genome.fa.s7984.2.7.7.80.10.50.1000.56.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   
          65   

This is table  56  of  65  ( 7696 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)
11031654--11031688	15	2.4	15	95	4	63	37	0	0	62	0.95
11031687--11031751	3	21.7	3	100	0	130	66	0	0	33	0.92
11032040--11033162	113	9.9	113	94	0	1736	30	19	12	37	1.89
11033913--11034071	83	1.9	83	98	0	309	37	20	14	27	1.92
11035148--11035187	6	7.0	6	78	21	50	2	12	0	85	0.71
11035148--11035189	11	3.7	11	87	12	59	2	11	0	85	0.68
11035148--11035187	17	2.3	18	83	12	57	2	12	0	85	0.71
11046628--11046665	19	2.1	19	95	5	69	65	10	5	18	1.41
11047988--11048022	15	2.4	15	95	4	63	37	0	0	62	0.95
11048021--11048100	3	26.7	3	97	0	151	65	0	1	33	1.01
11051337--11051392	26	2.2	26	93	0	94	50	17	16	16	1.79
11057460--11057508	23	2.1	23	85	7	64	59	12	2	26	1.44
11063096--11063144	23	2.1	23	85	7	64	59	12	2	26	1.44
11066182--11066206	13	1.9	13	100	0	50	48	4	8	40	1.51
11067815--11067847	12	2.6	13	90	4	50	45	6	12	36	1.66
11070798--11070847	21	2.4	21	96	0	91	26	16	12	46	1.81
11070798--11070858	21	3.0	21	90	2	79	26	14	11	47	1.78
11070899--11070937	20	2.0	20	85	10	53	25	15	10	48	1.76
11078643--11078685	19	2.3	19	87	0	59	39	25	20	13	1.90
11079800--11079866	30	2.2	30	83	0	80	34	19	28	17	1.95
11081618--11081686	32	2.2	32	84	10	88	46	0	17	36	1.48
11082713--11082746	3	11.7	3	87	6	52	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11089791--11089825	17	2.1	17	94	0	61	11	25	28	34	1.91
11092957--11092989	17	1.9	17	93	0	57	36	0	18	45	1.49
11095746--11095787	21	2.2	19	87	12	59	42	0	0	57	0.99
11099194--11099232	18	2.2	18	100	0	78	48	15	5	30	1.66
11100685--11100745	18	3.4	17	80	15	61	42	13	34	9	1.77
11102234--11102274	17	2.4	17	91	4	64	19	9	7	63	1.48
11103185--11103211	2	13.5	2	100	0	54	48	0	0	51	1.00
11105133--11105353	76	2.9	77	82	3	286	35	9	17	38	1.82
11105611--11105965	101	3.5	100	77	7	342	35	10	12	41	1.77
11110574--11110620	16	3.0	16	81	3	51	25	2	2	70	1.10
11116056--11116450	97	4.0	96	82	7	334	40	14	6	38	1.72
11116381--11116492	39	2.9	38	80	10	136	38	11	8	41	1.71
11116284--11116627	136	2.5	136	82	1	404	39	12	8	39	1.73
11116104--11116456	97	3.6	97	84	0	402	39	13	6	39	1.71
11116516--11116627	39	2.9	39	77	2	118	42	13	5	38	1.67
11116688--11117194	58	8.8	58	82	8	545	42	13	8	35	1.75
11116691--11117194	230	2.2	231	84	5	635	41	13	8	35	1.75
11117361--11117459	45	2.2	45	77	15	107	41	15	8	35	1.76
11117659--11117691	14	2.3	15	89	5	50	57	15	3	24	1.52
11118946--11119000	27	2.0	27	89	0	83	30	29	16	23	1.96
11124124--11124184	6	10.2	6	83	0	68	6	34	3	55	1.42
11124124--11124184	9	7.1	9	80	10	74	6	34	3	55	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11124124--11124186	24	2.6	24	97	0	117	7	33	3	55	1.45
11131206--11131247	18	2.3	18	91	0	66	19	50	19	11	1.78
11133730--11133802	24	3.0	24	77	0	92	17	12	16	53	1.73
11133709--11133802	48	2.0	48	89	4	145	19	14	15	50	1.79
11133959--11134033	2	37.5	2	100	0	150	49	0	0	50	1.00
11134637--11134700	3	21.3	3	100	0	128	67	0	0	32	0.91
11150567--11150701	64	2.1	62	81	8	157	35	18	20	25	1.95
11150671--11150720	19	2.6	19	96	0	91	26	22	30	22	1.99
11153438--11153482	21	2.1	21	87	0	63	31	28	24	15	1.96
11154283--11154438	31	5.0	31	92	1	251	20	19	22	37	1.95
11155289--11155333	20	2.3	20	78	17	51	26	24	17	31	1.97
11155850--11155907	18	3.1	19	75	9	73	22	18	27	31	1.97
11155844--11155908	20	3.3	20	76	8	80	24	16	29	29	1.97
11157330--11157413	23	3.7	23	91	3	125	28	27	26	17	1.98
11158055--11158215	63	2.5	62	80	8	166	25	19	21	33	1.97
11163976--11164024	3	16.3	3	100	0	98	67	0	0	32	0.91
11171312--11171557	123	2.0	122	96	0	456	36	10	13	39	1.79
11171933--11172019	20	4.3	20	85	0	120	28	17	24	29	1.97
11177099--11177144	24	2.0	23	86	4	65	36	4	10	47	1.58
11178935--11179044	30	3.7	30	82	3	125	41	7	7	43	1.60
11178998--11179052	15	3.7	15	72	11	51	38	5	7	49	1.54
11179001--11179052	14	3.6	14	74	7	50	36	5	7	50	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11182352--11182381	10	2.9	10	95	5	51	36	0	3	60	1.14
11182927--11183006	31	2.6	31	89	0	115	22	8	13	55	1.66
11184379--11184443	31	2.1	31	85	0	85	50	13	12	23	1.75
11187934--11187958	2	12.5	2	100	0	50	48	0	0	52	1.00
11194947--11194991	16	2.8	16	86	3	54	73	6	2	17	1.15
11197249--11197318	19	3.7	19	94	0	122	31	20	24	24	1.98
11197351--11197403	22	2.6	20	80	13	63	26	26	28	18	1.98
11198148--11198365	103	2.1	103	95	0	391	25	13	23	36	1.92
11198383--11198447	23	2.8	23	92	0	103	21	27	24	26	1.99
11199675--11199727	15	3.5	15	80	10	72	66	11	0	22	1.24
11202322--11202375	21	2.6	21	90	0	90	14	25	3	55	1.56
11203108--11203160	24	2.1	27	86	10	76	52	0	0	47	1.00
11205173--11205210	9	4.1	9	90	6	58	86	0	2	10	0.66
11205179--11205210	10	3.3	10	95	4	57	90	0	0	9	0.45
11206708--11206928	110	2.0	111	90	0	345	37	7	8	46	1.62
11212213--11212304	21	4.4	21	72	13	82	20	19	23	35	1.95
11212255--11212324	20	3.5	20	67	18	63	14	22	22	40	1.90
11212234--11212542	41	7.4	41	72	12	218	20	19	23	35	1.95
11212188--11212458	62	4.3	62	79	10	296	21	19	24	35	1.96
11212295--11212435	69	2.0	70	95	2	257	20	18	26	34	1.96
11212488--11212542	19	2.8	19	75	5	56	20	20	23	36	1.95
11213442--11213542	49	2.0	51	84	7	136	30	17	22	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11214154--11214196	16	2.6	16	85	3	50	48	0	2	48	1.14
11214538--11214567	2	15.0	2	100	0	60	50	0	0	50	1.00
11223434--11223466	17	1.9	17	93	0	57	6	27	9	57	1.53
11234634--11234685	16	3.3	16	70	5	52	1	5	26	65	1.26
11247510--11247556	20	2.5	19	83	10	60	25	23	6	44	1.77
11253978--11254015	18	2.1	19	90	5	60	23	7	5	63	1.42
11256012--11256044	2	17.0	2	93	6	59	51	0	0	48	1.00
11256889--11256918	15	2.0	15	100	0	60	40	20	13	26	1.89
11267373--11267411	17	2.3	17	86	8	53	53	2	5	38	1.37
11269193--11269226	8	4.2	8	84	0	50	55	0	5	38	1.24
11272636--11272667	16	2.0	16	100	0	64	31	6	25	37	1.81
11279120--11279147	8	3.5	8	100	0	56	39	0	10	50	1.37
11282663--11282704	16	2.5	17	84	3	59	80	0	11	7	0.88
11283703--11284292	55	10.7	55	87	2	760	31	15	25	27	1.96
11284199--11284345	55	2.7	54	83	7	174	32	20	23	23	1.98
11284624--11284657	8	4.2	8	84	0	50	55	0	5	38	1.24
11291584--11291621	20	1.9	20	88	0	58	34	21	10	34	1.87
11296879--11296952	2	37.0	2	100	0	148	50	0	0	50	1.00
11297047--11297089	20	2.2	20	86	0	59	46	9	2	41	1.48
11297887--11297934	2	24.0	2	100	0	96	50	0	0	50	1.00
11303199--11303229	2	15.5	2	100	0	62	48	0	0	51	1.00
11303786--11303818	17	1.9	17	93	0	57	54	18	18	9	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11304941--11305050	56	2.0	56	100	0	220	35	12	14	37	1.84
11305968--11306037	22	3.3	21	72	16	63	42	4	2	50	1.37
11305999--11306171	90	1.9	89	94	1	301	43	6	10	38	1.66
11309087--11309172	36	2.4	36	92	1	147	48	16	5	29	1.69
11310331--11310361	12	2.6	12	94	0	53	58	0	6	35	1.24
11312641--11312703	31	2.0	31	93	0	108	15	0	36	47	1.46
11314866--11315106	123	2.0	122	95	0	437	41	7	16	34	1.76
11318210--11318364	29	5.4	29	87	9	203	40	23	5	30	1.78
11318200--11318370	57	3.0	57	84	9	206	39	22	5	32	1.78
11318389--11318413	13	1.9	13	100	0	50	12	24	48	16	1.79

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   
          65