genome.fa.s2647.2.7.7.80.10.50.1000.24.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: VEPZ01002647.1 Hibiscus syriacus cultivar Beakdansim tig00005406_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7027529

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   

This is table  24  of  26  ( 3011 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)
6524624--6524690	22	3.1	20	75	14	62	47	1	1	49	1.19
6532676--6532709	18	1.9	18	88	5	52	50	0	20	29	1.49
6534351--6534797	80	5.6	80	93	1	727	23	19	25	31	1.98
6537990--6538025	15	2.4	15	100	0	72	19	8	25	47	1.77
6538184--6538217	18	1.9	18	88	5	52	50	0	20	29	1.49
6539862--6540232	80	4.6	80	91	2	557	23	20	23	32	1.98
6539868--6540254	161	2.4	161	90	2	580	22	20	24	32	1.98
6541774--6541842	26	2.7	26	86	8	104	21	14	30	33	1.93
6545330--6545380	18	2.9	18	88	5	70	37	0	0	62	0.95
6545330--6545368	6	6.5	6	93	0	69	33	0	0	66	0.92
6564233--6564872	342	1.9	342	95	0	1156	36	18	12	32	1.88
6564994--6565127	66	2.0	66	97	0	250	37	9	8	44	1.67
6566559--6566593	18	2.0	18	88	5	54	20	17	11	51	1.75
6568234--6568273	19	2.0	20	86	13	57	17	22	0	60	1.37
6572584--6572670	42	2.1	42	88	0	129	33	19	14	32	1.92
6574392--6574440	19	2.5	19	83	3	62	65	2	12	20	1.35
6575732--6575877	12	11.2	13	76	15	108	60	1	0	37	1.10
6575765--6575842	14	5.8	14	81	14	101	60	1	0	38	1.05
6575718--6575837	40	2.8	40	87	11	152	57	1	0	40	1.14
6575746--6575877	26	5.0	26	78	15	123	62	1	0	36	1.05
6575774--6575870	6	15.5	6	72	14	72	62	1	0	36	1.02
6579333--6579368	16	2.2	16	95	0	63	69	0	11	19	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6585056--6585089	17	2.0	17	100	0	68	35	11	11	41	1.78
6587442--6587547	49	2.2	48	80	8	110	50	0	18	29	1.53
6589496--6589535	20	2.0	20	100	0	80	70	5	25	0	1.08
6591043--6591084	20	2.0	21	86	13	61	54	21	0	23	1.44
6598457--6598481	12	2.1	12	100	0	50	76	0	8	16	1.02
6598991--6599055	30	2.2	29	83	8	78	44	7	16	30	1.76
6600927--6601189	45	5.9	45	88	2	395	38	6	21	33	1.80
6600927--6601187	89	2.9	89	94	1	450	38	6	21	32	1.80
6604826--6604865	21	1.9	21	89	0	62	20	12	30	37	1.89
6605559--6605596	16	2.4	16	100	0	76	15	34	13	36	1.87
6607504--6607548	22	2.0	23	86	4	65	31	17	2	48	1.59
6607642--6607676	16	2.2	16	89	0	52	48	0	5	45	1.26
6608668--6608720	26	2.0	26	85	0	70	41	43	7	7	1.61
6613041--6613088	20	2.4	20	75	0	51	52	0	2	45	1.12
6618798--6619145	55	6.3	55	87	1	493	27	20	18	33	1.96
6621496--6621561	26	2.6	25	76	11	80	36	7	1	54	1.38
6621496--6621573	27	3.0	27	83	7	101	38	8	1	51	1.42
6621535--6621709	36	4.6	36	75	16	138	40	9	1	48	1.45
6621608--6621653	23	2.0	24	83	8	60	32	8	2	56	1.42
6621566--6621713	78	1.9	78	84	4	199	39	8	2	49	1.45
6621686--6621794	45	2.5	44	83	8	141	43	7	1	47	1.42
6621695--6621729	2	17.5	2	100	0	70	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6621722--6621768	20	2.4	20	82	10	53	42	8	2	46	1.46
6621741--6621794	25	2.3	23	87	6	72	42	7	1	48	1.42
6621714--6621802	44	2.0	46	86	4	128	46	8	2	42	1.47
6622025--6622572	180	3.0	179	86	3	724	30	17	20	32	1.95
6631648--6631693	17	2.7	17	96	0	83	15	47	13	23	1.80
6634183--6634259	26	3.0	25	76	12	77	40	7	1	50	1.39
6634202--6634253	27	2.0	26	88	3	77	42	5	1	50	1.37
6634240--6634274	14	2.4	15	85	9	54	40	14	0	45	1.45
6634217--6634326	40	2.7	42	83	9	131	40	9	0	49	1.41
6634321--6634383	21	3.0	22	75	22	71	46	7	1	44	1.42
6634323--6634374	19	2.6	20	78	9	61	44	7	1	46	1.43
6634322--6634474	44	3.7	44	78	14	189	41	6	2	49	1.42
6634324--6634387	19	3.2	19	71	16	56	43	7	1	46	1.42
6634401--6634474	21	3.4	21	73	17	71	40	6	2	50	1.43
6634387--6634477	25	4.0	23	72	20	75	40	5	3	50	1.42
6634960--6635045	45	1.9	45	82	0	109	25	27	23	23	2.00
6635699--6636116	209	2.0	211	98	1	813	24	21	14	38	1.91
6640715--6640820	45	2.4	45	88	0	158	29	30	19	20	1.97
6642370--6642408	21	1.9	20	89	5	60	38	20	10	30	1.86
6653353--6653419	3	22.3	3	73	11	57	59	2	2	34	1.28
6653353--6653419	13	5.3	12	75	15	64	59	2	2	34	1.28
6655800--6655863	31	2.1	31	87	0	92	39	26	7	26	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6655964--6655990	14	1.9	14	100	0	54	44	3	0	51	1.19
6655980--6656024	17	2.6	18	82	10	58	46	0	0	53	1.00
6655966--6656016	14	3.4	15	80	15	52	47	1	0	50	1.12
6661949--6661975	14	1.9	14	100	0	54	37	0	3	59	1.15
6661948--6662012	18	3.6	18	78	13	62	44	0	1	53	1.09
6661964--6662003	17	2.4	17	87	8	55	47	0	0	52	1.00
6665650--6665752	3	34.7	3	96	1	190	34	0	0	65	0.93
6667448--6667488	15	2.4	19	69	30	54	56	4	4	34	1.42
6667455--6667487	15	2.2	15	100	0	66	51	6	6	36	1.51
6667858--6667901	5	9.4	5	87	7	58	0	40	25	34	1.56
6667858--6667901	14	3.1	15	84	9	58	0	40	25	34	1.56
6667902--6667950	6	8.5	6	97	2	84	0	16	53	30	1.43
6668043--6668139	21	4.6	21	73	19	103	30	30	19	18	1.96
6670210--6670280	3	23.3	3	91	2	115	36	1	0	61	1.05
6670355--6670388	12	2.8	12	95	0	59	8	20	8	61	1.52
6671202--6671681	239	2.0	241	99	0	946	31	18	15	35	1.91
6674515--6674546	14	2.1	16	88	11	50	78	0	18	3	0.89
6674588--6674630	17	2.5	17	100	0	86	79	0	20	0	0.74
6674584--6674643	22	2.8	21	76	16	61	78	0	20	1	0.84
6674580--6674630	17	3.1	16	94	2	75	80	0	19	0	0.71
6676180--6676347	39	4.4	39	84	3	180	27	19	16	35	1.94
6676293--6676414	63	1.9	63	93	0	208	29	19	13	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6676419--6676479	21	3.2	20	69	26	60	27	24	13	34	1.93
6676419--6676536	36	3.2	36	90	2	173	29	23	13	33	1.93
6676816--6676919	41	2.5	42	84	1	129	34	20	18	26	1.95
6676816--6676926	42	2.7	41	84	1	132	33	19	18	27	1.96
6676859--6677190	131	2.5	131	86	0	432	31	21	19	27	1.98
6687296--6687431	1	136.0	1	67	0	65	83	0	16	0	0.70
6687296--6687423	7	18.9	7	88	7	104	82	0	16	0	0.71
6687303--6687426	14	8.6	14	85	10	162	83	0	16	0	0.70
6687303--6687423	21	5.5	22	85	11	160	82	0	16	0	0.71
6688556--6689020	106	4.5	106	86	4	631	35	24	17	22	1.95
6690796--6690866	3	22.7	3	91	5	106	29	4	0	66	1.11
6693736--6693771	17	2.2	17	90	5	56	61	0	16	22	1.35
6700542--6700585	17	2.6	17	77	0	52	61	2	0	36	1.09
6701379--6701421	13	3.3	13	81	9	52	48	0	2	48	1.14
6703437--6703485	3	16.0	3	79	12	55	59	2	4	34	1.28
6703607--6704222	45	13.7	45	92	0	973	36	18	22	22	1.95
6704849--6704900	19	2.5	21	75	15	63	38	15	11	34	1.83
6708994--6709057	32	2.0	32	90	0	101	20	15	17	46	1.83
6709645--6709679	7	4.7	7	92	7	52	0	25	0	74	0.82
6712034--6712072	20	2.0	20	84	0	51	64	7	10	17	1.48
6712164--6712201	15	2.6	14	91	4	58	60	10	15	13	1.59
6712164--6712201	7	5.3	7	87	6	58	60	10	15	13	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6712280--6712366	43	2.0	44	84	2	113	33	25	12	28	1.92
6712401--6712459	30	2.0	30	89	0	91	16	22	16	44	1.87
6716299--6716368	3	23.0	3	82	8	88	60	0	2	37	1.12
6717038--6717077	21	2.0	21	90	5	64	40	2	5	52	1.37
6717339--6717371	17	1.9	17	88	11	50	66	0	3	30	1.06
6718220--6718299	18	4.4	18	95	0	142	28	18	5	47	1.70
6718517--6718560	22	2.0	22	91	8	72	63	0	0	36	0.95
6718515--6718579	24	2.6	24	85	7	76	64	0	0	35	0.94
6719609--6719648	20	2.0	20	100	0	80	40	5	30	25	1.77
6719912--6719993	3	28.0	3	71	14	55	39	1	57	2	1.20

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