genome.fa.s8620.2.7.7.80.10.50.1000.49.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  49  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)
9882167--9882217	21	2.4	21	80	0	66	27	21	25	25	1.99
9887469--9887510	11	3.6	11	90	9	66	23	0	0	76	0.79
9887509--9887574	3	22.0	3	82	11	82	60	0	0	39	0.97
9887721--9887995	124	2.3	117	84	7	345	24	18	15	41	1.89
9887941--9888032	36	2.6	36	94	0	166	18	21	10	48	1.78
9887976--9888447	116	4.2	114	87	5	577	30	19	12	37	1.89
9889168--9889481	115	2.7	113	88	5	479	30	19	15	34	1.93
9889439--9889675	93	2.5	93	96	0	429	37	20	16	26	1.93
9892703--9892761	29	2.0	29	100	0	118	38	13	16	30	1.88
9895790--9895898	54	2.0	55	98	1	211	26	27	16	29	1.97
9897983--9898014	15	2.1	15	94	0	55	46	6	18	28	1.73
9901804--9901851	22	2.3	20	79	10	53	58	0	6	35	1.23
9901768--9901954	91	2.0	95	92	6	321	54	4	5	36	1.43
9903290--9903327	12	3.3	11	89	10	58	21	0	2	76	0.91
9903330--9903383	3	18.0	3	84	7	74	61	0	0	38	0.96
9909088--9909132	2	22.5	2	100	0	90	51	0	0	48	1.00
9910723--9910752	15	1.9	16	93	6	53	20	10	26	43	1.83
9910764--9910829	3	22.3	3	93	3	116	66	0	0	33	0.92
9911025--9911365	174	2.0	174	89	2	524	36	14	13	35	1.86
9912388--9912426	2	19.5	2	100	0	78	48	0	0	51	1.00
9912885--9912924	2	20.0	2	84	0	53	42	0	0	57	0.98
9915851--9915958	31	3.5	31	93	0	180	45	9	15	29	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9918629--9918664	12	3.0	12	83	0	54	8	25	16	50	1.73
9918586--9918652	19	3.5	19	72	0	62	14	22	13	49	1.79
9923164--9923209	20	2.2	21	92	3	76	34	0	17	47	1.48
9927191--9927230	17	2.4	17	88	12	57	25	5	12	57	1.55
9930818--9930902	2	42.5	2	100	0	170	50	0	0	49	1.00
9933606--9933646	21	2.0	21	90	0	64	48	9	36	4	1.58
9947365--9947406	19	2.2	19	86	0	57	21	9	19	50	1.75
9949391--9949438	20	2.3	21	92	3	80	35	2	18	43	1.62
9950144--9950211	3	22.0	3	88	5	100	36	0	0	63	0.95
9954519--9954559	7	5.9	7	83	11	57	14	17	9	58	1.62
9959613--9959832	114	1.9	114	90	3	354	32	15	20	31	1.94
9961713--9961792	40	2.0	40	100	0	160	32	15	22	30	1.94
9963153--9963266	45	2.5	45	97	2	210	21	22	22	33	1.97
9963198--9963408	76	2.8	76	96	0	386	22	20	20	36	1.95
9963104--9963331	121	1.9	121	97	0	429	21	20	21	35	1.96
9963350--9963453	45	2.3	45	91	3	165	24	18	21	36	1.95
9963274--9963529	121	2.1	121	89	1	388	24	20	20	35	1.96
9963104--9963605	197	2.5	197	93	1	819	23	20	20	35	1.96
9963395--9963690	76	3.9	76	89	0	450	24	18	21	35	1.96
9963198--9963734	273	2.0	272	91	1	862	23	20	20	35	1.96
9963623--9963771	45	3.3	45	90	1	226	23	18	19	38	1.93
9963897--9963961	3	21.0	3	87	6	94	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9963901--9963968	12	5.4	12	85	7	82	39	0	0	60	0.97
9965462--9965505	22	2.0	22	81	0	52	50	0	0	50	1.00
9968741--9968785	17	2.6	17	93	6	74	17	42	22	17	1.89
9971996--9972092	44	2.2	44	78	10	101	26	21	18	32	1.97
9972788--9972842	16	3.4	16	100	0	110	32	25	29	12	1.93
9973767--9973901	59	2.3	59	79	11	152	38	19	14	27	1.91
9985900--9985941	13	2.9	16	86	13	56	54	0	0	45	0.99
9987532--9987571	3	13.3	3	100	0	80	65	0	0	35	0.93
9989224--9989249	2	13.0	2	100	0	52	50	0	0	50	1.00
9989183--9989300	40	2.8	42	78	11	109	55	5	4	34	1.41
9989302--9989340	14	2.7	15	80	11	55	76	0	7	15	0.99
10001685--10001731	21	2.3	21	85	3	60	31	21	14	31	1.94
10002834--10002867	15	2.3	15	100	0	68	29	20	26	23	1.99
10005234--10005271	11	3.4	11	85	14	51	36	5	0	57	1.21
10007456--10007514	21	2.9	20	80	10	66	28	1	1	67	1.10
10007456--10007493	11	3.5	11	89	3	51	28	0	0	71	0.87
10007700--10007766	22	3.0	21	81	10	80	23	43	1	31	1.63
10009025--10009051	3	9.0	3	100	0	54	66	0	0	33	0.92
10012003--10012073	19	3.8	18	76	12	54	43	21	18	16	1.88
10023506--10023636	32	4.1	32	82	3	147	26	26	28	18	1.98
10023516--10023635	64	1.9	64	85	0	168	25	29	27	18	1.98
10027452--10027573	63	2.0	63	85	8	169	45	5	7	41	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10027514--10027642	68	1.9	69	80	7	156	46	6	6	39	1.58
10030896--10030978	37	2.2	37	100	0	166	20	22	21	34	1.96
10035902--10035965	22	2.9	22	83	4	85	39	7	14	39	1.74
10037570--10037744	91	1.9	91	86	4	246	34	13	15	36	1.87
10040811--10040851	16	2.6	16	81	11	50	34	2	14	48	1.57
10040936--10041019	2	42.0	2	97	0	159	50	1	0	48	1.08
10041499--10041555	21	2.7	21	86	0	87	28	24	26	21	1.99
10041791--10041889	33	3.0	32	91	4	153	45	14	7	33	1.71
10041884--10041923	21	1.9	21	94	0	71	47	7	15	30	1.72
10044205--10044256	22	2.2	24	86	6	72	28	17	19	34	1.94
10044467--10044544	13	6.0	13	87	0	111	33	17	21	26	1.96
10045760--10045794	2	17.5	2	100	0	70	48	0	0	51	1.00
10048153--10048197	23	2.0	23	82	8	56	37	0	4	57	1.19
10055571--10055603	16	2.1	16	94	0	57	39	21	0	39	1.53
10058547--10058609	23	2.7	23	77	0	72	39	15	19	25	1.91
10058733--10058757	13	1.9	13	100	0	50	24	36	8	32	1.84
10064326--10064362	18	2.1	18	94	0	65	43	0	8	48	1.32
10064421--10064549	60	2.2	60	95	0	231	28	5	7	58	1.49
10064708--10064754	19	2.5	19	86	6	60	10	17	4	68	1.35
10066598--10066634	19	1.9	19	88	0	56	40	8	16	35	1.78
10069511--10069543	14	2.4	14	94	0	57	21	3	0	75	0.93
10071674--10072363	117	5.9	117	90	0	1076	22	22	21	33	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10072246--10072748	138	3.6	138	83	1	677	24	19	22	33	1.97
10072246--10072744	275	1.8	276	89	1	786	24	19	22	33	1.97
10074000--10074034	11	3.0	12	87	8	54	22	14	8	54	1.67
10081390--10081441	21	2.5	21	72	12	52	25	25	30	19	1.98
10081414--10081519	42	2.5	41	80	8	115	23	21	31	23	1.99
10083046--10083105	17	3.5	17	70	9	50	61	0	1	36	1.06
10083223--10083269	25	1.9	24	87	12	69	61	0	0	38	0.96
10083253--10083308	17	3.4	17	73	14	62	57	0	0	42	0.99
10083246--10083318	33	2.3	32	86	9	96	61	0	0	38	0.96
10102509--10102547	19	2.0	20	85	5	53	56	2	0	41	1.13
10103598--10103647	22	2.3	22	96	0	91	14	26	10	50	1.73
10104578--10104611	17	2.1	16	88	5	50	76	0	8	14	1.01
10108412--10108455	20	2.2	20	84	4	63	63	0	15	20	1.31
10126221--10126259	21	1.9	21	89	5	62	28	12	20	38	1.89
10130343--10130376	17	1.9	18	94	5	61	29	5	17	47	1.71
10130376--10130430	26	2.2	24	90	6	83	36	20	25	18	1.94
10135367--10135391	13	1.9	13	100	0	50	40	24	8	28	1.83
10136150--10136421	81	3.4	80	90	3	404	30	21	11	36	1.89
10142385--10142409	9	2.8	9	100	0	50	24	28	0	48	1.52
10146870--10147508	54	11.9	54	88	1	888	36	17	14	31	1.90
10149488--10149596	53	2.1	52	84	8	141	66	2	4	26	1.25
10149526--10149586	32	1.9	32	86	0	86	63	3	6	26	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10149543--10149586	16	2.8	15	78	21	54	63	4	2	29	1.26
10149530--10149595	16	4.1	16	73	7	53	68	3	4	24	1.23
10150188--10150270	37	2.2	37	97	0	157	30	13	14	42	1.84
10151672--10151710	20	2.0	20	89	0	60	33	10	23	33	1.88
10168341--10168388	18	2.7	18	87	6	62	60	0	0	39	0.97
10170351--10170481	43	3.1	43	97	1	246	34	11	13	40	1.81
10173256--10173338	21	4.0	21	98	0	157	24	22	24	28	1.99
10173364--10173403	21	1.9	21	100	0	80	25	27	22	25	2.00
10173963--10174037	18	3.9	18	81	13	96	28	32	20	20	1.97
10173965--10174043	40	2.0	40	97	0	149	29	30	18	21	1.97

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