genome.fa.s8243.2.7.7.80.10.50.1000.40.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

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   

This is table  40  of  49  ( 5786 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)
8247603--8247657	22	2.7	20	83	10	74	29	16	29	25	1.97
8248107--8248527	45	9.4	45	86	1	504	39	9	20	30	1.85
8248107--8248527	135	3.1	134	85	2	558	39	9	20	30	1.85
8253814--8253855	3	14.0	3	100	0	84	0	33	0	66	0.92
8254512--8254589	22	3.6	22	88	6	108	32	17	20	29	1.96
8255136--8255527	45	8.7	45	83	1	374	40	8	20	30	1.83
8255136--8255474	180	1.9	180	90	3	549	39	8	21	30	1.84
8255136--8255527	90	4.4	90	79	3	412	40	8	20	30	1.83
8255178--8255566	90	4.3	90	77	6	252	39	8	21	30	1.84
8255176--8255527	135	2.6	134	82	0	443	39	8	22	29	1.83
8259684--8259831	77	1.9	78	82	9	187	44	4	8	41	1.56
8267341--8267384	2	22.0	2	100	0	88	50	0	0	50	1.00
8281597--8281656	27	2.2	27	85	8	86	30	0	13	56	1.37
8283466--8283497	16	2.0	16	93	0	55	65	0	18	15	1.27
8287406--8287436	2	16.0	2	93	6	55	48	0	0	51	1.00
8288242--8288283	21	2.0	21	90	0	66	30	16	7	45	1.74
8288889--8288987	35	2.8	35	96	0	180	36	13	19	31	1.90
8290268--8290326	21	2.8	21	71	0	55	47	33	3	15	1.62
8290950--8290997	2	25.0	2	91	8	82	47	0	0	52	1.00
8293038--8293099	29	2.0	32	81	9	76	38	3	4	53	1.39
8294643--8294684	21	2.0	21	81	9	50	61	0	2	35	1.09
8296383--8296531	45	3.3	45	92	1	228	33	18	21	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8296549--8297034	45	10.8	45	92	1	769	33	19	22	24	1.97
8297267--8297365	50	2.0	50	98	2	191	28	20	8	43	1.80
8297726--8297831	22	4.9	22	91	2	162	41	11	11	35	1.77
8305136--8305172	14	2.6	14	86	0	56	59	5	13	21	1.54
8308578--8308618	15	2.8	15	85	3	57	60	7	2	29	1.36
8309672--8309726	3	18.7	3	81	3	67	60	1	0	38	1.08
8309790--8309963	85	2.0	86	97	1	332	47	25	10	16	1.78
8314497--8314524	2	14.0	2	100	0	56	50	0	0	50	1.00
8314529--8314578	19	2.6	19	78	9	57	46	6	2	46	1.39
8314512--8314698	94	2.0	94	95	0	338	39	9	6	45	1.62
8316279--8316325	20	2.2	22	85	7	62	42	0	2	55	1.12
8318267--8318367	47	2.1	47	87	0	148	33	31	13	20	1.92
8320834--8320901	34	2.0	34	100	0	136	44	11	20	23	1.84
8325451--8325518	34	2.0	34	100	0	136	44	11	20	23	1.84
8331987--8332027	15	2.7	15	88	3	55	31	26	12	29	1.92
8357423--8357454	16	2.0	16	93	0	55	15	37	28	18	1.92
8357659--8357715	15	3.7	15	77	9	69	22	35	26	15	1.94
8357753--8357807	15	3.4	16	85	7	76	25	30	30	12	1.93
8358442--8358687	111	2.2	109	85	3	316	38	20	13	27	1.90
8359682--8359761	3	25.3	3	72	18	56	26	1	5	67	1.18
8359695--8359766	16	4.7	15	79	10	65	23	1	8	66	1.27
8359682--8359765	43	2.0	42	84	11	109	26	1	5	66	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8359682--8359745	13	5.0	13	81	12	71	26	1	3	68	1.13
8362152--8362204	2	26.5	2	100	0	106	49	0	0	50	1.00
8373271--8374019	183	4.3	174	79	9	779	43	12	14	29	1.82
8373626--8373963	164	2.1	163	89	2	509	44	12	13	30	1.79
8374918--8375030	24	4.7	24	83	6	140	40	18	15	25	1.89
8374921--8375053	72	1.9	71	84	7	180	42	18	13	25	1.86
8377501--8377563	13	4.5	13	70	18	54	20	20	41	17	1.91
8377505--8377565	31	2.0	31	83	0	77	21	19	40	18	1.91
8379696--8379771	24	3.2	24	84	3	73	43	21	11	23	1.85
8379713--8379780	24	2.8	24	91	4	102	39	20	14	25	1.91
8382208--8382255	13	3.3	13	75	25	51	16	22	43	16	1.87
8382214--8382260	18	2.6	18	93	0	76	12	23	46	17	1.82
8386986--8387515	200	2.7	200	90	0	846	42	12	13	32	1.81
8387838--8387905	18	3.8	18	81	9	86	25	36	5	32	1.80
8387822--8387899	36	2.2	36	90	0	120	21	35	6	35	1.79
8388204--8388235	2	16.0	2	100	0	64	50	0	0	50	1.00
8392917--8392962	21	2.2	20	81	7	56	26	13	15	45	1.82
8393027--8393072	20	2.3	20	92	0	74	58	2	10	28	1.43
8393036--8393078	20	2.2	20	95	0	77	51	6	11	30	1.65
8394888--8395272	182	2.1	182	91	3	625	45	8	3	42	1.50
8395748--8395798	23	2.3	21	80	12	57	25	1	7	64	1.31
8395770--8395818	18	2.9	16	77	16	55	36	0	2	61	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8396333--8396387	21	2.6	21	94	0	92	27	27	20	25	1.99
8402126--8402164	20	2.0	20	85	10	53	28	17	15	38	1.91
8404255--8404279	13	1.9	13	100	0	50	36	0	16	48	1.46
8404733--8404793	18	3.4	18	97	0	113	37	27	16	18	1.92
8412990--8413034	13	3.5	13	78	0	54	22	44	17	15	1.86
8416770--8416803	2	17.0	2	100	0	68	50	0	0	50	1.00
8417853--8417895	3	14.3	3	100	0	86	67	0	0	32	0.91
8420453--8420577	32	3.9	32	78	3	126	36	12	10	41	1.76
8422158--8422258	6	16.8	6	75	4	69	15	36	0	46	1.53
8422219--8422270	18	2.9	18	91	0	86	15	38	0	46	1.46
8422189--8422240	12	4.3	12	95	0	77	17	38	0	44	1.49
8422173--8422273	12	8.4	12	81	4	69	12	37	0	48	1.48
8422787--8422832	23	2.0	23	100	0	92	26	21	17	34	1.95
8426380--8426501	40	3.0	40	95	0	226	23	16	26	33	1.96
8427205--8427244	21	1.9	21	84	0	53	42	2	2	52	1.28
8430534--8430583	25	2.0	27	84	11	70	38	8	22	32	1.83
8433752--8433872	40	3.0	40	92	1	199	23	14	27	34	1.93
8437811--8438035	64	3.5	64	83	2	238	31	21	20	26	1.98
8438339--8438374	12	3.0	12	91	0	63	33	5	25	36	1.79
8438391--8438489	29	3.4	29	97	1	182	45	15	21	18	1.85
8438573--8438620	15	3.2	15	96	0	87	14	22	33	29	1.94
8455015--8455048	12	2.8	13	91	8	54	20	11	0	67	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8456443--8457108	333	2.0	332	97	2	1257	32	23	17	25	1.97
8459879--8459946	20	3.3	20	69	15	57	41	13	5	39	1.68
8459877--8459970	22	4.3	22	70	22	72	41	10	6	41	1.65
8459868--8459950	42	2.1	39	88	6	121	43	12	4	39	1.63
8459921--8459970	24	2.1	24	85	7	66	40	8	8	44	1.63
8459962--8460026	9	7.0	9	72	19	53	49	10	0	40	1.38
8459954--8460026	20	3.8	20	78	20	61	47	9	1	41	1.44
8459935--8459980	24	1.9	24	82	8	58	41	8	6	43	1.61
8460067--8460145	27	3.0	27	75	18	69	37	7	5	49	1.53
8460179--8460225	16	2.7	18	77	12	53	46	10	0	42	1.38
8460137--8460227	19	5.1	17	71	18	60	45	9	2	42	1.49
8460260--8460356	28	3.3	29	75	12	83	46	7	3	43	1.47
8462065--8462716	327	2.0	324	99	0	1277	33	19	21	26	1.97
8463492--8463619	61	2.0	65	92	7	219	37	21	28	11	1.89
8465969--8465996	2	14.0	2	100	0	56	50	0	0	50	1.00
8469893--8469941	25	2.0	25	84	8	64	48	14	6	30	1.67
8472491--8472538	25	1.9	24	84	16	62	54	20	2	22	1.55
8475307--8475357	26	2.0	26	84	7	68	0	11	23	64	1.26
8476005--8476066	31	2.0	30	90	3	97	46	8	1	43	1.42
8476052--8476297	48	5.1	47	83	10	311	43	9	0	45	1.40
8476181--8476261	2	41.5	2	75	18	64	49	4	0	45	1.23
8476229--8476258	15	2.0	15	100	0	60	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8476095--8476297	54	4.0	52	81	11	219	44	8	0	46	1.38
8476743--8476999	88	2.9	88	87	2	390	28	19	21	29	1.98
8477027--8477139	38	3.2	37	66	25	91	30	14	23	30	1.94
8476995--8477220	67	3.4	67	86	0	299	31	16	23	28	1.96
8478376--8478586	76	2.8	77	85	7	268	20	23	31	24	1.98
8478678--8479035	173	2.1	173	97	2	684	37	11	10	40	1.76
8479070--8479129	29	2.1	29	93	6	104	38	18	3	40	1.67
8479355--8479391	12	2.7	15	88	12	53	56	27	0	16	1.40
8481297--8481356	19	2.9	20	85	9	68	16	26	35	21	1.95
8486876--8487064	76	2.5	77	87	5	262	20	23	32	23	1.98

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