genome.fa.s9460.2.7.7.80.10.50.1000.12.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: VEPZ01009460.1 Hibiscus syriacus cultivar Beakdansim tig00113722_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2853300

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  12  of  14  ( 1601 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)
2248332--2248501	84	2.0	84	81	0	196	33	25	17	24	1.96
2249829--2249881	20	2.7	20	96	0	97	20	18	7	52	1.69
2249981--2250069	11	8.4	11	70	22	57	25	3	1	69	1.11
2264107--2264166	15	3.6	16	73	18	52	60	1	0	38	1.07
2264505--2264571	21	3.4	21	68	19	72	55	0	2	41	1.15
2264535--2264586	22	2.3	23	80	9	63	51	1	1	44	1.23
2270012--2270063	20	2.6	20	90	6	79	36	15	17	30	1.91
2271305--2272025	229	3.1	229	97	0	1327	45	7	8	38	1.63
2272074--2272120	20	2.4	19	89	10	76	55	10	17	17	1.69
2272967--2273030	23	2.8	23	90	0	101	35	4	21	37	1.75
2273449--2273512	23	2.8	23	87	0	92	37	4	20	37	1.74
2272910--2273917	483	2.1	481	97	0	1901	41	7	11	40	1.69
2281977--2282010	11	3.1	11	86	0	50	47	0	0	52	1.00
2292402--2292436	17	2.1	17	100	0	70	34	22	17	25	1.96
2294380--2294424	23	2.0	23	86	0	63	26	26	26	20	1.99
2297659--2297711	21	2.5	21	81	6	72	20	26	18	33	1.96
2297701--2297792	20	4.6	20	86	5	114	38	19	20	21	1.94
2298002--2298054	27	1.9	27	84	3	70	39	32	7	20	1.81
2298310--2298380	19	3.7	19	79	9	81	46	22	18	12	1.82
2298337--2298386	19	2.6	19	83	0	64	42	24	20	14	1.88
2298376--2298554	19	10.1	19	73	19	136	11	22	20	44	1.84
2298398--2298486	14	5.6	14	71	23	70	8	24	22	43	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2298381--2298505	33	3.8	33	97	0	232	10	23	22	44	1.83
2298478--2298545	20	3.5	20	89	2	93	14	22	23	39	1.91
2300644--2300736	42	2.2	42	82	3	116	21	36	16	25	1.94
2302115--2302151	14	2.6	14	82	0	56	32	0	24	43	1.55
2302258--2302328	19	3.7	19	86	3	99	49	21	18	11	1.78
2302258--2302339	19	4.3	19	87	3	96	47	21	17	13	1.81
2302334--2302445	33	3.4	32	87	9	172	14	24	19	41	1.88
2302354--2302445	19	5.4	19	68	24	87	15	21	19	43	1.87
2304742--2304786	3	15.0	3	80	0	54	2	24	0	73	0.95
2304738--2304786	12	4.1	12	94	0	89	2	24	0	73	0.94
2304738--2304782	6	7.5	6	84	0	63	2	22	0	75	0.91
2305787--2305838	21	2.5	21	87	3	70	38	17	23	21	1.93
2305827--2305900	20	3.7	20	75	10	69	36	22	18	21	1.95
2305823--2305914	20	4.6	20	72	2	67	39	20	18	21	1.93
2306112--2306181	20	3.5	20	69	7	70	40	22	20	17	1.92
2306213--2306266	14	3.5	14	77	22	63	11	20	20	48	1.80
2306195--2306265	33	2.2	33	84	0	88	19	19	21	39	1.93
2307844--2307935	42	2.2	41	84	5	123	21	15	40	22	1.91
2308299--2308354	20	2.8	20	89	2	87	33	23	26	16	1.95
2308338--2308429	19	5.4	19	68	24	87	47	18	18	15	1.82
2308338--2308450	33	3.4	33	93	0	190	48	20	17	13	1.80
2308457--2308553	19	5.6	19	69	22	88	13	19	20	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2308479--2308537	14	3.9	14	72	20	55	11	16	22	49	1.78
2308462--2308553	33	2.8	33	94	0	166	13	18	20	47	1.81
2308538--2308581	20	2.2	20	88	4	63	18	25	20	36	1.95
2309127--2309172	18	2.6	18	89	0	74	15	13	43	28	1.83
2310490--2310548	20	3.0	20	87	0	73	44	22	18	15	1.87
2310811--2310854	22	2.0	22	90	0	70	20	15	43	20	1.88
2311047--2311102	20	2.8	20	83	0	76	37	8	23	30	1.85
2311095--2311155	20	3.0	20	76	9	70	18	21	27	32	1.96
2311149--2311199	21	2.4	21	93	0	93	21	19	15	43	1.88
2311206--2311258	21	2.5	22	78	6	65	33	20	24	20	1.97
2313438--2313465	3	9.3	3	100	0	56	35	0	0	64	0.94
2314796--2314836	18	2.3	18	86	0	55	24	0	0	75	0.80
2316514--2316576	29	2.2	29	100	0	126	34	12	17	34	1.88
2316550--2316623	21	3.6	21	72	20	66	29	17	20	32	1.95
2318839--2318867	13	2.2	13	100	0	58	10	24	37	27	1.88
2322407--2322451	23	2.0	22	86	4	63	37	0	20	42	1.52
2323909--2323949	21	1.9	22	85	5	57	48	2	24	24	1.63
2324835--2324900	18	3.7	18	87	0	105	19	22	28	28	1.98
2337442--2337486	22	2.0	23	82	4	56	20	0	13	66	1.24
2345830--2345856	14	1.9	14	100	0	54	7	22	3	66	1.33
2349388--2349449	23	2.9	20	78	19	63	75	0	14	9	1.03
2349401--2349514	13	8.0	14	71	23	62	78	0	15	5	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2349416--2349468	9	5.7	9	87	10	63	84	0	9	5	0.76
2349416--2349480	11	6.4	11	84	15	70	83	0	12	4	0.80
2349424--2349487	10	6.4	10	79	13	69	82	0	14	3	0.78
2349410--2349514	20	5.6	18	75	15	97	80	0	14	4	0.86
2350424--2351116	105	6.6	105	95	0	1206	36	18	22	22	1.95
2352871--2352916	22	2.0	24	83	8	60	21	0	13	65	1.26
2354176--2354248	29	2.5	29	84	6	85	52	8	2	36	1.46
2354442--2354483	20	2.1	20	90	0	66	33	9	21	35	1.86
2364054--2364111	23	2.5	23	85	0	89	41	10	10	37	1.73
2377482--2377537	25	2.2	25	81	12	62	60	16	1	21	1.44
2378024--2378091	33	2.1	32	83	10	84	19	19	42	19	1.89
2379814--2379850	15	2.3	17	81	13	51	64	2	0	32	1.07
2380599--2380638	10	4.0	10	90	0	62	30	35	0	35	1.58
2380599--2380638	20	2.0	20	100	0	80	30	35	0	35	1.58
2380698--2380749	13	3.8	13	72	22	52	30	0	0	69	0.89
2380687--2380753	29	2.3	29	84	0	98	26	0	2	70	1.02
2380698--2380753	21	2.6	22	75	8	62	28	0	0	71	0.86
2382593--2382637	3	15.0	3	85	0	63	31	4	35	28	1.77
2386463--2386557	30	3.1	30	89	1	136	18	3	42	35	1.67
2392504--2392545	2	21.0	2	100	0	84	50	0	0	50	1.00
2393420--2393465	23	2.0	23	83	8	58	47	4	2	45	1.34
2395949--2395984	18	2.0	18	100	0	72	16	16	44	22	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2395951--2395992	18	2.3	18	91	0	66	21	21	40	16	1.91
2409054--2409138	21	4.0	21	93	0	134	30	25	17	25	1.97
2409713--2409904	32	6.1	32	87	4	275	36	19	17	26	1.94
2412078--2412126	22	2.2	22	82	7	64	32	30	28	8	1.86
2413606--2413825	103	2.1	103	92	1	370	27	13	22	36	1.92
2413834--2413893	23	2.6	23	86	0	84	21	25	28	25	1.99
2416954--2416999	21	2.2	21	81	11	60	26	17	17	39	1.91
2421091--2421130	21	1.9	21	89	0	62	27	27	20	25	1.99
2425104--2425219	58	2.0	58	89	3	180	23	15	10	50	1.74
2428483--2428515	2	16.5	2	100	0	66	48	0	0	51	1.00
2428770--2428866	39	2.5	39	88	5	144	21	21	7	49	1.73
2429078--2429104	2	13.5	2	100	0	54	48	0	0	51	1.00
2444631--2444707	33	2.4	32	89	4	127	44	15	9	31	1.78
2444696--2444737	21	2.0	21	95	0	75	47	7	14	30	1.71
2454785--2455539	378	2.0	378	92	4	1281	34	22	13	29	1.92
2457668--2457753	44	1.9	45	85	2	120	31	31	17	19	1.95
2462325--2462356	12	2.8	12	95	4	57	81	0	12	6	0.87
2462626--2462671	17	2.7	17	86	0	56	76	0	6	17	1.00
2465603--2465657	24	2.3	24	96	0	101	23	18	1	56	1.51
2467302--2467341	21	2.0	21	85	5	55	25	22	15	37	1.93
2467363--2467400	20	1.9	20	88	0	58	28	18	13	39	1.88
2467878--2468039	65	2.5	65	87	1	236	30	24	16	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2467878--2468057	64	2.8	64	83	4	227	30	24	16	28	1.97
2473399--2473495	44	2.2	44	85	7	126	27	23	20	27	1.99
2473412--2473499	23	3.8	23	73	14	83	27	23	21	27	1.99
2483507--2483585	31	2.6	31	84	7	108	45	7	8	37	1.64
2520602--2520641	2	20.0	2	94	0	71	47	0	2	50	1.14
2521862--2521936	32	2.3	32	86	0	96	32	9	24	34	1.87
2522496--2522633	43	3.2	43	83	0	186	31	29	15	23	1.95
2522871--2522965	43	2.2	43	84	3	129	29	30	16	23	1.96
2522531--2523235	332	2.1	334	85	3	943	31	24	18	25	1.97
2523143--2523301	32	4.8	35	67	14	129	31	23	18	25	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14