genome.fa.s6564.2.7.7.80.10.50.1000.5.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: VEPZ01006564.1 Hibiscus syriacus cultivar Beakdansim tig00016065_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1886890

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 894 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)
1198611--1199052	207	2.1	207	82	4	552	28	22	16	33	1.95
1198819--1199321	162	3.1	162	84	3	573	25	19	16	38	1.92
1199639--1199716	36	2.2	36	85	0	102	39	12	16	30	1.86
1199582--1199838	102	2.5	102	88	3	356	36	10	19	33	1.86
1199794--1199982	66	2.9	64	73	12	170	37	12	16	33	1.86
1201946--1202062	34	3.5	33	75	17	98	5	14	1	78	1.00
1201959--1202108	12	12.4	12	72	18	84	4	18	1	76	1.01
1201959--1202054	25	3.9	24	79	16	81	3	15	2	79	0.96
1202018--1202092	35	2.2	34	85	2	96	5	18	0	76	0.98
1204876--1204920	21	2.1	21	87	0	63	53	11	20	15	1.72
1212143--1212197	22	2.4	24	72	6	60	52	9	23	14	1.70
1212948--1213108	59	2.7	58	77	9	153	47	4	16	30	1.68
1213344--1213467	31	3.9	32	73	14	89	36	4	11	48	1.58
1219381--1219485	37	2.8	37	85	0	138	40	14	14	30	1.85
1224730--1224807	7	10.2	8	76	19	53	79	5	15	0	0.90
1224730--1224791	16	4.1	15	75	21	58	80	4	14	0	0.87
1224752--1224820	19	3.7	18	83	12	77	81	4	13	1	0.91
1224729--1224820	27	3.5	26	82	7	89	78	6	14	1	1.00
1226200--1226331	37	3.7	35	77	9	124	27	19	15	37	1.92
1226277--1226339	19	3.5	19	66	18	53	19	30	14	36	1.91
1226336--1227089	106	7.0	106	89	2	1123	33	25	17	23	1.96
1237593--1237635	22	2.0	22	95	0	77	51	11	0	37	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1237595--1237643	22	2.2	22	85	3	62	55	12	0	32	1.37
1237583--1238140	54	10.4	54	76	13	485	53	12	0	34	1.39
1237615--1238140	32	18.4	32	66	28	239	53	12	0	34	1.39
1237598--1237957	80	4.4	80	88	5	560	53	13	0	32	1.41
1237717--1237770	14	3.6	14	72	18	54	59	5	0	35	1.21
1237759--1237801	22	2.0	22	95	0	77	51	11	0	37	1.39
1237761--1237809	22	2.2	22	85	3	62	55	12	0	32	1.37
1237815--1237889	22	3.2	22	75	14	69	54	16	0	29	1.42
1237727--1238095	128	2.8	133	85	8	529	52	12	0	34	1.39
1238021--1238063	22	2.0	22	100	0	86	51	13	0	34	1.42
1238023--1238071	22	2.2	22	88	3	71	55	14	0	30	1.40
1237922--1238005	22	3.6	22	77	16	98	53	11	0	34	1.38
1238077--1238125	22	2.2	22	88	3	71	55	10	0	34	1.34
1238120--1238262	15	9.5	15	81	6	146	51	2	0	46	1.12
1237884--1238247	54	7.5	47	81	10	223	51	8	0	39	1.33
1240888--1240933	24	1.9	23	83	16	58	47	2	0	50	1.13
1241232--1241290	21	2.7	22	73	5	66	23	25	18	32	1.97
1241275--1241345	20	3.5	20	77	11	74	33	22	19	23	1.97
1241299--1241385	20	4.3	20	83	0	102	28	26	20	24	1.99
1241299--1241392	40	2.3	40	83	0	116	28	25	20	25	1.99
1241974--1242060	20	4.4	20	86	4	115	11	14	22	50	1.75
1242990--1243150	20	7.9	20	85	5	112	28	19	21	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1243028--1243138	40	2.7	40	83	8	152	27	19	18	33	1.96
1243578--1243605	4	7.0	4	100	0	56	25	0	0	75	0.81
1246239--1246294	25	2.3	24	78	9	60	48	3	1	46	1.30
1247022--1247210	64	3.0	64	94	1	337	42	7	4	44	1.54
1247545--1247601	28	2.0	28	86	0	78	29	17	21	31	1.96
1251358--1251410	21	2.5	21	81	6	54	54	0	1	43	1.11
1251569--1251619	19	2.7	19	96	0	93	25	31	21	21	1.98
1251711--1251803	21	4.6	20	78	4	96	38	18	24	18	1.92
1251708--1251803	41	2.3	41	98	0	183	39	17	23	18	1.92
1251711--1251803	20	4.6	20	78	4	96	38	18	24	18	1.92
1251730--1251864	41	3.3	41	81	6	123	37	20	21	20	1.94
1251792--1251886	20	4.7	20	80	2	91	34	24	17	23	1.96
1252074--1252117	22	2.0	22	100	0	88	22	45	13	18	1.84
1252381--1252418	20	1.9	20	88	0	58	13	15	21	50	1.78
1253740--1253784	18	2.5	18	85	0	54	28	40	15	15	1.88
1254257--1254302	20	2.3	20	88	0	65	36	26	21	15	1.93
1254296--1254391	19	5.6	18	69	25	66	46	22	18	11	1.81
1254312--1254369	14	3.9	14	79	16	71	48	25	17	8	1.75
1254296--1254386	32	2.8	32	93	3	146	48	23	17	10	1.79
1254403--1254460	14	3.9	14	79	16	71	8	17	25	48	1.75
1254398--1254476	32	2.4	33	95	2	142	10	18	24	46	1.80
1254417--1254534	20	6.4	19	77	11	95	13	20	24	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1256534--1256620	19	4.8	19	89	10	139	47	17	21	13	1.82
1256505--1256620	33	3.4	33	82	11	142	44	19	21	13	1.85
1256639--1256696	20	2.9	20	94	0	98	17	22	22	37	1.93
1257756--1257809	24	2.2	24	90	0	81	24	16	20	38	1.92
1257984--1258008	12	2.1	12	100	0	50	72	0	28	0	0.86
1260301--1260493	33	5.8	33	84	4	273	42	19	23	15	1.88
1260302--1260500	66	3.0	66	96	0	362	41	19	23	16	1.89
1260493--1260555	19	3.3	19	84	4	81	15	19	20	44	1.87
1260502--1260555	20	2.8	19	91	5	90	12	20	20	46	1.83
1260662--1260698	14	2.6	14	91	0	65	45	24	0	29	1.53
1262070--1262156	21	4.1	21	67	5	68	25	19	35	19	1.95
1264205--1264303	33	3.0	33	87	1	135	39	25	23	12	1.89
1264180--1264363	19	10.1	19	75	15	156	43	21	22	12	1.86
1264359--1264425	19	3.5	19	85	2	89	10	16	25	47	1.78
1264979--1265058	21	3.9	21	75	6	65	18	18	20	42	1.89
1264942--1265035	20	4.7	20	80	2	89	23	18	24	34	1.96
1264963--1265097	41	3.3	41	81	4	130	20	20	20	38	1.94
1265024--1265116	21	4.6	20	79	4	105	18	23	18	39	1.92
1265024--1265119	41	2.3	41	96	0	174	18	22	17	40	1.91
1286557--1286605	23	2.1	23	96	0	89	22	28	24	24	1.99
1291487--1291548	23	2.7	23	89	0	97	22	27	25	24	2.00
1291807--1291844	12	2.8	13	88	11	51	55	0	7	36	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1295430--1295476	24	2.0	23	83	4	58	55	10	4	29	1.53
1297588--1297671	31	2.7	31	73	10	82	29	29	27	13	1.94
1298725--1298763	19	2.1	19	85	0	51	25	15	30	28	1.96
1303013--1303049	19	1.9	19	94	0	65	29	10	35	24	1.89
1303035--1303071	18	2.1	18	89	0	56	13	18	43	24	1.86
1308253--1308294	21	2.0	20	86	4	57	47	14	4	33	1.65
1310720--1310880	64	2.5	62	85	7	189	34	18	21	26	1.95
1311341--1311558	103	2.1	103	97	0	418	25	12	24	37	1.91
1311576--1311626	23	2.2	23	89	0	75	21	27	23	27	1.99
1311588--1311637	23	2.2	23	85	0	64	26	24	20	30	1.98
1317739--1317899	64	2.5	63	85	7	191	34	18	21	26	1.96
1318360--1318574	103	2.1	103	98	0	412	25	13	25	35	1.93
1318589--1318645	23	2.5	23	76	0	69	24	22	21	31	1.98
1318589--1318656	23	3.0	23	70	12	59	25	19	22	33	1.97
1324373--1324414	22	1.9	22	85	0	57	30	9	21	38	1.85
1330262--1330316	22	2.5	22	75	0	56	29	9	23	38	1.85
1333529--1333559	15	2.1	15	100	0	62	29	25	6	38	1.81
1336880--1336922	19	2.3	19	84	8	52	46	0	2	51	1.13
1337414--1337457	21	2.2	19	84	8	52	54	15	11	18	1.70
1338363--1338458	31	3.1	32	80	5	117	36	21	16	25	1.94
1341563--1341611	14	3.6	14	78	15	57	81	2	0	16	0.78
1341570--1341615	4	11.8	4	80	13	51	80	2	0	17	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1341568--1341617	18	2.8	18	82	8	59	82	2	0	16	0.77
1341564--1341616	27	2.0	27	92	0	88	81	1	0	16	0.79
1341631--1341717	36	2.4	36	83	9	97	43	10	5	40	1.63
1341684--1341742	25	2.4	25	91	2	93	44	6	3	45	1.47
1341756--1341787	2	16.5	2	93	6	57	46	0	0	53	1.00
1341767--1341853	39	2.2	39	89	2	129	43	4	3	48	1.40
1341818--1341908	28	3.3	28	71	18	91	42	7	3	46	1.49
1341835--1341869	16	2.1	17	94	5	63	42	11	0	45	1.40
1341709--1341956	94	2.7	94	83	8	307	43	6	3	46	1.48
1341849--1341945	39	2.5	38	85	6	133	43	6	3	47	1.44

Tables:   1   2   3   4   5   6   7   8