179	97	2	681	28	26	20	24	1.99
11932705--11932763	5	11.6	5	78	20	61	79	1	18	0	0.81
11932705--11932763	23	2.5	24	79	17	79	79	1	18	0	0.81
11932707--11932762	18	3.1	18	82	14	71	78	1	19	0	0.84
11936815--11936859	13	3.5	13	84	3	56	35	35	2	26	1.69
11942690--11942806	29	4.4	26	70	21	73	46	1	8	43	1.44
11942969--11943014	20	2.3	19	85	14	58	50	8	15	26	1.73
11944518--11944550	16	2.1	16	100	0	66	54	6	6	33	1.50
11944604--11944666	2	32.5	2	93	6	112	50	0	0	49	1.00
11944597--11944665	16	4.2	16	90	7	95	52	0	1	46	1.09
11947901--11947925	11	2.3	11	100	0	50	16	24	8	52	1.70
11958974--11959010	19	1.9	19	100	0	74	54	0	5	40	1.24
11962781--11962827	23	2.3	20	77	22	53	38	8	19	34	1.82
11962858--11962915	22	2.4	25	77	16	77	36	6	15	41	1.74
11962864--11962914	22	2.3	22	96	0	93	35	7	17	39	1.79
11963357--11963409	21	2.6	21	76	8	56	50	0	3	45	1.19
11963537--11963568	16	2.0	16	93	0	55	43	9	18	28	1.81
11963761--11963797	15	2.5	15	100	0	74	35	27	8	29	1.85
11965077--11965499	41	10.3	41	82	4	342	26	22	20	30	1.98
11965077--11965501	123	3.5	122	80	4	426	26	22	20	31	1.98
11965138--11965432	164	1.8	163	82	5	380	28	23	19	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11965299--11965527	82	2.8	82	83	6	234	26	28	18	26	1.98
11966112--11966140	6	4.8	6	100	0	58	51	13	0	34	1.42
11966515--11966549	2	17.5	2	87	0	52	0	54	0	45	0.99
11969521--11969574	26	2.1	26	100	0	108	18	18	11	51	1.74
11970421--11970961	43	12.6	42	83	3	645	24	24	18	31	1.98
11975142--11975176	18	2.0	17	94	5	61	17	28	25	28	1.97
11976357--11976388	2	16.0	2	100	0	64	50	0	0	50	1.00
11978901--11978933	14	2.4	14	90	10	50	0	21	0	78	0.75
11978927--11978976	22	2.3	22	83	10	66	10	14	14	62	1.55
11982986--11983022	14	2.4	16	82	13	51	29	5	10	54	1.57
11983720--11983752	10	3.5	10	88	12	52	48	0	0	51	1.00
11983713--11983761	17	2.8	17	84	6	62	46	0	0	53	1.00
11986310--11986336	2	13.5	2	100	0	54	51	0	48	0	1.00
11987407--11987436	12	2.5	12	100	0	60	26	33	30	10	1.89
11995136--11995291	78	2.0	80	97	2	298	27	21	15	35	1.94
11998783--11998936	77	2.0	78	83	8	199	43	7	6	42	1.59
12009821--12009845	13	1.9	13	100	0	50	56	0	4	40	1.18
12020786--12020824	2	19.0	2	89	5	60	46	0	2	51	1.14
12030285--12030334	21	2.3	21	89	3	82	30	2	12	56	1.47
12034050--12034087	15	2.5	15	100	0	76	31	28	0	39	1.57
12034792--12034830	14	2.8	14	92	0	60	58	12	10	17	1.61
12034903--12035004	33	3.2	33	93	4	165	37	6	6	49	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12040073--12040496	46	9.2	46	94	0	731	40	13	22	23	1.90
12040408--12040527	46	3.1	36	81	14	98	43	13	21	21	1.87
12040519--12040687	85	2.0	85	88	2	250	38	9	16	35	1.81
12044847--12044879	16	2.1	16	100	0	66	45	18	0	36	1.49
12046590--12046676	2	44.5	2	95	4	160	49	0	0	50	1.00
12047115--12047154	21	1.9	21	89	0	62	10	25	40	25	1.86
12047135--12047186	23	2.3	23	80	6	72	17	21	40	21	1.91
12054568--12054721	20	7.7	20	79	7	150	26	24	20	27	1.99
12055297--12055386	20	4.6	20	80	6	94	15	15	21	47	1.82
12059850--12059956	20	5.3	20	88	0	142	28	19	23	28	1.98
12059945--12060000	20	2.8	20	97	2	103	25	19	16	39	1.91
12059943--12060037	21	4.6	21	88	1	86	32	18	18	29	1.96
12060339--12060391	21	2.5	21	84	0	70	20	22	20	35	1.96
12060381--12060428	20	2.4	20	92	0	78	35	16	20	27	1.94
12060430--12060523	20	4.7	20	93	0	134	26	27	20	25	1.99
12060430--12060523	40	2.3	40	92	0	152	26	27	20	25	1.99
12062482--12062535	24	2.2	24	93	0	90	40	20	18	20	1.91
12063317--12063423	20	5.3	20	87	0	142	28	18	24	28	1.98
12063407--12063485	20	4.0	20	88	0	113	26	17	12	43	1.85
12063482--12063524	21	2.0	22	90	4	70	37	18	23	20	1.94
12064850--12064927	3	25.0	3	84	7	86	30	0	0	69	0.89
12066974--12067002	11	2.6	11	100	0	58	27	0	0	72	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12070005--12070068	15	4.7	13	70	22	51	78	6	14	1	1.02
12070007--12070055	26	2.0	24	84	8	62	77	6	14	2	1.05
12070004--12070067	31	2.1	29	82	5	74	78	6	14	1	1.02
12071140--12071226	32	2.7	32	87	0	120	26	17	27	28	1.97
12071632--12071997	36	10.0	36	76	11	273	27	19	12	41	1.87
12071696--12071758	21	3.3	21	62	25	57	26	22	7	42	1.81
12071600--12072098	216	2.3	217	87	3	727	26	19	13	40	1.88
12072009--12072098	37	2.4	37	86	0	126	26	22	13	37	1.91
12071901--12072164	103	2.6	100	85	5	350	28	20	12	38	1.90
12072166--12072223	30	1.9	30	89	6	91	36	15	12	36	1.85
12072559--12072631	3	23.3	3	86	8	85	31	1	0	67	1.00
12075137--12075219	43	1.9	43	85	0	112	49	9	6	34	1.60
12076336--12076405	24	3.0	24	66	19	56	31	22	24	21	1.98
12080047--12080101	24	2.3	24	90	0	83	1	18	23	56	1.51
12086323--12086389	21	3.1	21	75	18	59	29	5	0	64	1.17
12091700--12091791	29	3.3	27	82	11	107	77	0	20	2	0.88
12091704--12091789	26	3.2	25	79	12	91	76	0	20	2	0.89
12091714--12091792	37	2.2	34	84	8	95	78	0	18	2	0.86
12096321--12096364	22	2.0	22	100	0	88	27	9	27	36	1.87
12097470--12097573	54	1.9	54	86	3	147	32	13	25	27	1.94
12097942--12098051	22	5.0	22	92	0	175	36	16	13	33	1.88
12097942--12098051	44	2.5	44	95	0	193	36	16	13	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12098758--12099420	46	14.5	46	90	2	980	25	22	18	33	1.96
12098758--12099420	137	4.8	137	90	2	1001	25	22	18	33	1.96
12098758--12099420	183	3.6	182	92	1	1058	25	22	18	33	1.96
12099632--12099675	15	3.0	14	90	6	61	47	2	0	50	1.13
12099649--12099698	20	2.5	21	83	9	68	42	4	0	54	1.19
12105282--12105320	2	19.5	2	94	0	69	0	53	0	46	1.00
12107070--12107142	29	2.6	29	91	2	121	41	8	20	30	1.81
12110989--12111021	15	2.2	15	94	0	57	33	30	18	18	1.94
12111166--12111213	12	4.0	12	91	0	78	35	22	6	35	1.80
12111166--12111227	24	2.6	25	82	5	83	37	20	6	35	1.79
12111585--12111636	19	2.7	19	100	0	104	23	30	17	28	1.97
12111520--12111699	83	2.2	83	84	4	229	26	21	19	32	1.97
12111604--12111764	64	2.5	62	82	3	196	28	20	16	34	1.95
12115375--12115521	73	2.0	72	98	1	285	39	9	12	38	1.75
12118297--12118336	17	2.4	17	82	0	53	27	40	20	12	1.88
12118398--12118442	23	2.0	23	82	8	56	8	44	20	26	1.80
12118919--12118949	16	1.9	16	100	0	62	32	12	29	25	1.93
12125150--12125186	18	2.1	18	95	5	67	29	0	0	70	0.88
12126288--12126329	10	4.2	10	90	0	57	57	42	0	0	0.99
12126288--12126329	6	7.0	6	88	0	57	57	42	0	0	0.99
12126288--12126329	4	10.5	4	89	0	57	57	42	0	0	0.99
12127228--12127328	14	7.4	14	68	31	76	24	39	27	7	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12127259--12127285	10	2.7	10	100	0	54	22	40	25	11	1.87
12127334--12127390	10	5.4	11	73	19	50	28	24	40	7	1.81
12127308--12127390	33	2.5	33	94	0	139	26	27	36	9	1.88
12127482--12127568	33	2.6	33	94	0	147	9	36	27	26	1.87
12127519--12127607	43	2.2	40	79	6	97	8	31	32	26	1.87
12127553--12127606	20	2.7	20	97	0	99	9	27	37	25	1.87
12127553--12127606	10	5.4	10	79	16	67	9	27	37	25	1.87
12127671--12127743	29	2.5	30	90	4	121	13	27	38	20	1.90
12129306--12129345	20	2.0	21	90	5	64	52	25	0	22	1.47
12129318--12129391	35	2.1	34	80	7	78	44	32	0	22	1.53

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