genome.fa.s2647.2.7.7.80.10.50.1000.22.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  22  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)
5840332--5840424	49	1.9	48	84	6	125	23	22	27	25	2.00
5842048--5842256	108	1.9	107	94	0	364	36	12	16	33	1.87
5842050--5842261	55	3.9	55	88	3	313	36	12	16	33	1.87
5842511--5842597	45	1.9	46	84	11	117	39	13	22	24	1.91
5844812--5844849	19	2.1	18	90	5	58	65	2	7	23	1.32
5849676--5849990	55	5.8	54	83	4	373	35	17	17	29	1.93
5849676--5849990	109	2.9	108	85	4	386	35	17	17	29	1.93
5855262--5855313	21	2.5	21	93	3	88	42	17	17	23	1.89
5859003--5859069	22	3.0	22	82	8	91	28	23	20	26	1.99
5859786--5860154	55	6.8	55	82	7	416	36	18	18	27	1.94
5859810--5860154	108	3.2	108	85	5	439	36	18	18	27	1.94
5859808--5860106	163	1.8	163	87	2	449	37	18	17	27	1.92
5859803--5860171	163	2.3	162	81	7	433	36	18	17	26	1.94
5866095--5866380	148	1.9	149	82	4	364	35	18	18	27	1.94
5871976--5872000	12	2.1	12	100	0	50	20	16	32	32	1.94
5882420--5882514	3	31.7	3	93	4	93	66	9	0	24	1.21
5886518--5886563	18	2.6	18	86	6	58	13	34	30	21	1.91
5887480--5887692	115	1.9	115	89	2	338	26	19	16	37	1.93
5887600--5887859	91	2.9	91	92	0	421	24	21	15	38	1.92
5887938--5887998	20	3.1	20	67	19	56	14	24	9	50	1.73
5888556--5888636	42	1.9	42	89	0	126	39	20	17	22	1.92
5888556--5888652	42	2.3	42	83	0	122	37	20	20	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5889120--5889206	41	2.1	42	86	2	122	33	20	19	26	1.97
5889196--5889248	20	2.7	20	90	0	88	33	18	24	22	1.97
5889300--5889467	58	2.9	58	83	8	184	39	16	8	35	1.80
5894584--5894617	15	2.2	16	89	5	52	47	17	17	17	1.84
5900739--5900774	12	2.6	15	79	20	51	47	11	27	13	1.77
5900704--5900774	28	2.6	28	82	6	74	49	14	19	16	1.80
5911513--5911552	19	2.1	19	90	9	64	80	2	5	12	0.98
5911501--5911555	5	11.2	5	79	12	53	78	1	3	16	0.98
5911493--5911555	25	2.6	24	82	9	67	77	3	3	15	1.02
5911487--5911545	14	4.6	13	77	12	52	77	1	3	16	0.98
5913381--5913412	14	2.1	16	88	11	50	25	6	12	56	1.59
5939942--5939986	23	2.0	23	86	0	63	15	8	0	75	1.03
5939954--5939987	17	1.9	18	88	5	52	17	8	0	73	1.08
5951498--5951601	22	4.7	22	83	4	111	31	21	15	31	1.94
5955389--5955447	3	19.7	3	100	0	118	33	0	0	66	0.92
5957910--5957956	2	24.0	2	95	4	87	51	0	0	48	1.00
5962495--5963128	134	4.7	135	82	4	714	30	23	17	28	1.97
5962495--5963128	267	2.4	266	83	3	767	30	23	17	28	1.97
5963276--5963321	3	15.3	3	100	0	92	34	0	0	65	0.93
5977020--5977061	12	3.4	12	83	6	57	71	0	2	26	0.98
5977020--5977053	13	2.8	12	86	8	50	76	0	2	20	0.92
5985238--5985267	15	2.0	15	100	0	60	13	46	26	13	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5995342--5995436	49	1.9	49	83	8	122	65	5	4	25	1.32
5997616--5997656	18	2.3	18	91	4	66	63	2	4	29	1.28
5997826--5997976	50	3.0	50	72	15	125	25	26	31	17	1.97
5998563--5998609	20	2.3	20	85	7	60	42	2	4	51	1.33
5998563--5998620	20	2.9	20	82	7	57	41	1	3	53	1.28
5999077--5999135	22	2.7	22	79	7	66	54	13	16	15	1.72
6000077--6000142	23	2.8	23	77	6	69	24	6	4	65	1.35
6000079--6000145	25	2.8	24	80	6	73	25	5	4	64	1.36
6000186--6000234	2	24.5	2	83	8	55	40	2	0	57	1.10
6000186--6000242	30	1.9	30	92	0	96	38	1	0	59	1.08
6000234--6000282	14	3.6	14	86	8	57	20	2	0	77	0.87
6000232--6000354	21	5.5	23	68	19	73	17	7	0	75	1.02
6000232--6000286	12	4.7	11	80	15	58	20	1	0	78	0.85
6000244--6000326	9	8.8	9	73	12	51	15	4	0	79	0.89
6000244--6000314	14	5.2	13	75	14	63	12	5	0	81	0.85
6000237--6000325	11	7.9	11	72	7	63	14	5	0	79	0.90
6000316--6000370	16	3.4	16	78	14	51	20	10	0	69	1.18
6003470--6003518	13	3.6	14	86	8	75	77	4	16	2	1.01
6003468--6003518	27	1.9	26	96	4	93	78	3	15	1	0.99
6003595--6003728	69	1.9	69	95	0	241	38	22	14	25	1.92
6004660--6004754	32	2.9	32	85	1	136	29	12	21	36	1.90
6005318--6005671	106	3.3	105	84	4	413	34	23	18	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6005900--6006057	65	2.4	65	81	4	194	29	18	11	39	1.86
6005968--6006151	102	1.8	102	86	2	271	27	16	13	42	1.85
6005826--6006337	167	3.1	167	93	0	853	29	17	13	40	1.87
6006070--6006216	65	2.3	65	86	2	197	28	15	12	42	1.84
6006119--6006505	102	3.8	102	81	4	406	28	17	13	39	1.88
6006302--6006372	37	1.9	37	85	0	97	22	19	15	42	1.89
6006569--6006637	36	1.9	36	93	0	120	23	21	13	42	1.88
6006644--6006736	33	2.8	32	86	4	132	38	18	10	32	1.85
6007927--6008065	4	35.8	4	75	16	78	28	2	0	69	1.01
6007961--6008027	11	5.9	11	70	19	57	22	2	0	74	0.95
6007892--6008024	44	3.0	42	84	10	162	29	3	0	66	1.08
6007893--6008065	46	3.8	46	80	6	165	30	2	0	67	1.06
6007951--6008062	55	2.1	53	85	9	147	26	2	0	70	1.00
6007943--6008100	64	2.5	59	78	13	142	26	5	0	68	1.10
6008095--6008158	26	2.4	27	77	12	78	18	10	1	68	1.27
6015576--6015705	69	1.9	69	96	0	242	57	6	1	34	1.33
6017304--6017593	96	3.0	96	88	0	445	28	18	24	28	1.98
6017941--6018110	66	2.6	66	79	7	202	39	13	20	26	1.90
6018333--6018405	20	3.6	19	71	14	56	31	19	26	23	1.98
6018314--6018386	20	3.5	20	74	12	67	32	19	19	28	1.96
6018446--6018789	43	8.0	43	87	3	464	28	28	15	27	1.96
6020721--6020757	17	2.3	17	86	9	51	2	16	0	81	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6020729--6020777	9	5.6	8	88	11	62	2	14	4	79	0.97
6031417--6031469	27	2.0	27	96	0	97	58	11	11	18	1.62
6035441--6035465	3	8.3	3	100	0	50	64	36	0	0	0.94
6042041--6042108	33	2.1	33	86	5	93	33	14	26	25	1.94
6044987--6045076	20	4.8	19	77	12	69	26	30	18	24	1.98
6045004--6045076	19	3.9	19	77	13	89	26	30	19	24	1.98
6045007--6045077	36	2.0	36	89	8	110	26	29	18	25	1.98
6050538--6050570	15	2.1	16	88	5	50	54	0	3	42	1.15
6057348--6057430	23	3.8	22	75	15	73	24	31	25	19	1.98
6057359--6057409	23	2.2	23	85	0	75	19	35	23	21	1.96
6059013--6059053	18	2.3	18	86	0	55	43	26	26	2	1.67
6068299--6068338	16	2.4	17	87	8	64	55	2	0	42	1.13
6068322--6068376	27	1.9	29	85	10	78	41	12	5	40	1.66
6069310--6069443	53	2.5	53	78	7	155	37	8	22	32	1.84
6076833--6077060	111	2.1	110	85	5	300	29	16	17	36	1.92
6083116--6083344	111	2.1	111	90	3	354	28	16	19	35	1.94
6092045--6092122	38	2.1	38	100	0	156	33	15	10	41	1.81
6093671--6093733	27	2.3	27	100	0	126	22	23	28	25	1.99
6094525--6094626	31	3.3	31	91	0	159	22	24	40	12	1.89
6095012--6095049	2	19.0	2	100	0	76	50	0	0	50	1.00
6103419--6103484	18	3.8	17	83	4	87	33	10	13	42	1.79
6116695--6116733	19	2.1	19	85	0	51	28	0	15	56	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6116623--6116795	73	2.3	75	82	6	201	27	2	13	56	1.49
6118854--6119044	92	2.1	92	98	0	373	42	22	16	18	1.88
6123168--6123259	5	17.8	5	70	14	53	25	4	1	69	1.13
6123210--6123259	20	2.5	20	87	6	66	28	2	0	70	0.99
6123213--6123255	15	2.9	14	89	6	59	30	2	0	67	1.03
6124935--6125107	75	2.3	74	85	4	215	28	1	12	57	1.42
6125205--6125234	12	2.6	12	94	5	53	6	26	3	63	1.35
6125705--6125738	17	2.0	17	88	0	50	23	0	2	73	0.97
6125806--6125851	24	2.0	23	82	4	56	13	10	2	73	1.17
6129810--6129922	56	2.0	56	98	0	217	24	19	10	45	1.82

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