genome.fa.s8228.2.7.7.80.10.50.1000.13.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: VEPZ01008228.1 Hibiscus syriacus cultivar Beakdansim tig00110864_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3739947

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  13  of  20  ( 2363 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)
2197167--2197217	2	25.5	2	87	0	75	50	3	1	43	1.31
2197158--2197218	14	4.4	14	87	4	70	49	8	1	40	1.42
2200677--2200739	8	7.6	8	80	19	67	7	6	1	84	0.85
2200678--2200734	9	6.6	9	85	2	55	5	7	1	85	0.78
2200669--2200706	16	2.4	16	90	0	58	15	2	0	81	0.80
2200678--2200745	11	6.2	11	76	8	50	5	7	1	85	0.80
2205468--2205495	11	2.5	11	100	0	56	75	0	0	25	0.81
2207910--2207935	2	13.0	2	100	0	52	50	0	0	50	1.00
2208140--2208190	21	2.5	20	84	9	68	74	1	1	21	1.02
2217774--2217840	31	2.2	31	97	0	125	22	11	11	53	1.70
2217774--2217848	31	2.4	31	93	0	114	21	14	13	50	1.77
2223963--2224006	20	2.2	20	84	8	54	40	11	22	25	1.87
2226224--2226475	133	1.9	132	82	5	321	45	7	9	37	1.65
2227907--2227971	3	21.0	3	81	6	76	60	0	0	40	0.97
2227900--2227971	21	3.0	23	80	20	85	58	0	0	41	0.98
2228101--2229278	76	15.5	76	97	0	2113	34	21	21	22	1.96
2229940--2229994	22	2.5	22	90	0	92	40	16	10	32	1.83
2230345--2230500	54	2.9	54	91	0	249	23	23	16	37	1.93
2231569--2231658	45	2.0	45	97	0	171	37	21	11	30	1.88
2242048--2242111	3	21.0	3	84	9	85	62	0	0	37	0.95
2245204--2245278	3	24.3	3	82	15	82	38	1	0	60	1.06
2246258--2246306	21	2.3	21	93	6	82	46	6	2	44	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2246180--2246422	135	1.8	134	82	7	314	38	7	8	45	1.63
2252170--2252221	13	4.2	13	81	16	58	78	0	21	0	0.74
2252169--2252219	17	3.0	17	83	13	61	78	0	21	0	0.75
2252179--2252228	9	5.6	8	84	15	55	82	0	18	0	0.68
2252173--2252228	10	6.0	9	83	10	60	80	0	19	0	0.71
2252685--2252746	32	1.9	32	87	6	90	46	17	17	17	1.84
2257317--2257472	46	3.4	45	91	3	249	25	22	19	32	1.97
2257408--2257545	74	1.9	73	93	1	240	25	21	20	33	1.97
2257364--2257582	119	1.8	120	95	1	395	25	21	19	33	1.97
2257482--2257762	45	6.2	45	92	1	454	24	23	18	33	1.97
2257262--2257636	165	2.3	165	96	0	689	24	22	19	33	1.97
2257482--2257762	91	3.1	90	93	2	456	24	23	18	33	1.97
2258020--2258089	3	22.3	3	80	13	70	37	1	0	61	1.05
2258000--2258082	32	2.6	32	83	9	89	32	2	0	65	1.06
2259145--2259213	2	34.5	2	100	0	138	49	0	0	50	1.00
2259843--2259891	21	2.3	21	93	6	82	46	6	2	44	1.39
2259765--2260007	135	1.8	133	82	7	312	36	6	8	47	1.61
2266391--2266465	7	10.7	7	97	0	141	0	26	0	73	0.84
2266391--2266474	21	4.0	21	95	1	141	0	27	0	72	0.85
2268262--2268427	83	2.0	83	90	2	262	41	4	7	45	1.54
2268496--2268538	20	2.0	22	86	8	63	30	18	6	44	1.76
2269912--2270065	57	2.7	56	78	6	166	35	5	11	46	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2271517--2271548	15	2.1	15	94	0	55	37	9	0	53	1.34
2272485--2272526	21	2.0	21	95	0	75	40	16	9	33	1.81
2274476--2274530	24	2.2	24	78	12	58	47	0	5	47	1.25
2277503--2277577	19	4.0	19	73	15	66	20	28	25	26	1.99
2277578--2277624	5	9.8	5	81	9	62	21	53	21	4	1.63
2277583--2277623	14	2.9	14	100	0	82	21	51	21	4	1.67
2283627--2283655	7	4.3	7	91	8	51	17	31	27	24	1.97
2283627--2283655	13	2.1	14	93	6	51	17	31	27	24	1.97
2290554--2290591	19	2.0	19	94	0	67	21	50	21	7	1.74
2290588--2290624	7	5.4	7	87	6	58	16	27	32	24	1.96
2292811--2292870	20	3.0	20	70	2	57	58	20	8	13	1.60
2293518--2293577	28	2.1	30	84	6	79	18	3	13	65	1.40
2295366--2295408	20	2.1	21	86	4	61	34	6	2	55	1.39
2295433--2295593	79	2.0	79	82	1	196	41	12	11	34	1.78
2298928--2298973	17	2.8	17	78	21	53	65	0	6	28	1.17
2298933--2299023	25	3.7	25	72	19	77	62	1	5	30	1.25
2298940--2298973	17	2.0	18	88	11	54	64	0	5	29	1.17
2298955--2299022	29	2.3	31	75	14	72	63	1	4	30	1.23
2299119--2299166	21	2.4	19	79	10	51	70	2	6	20	1.19
2300004--2300047	2	23.0	2	82	17	58	50	0	2	47	1.13
2300461--2301102	253	2.5	252	91	3	1011	25	19	23	31	1.98
2301051--2301265	106	2.0	106	87	1	306	25	18	21	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2302969--2303037	8	8.4	9	75	15	53	0	15	7	76	0.99
2302960--2303017	21	2.8	20	85	12	73	0	12	6	81	0.88
2302959--2302983	13	1.9	13	100	0	50	0	12	8	80	0.92
2303284--2303353	29	2.4	29	77	20	74	68	1	7	22	1.22
2303444--2303560	22	4.9	22	70	28	64	63	0	3	32	1.17
2303473--2303555	22	3.5	24	72	14	73	63	1	3	31	1.19
2303591--2303734	74	1.9	73	81	13	170	61	0	9	29	1.32
2303796--2303825	2	15.0	2	92	0	51	46	0	0	53	1.00
2304566--2304613	2	25.0	2	84	16	66	50	0	2	47	1.12
2306423--2306472	3	17.3	3	84	15	70	30	2	0	68	1.01
2311162--2311445	134	2.1	134	84	3	367	29	15	22	32	1.95
2311382--2311625	48	5.2	47	76	12	245	33	15	22	29	1.95
2311460--2311628	89	1.9	89	89	4	261	31	17	21	30	1.96
2329819--2329915	15	6.3	15	74	17	74	71	7	17	4	1.25
2329819--2329930	48	2.5	44	82	10	129	70	7	18	3	1.25
2329880--2329912	17	1.9	17	93	0	57	75	6	18	0	1.00
2329888--2329926	12	3.2	12	89	7	60	76	5	17	0	0.96
2329880--2329925	13	2.9	17	72	24	55	76	6	17	0	1.00
2331263--2331356	38	2.5	38	82	5	111	36	15	13	34	1.88
2331336--2331458	63	2.0	63	88	1	185	25	13	14	47	1.80
2331454--2331510	30	1.9	30	85	0	78	29	14	12	43	1.81
2331582--2331862	129	2.1	130	81	4	314	27	28	17	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2332119--2332167	16	2.9	16	81	9	53	24	2	0	73	0.94
2332119--2332169	9	6.1	8	82	17	52	25	1	0	72	0.95
2332711--2332745	17	2.1	16	89	10	52	54	5	34	5	1.48
2333624--2333697	30	2.5	30	82	4	78	16	10	14	58	1.64
2333593--2333707	60	1.9	60	80	7	135	16	10	14	58	1.63
2333640--2333721	30	2.8	29	83	9	94	10	10	18	59	1.59
2338596--2338640	23	2.0	23	86	0	63	37	15	17	28	1.91
2341051--2341101	21	2.4	21	80	0	66	29	5	5	58	1.45
2348292--2348337	21	2.2	21	88	0	65	21	47	17	13	1.81
2349878--2349989	42	2.7	41	82	6	136	28	22	20	28	1.98
2349834--2350729	236	3.8	236	79	6	1036	33	20	17	28	1.95
2350369--2350441	22	3.4	21	71	17	62	34	20	19	26	1.96
2350355--2350466	42	2.7	40	86	6	143	29	22	21	26	1.99
2350591--2350697	42	2.6	42	80	4	110	29	18	21	29	1.97
2352128--2352190	28	2.2	28	94	0	108	20	4	34	39	1.74
2352824--2352934	17	6.9	16	78	12	95	2	18	1	76	0.99
2352825--2352933	24	4.5	22	74	18	85	2	19	1	76	1.01
2352824--2352925	16	6.4	15	75	15	80	2	18	1	76	1.01
2352824--2352941	35	3.3	35	74	17	91	3	19	1	75	1.03
2352827--2352934	10	11.9	9	71	17	64	2	19	1	75	1.01
2352832--2352944	46	2.5	43	74	16	106	3	18	1	76	1.02
2353595--2353645	22	2.3	22	96	0	93	27	7	31	33	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2357950--2358001	27	1.9	27	88	0	77	63	11	11	13	1.52
2380943--2380975	14	2.4	14	85	5	50	48	21	9	21	1.77
2381018--2381059	21	2.0	22	90	4	68	23	35	23	16	1.95
2381767--2381907	23	6.0	24	75	13	141	31	25	25	17	1.97
2381776--2381891	47	2.5	47	95	0	205	32	25	26	14	1.95
2384747--2384810	2	32.0	2	93	0	110	46	0	0	53	1.00
2388365--2388505	23	6.0	24	73	14	116	32	25	24	17	1.96
2388374--2388489	47	2.5	47	95	0	205	32	25	26	14	1.95
2395047--2395078	6	5.3	6	92	0	55	18	15	15	50	1.79
2404854--2405068	103	2.1	103	97	0	403	26	13	24	36	1.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20