genome.fa.s7888.2.7.7.80.10.50.1000.6.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: VEPZ01007888.1 Hibiscus syriacus cultivar Beakdansim tig00110270_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1558302

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 806 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)
1169158--1169211	21	2.6	21	77	13	58	29	25	20	24	1.99
1197668--1197718	20	2.5	20	93	0	84	33	19	19	27	1.96
1197893--1197945	20	2.7	20	100	0	106	35	22	16	24	1.95
1200572--1200713	42	3.5	39	76	18	137	37	22	18	21	1.94
1200696--1200892	83	2.4	82	82	7	213	37	16	17	29	1.91
1200740--1200899	41	3.9	41	83	4	198	36	14	16	31	1.89
1200696--1200901	41	5.0	41	76	12	183	35	15	16	32	1.90
1202289--1202372	42	2.0	42	88	4	125	28	10	22	38	1.88
1206301--1206545	43	5.7	43	84	3	253	35	25	17	22	1.95
1206301--1206567	85	3.1	85	84	1	302	34	26	17	21	1.95
1206346--1206574	43	5.4	42	82	6	194	33	26	17	22	1.96
1210277--1210334	3	19.3	3	78	7	55	29	0	5	65	1.14
1210277--1210332	24	2.3	23	82	8	67	28	0	5	66	1.14
1211356--1211417	2	32.5	2	74	9	58	54	0	0	45	0.99
1211361--1211429	17	4.1	17	81	9	88	55	0	0	44	0.99
1211363--1211455	32	2.8	33	76	12	93	53	0	0	46	1.00
1211370--1211437	17	3.8	17	72	14	55	54	0	0	45	0.99
1211817--1211850	12	2.8	12	90	0	50	38	26	11	23	1.89
1211812--1211852	18	2.3	18	82	0	55	41	21	9	26	1.84
1212198--1212263	21	3.4	20	70	21	68	40	13	9	36	1.76
1212193--1212280	37	2.4	37	98	1	169	43	14	7	34	1.75
1212208--1212271	21	3.3	21	68	28	68	45	12	7	34	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1214292--1214327	18	2.0	18	94	0	63	19	5	25	50	1.69
1217331--1217371	21	1.9	22	85	5	57	39	4	4	51	1.45
1224237--1224285	19	2.7	17	84	9	53	26	18	30	24	1.98
1224237--1224416	64	2.8	60	77	12	166	27	16	26	29	1.97
1224363--1224401	19	2.1	19	95	0	69	28	17	33	20	1.96
1224427--1224466	21	1.9	21	94	0	71	25	12	27	35	1.92
1227004--1227083	24	3.5	24	77	17	98	31	22	23	22	1.99
1226982--1227103	44	2.8	43	78	8	138	27	19	26	27	1.99
1232906--1233115	64	3.2	64	82	7	212	26	15	26	32	1.95
1233012--1233062	19	2.7	19	85	8	70	25	15	35	23	1.94
1233076--1233115	21	1.9	21	89	0	62	22	12	30	35	1.91
1237084--1237127	22	2.0	22	95	0	79	34	27	11	27	1.91
1237659--1237746	29	3.0	29	93	0	149	50	12	13	23	1.76
1239497--1239538	22	1.9	22	85	0	57	42	2	4	50	1.36
1241160--1241204	23	2.0	23	81	0	54	57	4	2	35	1.31
1242148--1242237	44	2.0	44	97	0	171	23	24	36	15	1.94
1242475--1242523	3	17.7	3	80	16	61	65	2	0	32	1.04
1242476--1242523	8	5.9	8	80	11	53	66	2	0	31	1.03
1242844--1243595	112	6.8	112	91	4	1226	26	20	16	36	1.93
1242844--1243595	219	3.4	219	91	3	1228	26	20	16	36	1.93
1243962--1244019	22	2.6	22	88	0	89	36	13	17	32	1.89
1245275--1245328	25	2.2	25	100	0	108	18	27	0	53	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1246742--1246963	114	1.9	114	94	0	390	31	17	16	34	1.92
1251806--1251866	14	4.3	14	81	4	68	55	6	11	26	1.59
1253003--1253093	46	1.9	49	84	10	127	28	19	14	37	1.91
1254729--1254773	23	2.0	23	81	0	54	57	4	2	35	1.31
1256013--1256058	3	15.7	3	86	13	69	65	0	0	34	0.93
1256013--1256058	19	2.4	20	92	7	78	65	0	0	34	0.93
1256013--1256058	22	2.1	22	92	8	76	65	0	0	34	0.93
1265423--1265490	22	3.1	22	91	0	100	23	8	23	44	1.81
1266514--1266624	57	1.9	57	92	3	188	25	17	13	44	1.85
1268149--1268309	82	2.0	83	81	6	193	28	14	22	33	1.94
1278181--1278257	21	3.7	21	79	6	84	42	18	33	5	1.72
1278160--1278255	21	4.6	20	75	8	68	42	18	34	4	1.70
1278696--1278904	43	4.8	44	81	5	194	28	24	19	28	1.98
1283390--1283429	20	2.0	20	85	9	55	27	2	25	45	1.66
1284348--1284386	18	2.2	18	85	0	51	33	0	5	61	1.18
1288659--1288695	19	2.0	19	89	5	58	43	8	5	43	1.57
1291306--1291353	22	2.2	22	92	0	78	8	25	12	54	1.65
1304333--1304370	18	2.1	19	85	5	51	50	7	31	10	1.66
1311607--1311658	26	2.0	26	100	0	104	42	15	19	23	1.89
1313826--1313896	37	1.9	37	88	0	106	25	18	15	40	1.89
1313753--1314331	102	5.7	102	95	0	1009	30	18	13	37	1.89
1313914--1314000	37	2.4	37	86	1	113	24	20	13	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1314030--1314102	37	2.0	37	89	5	112	26	19	13	41	1.88
1314118--1314204	37	2.4	37	86	5	115	26	19	13	40	1.89
1314219--1314303	37	2.3	36	84	4	107	23	17	15	43	1.87
1314234--1314315	37	2.2	38	91	2	130	26	18	13	41	1.87
1316887--1316946	31	1.9	31	89	0	93	33	20	13	33	1.91
1317130--1317173	16	2.8	16	96	0	79	36	0	22	40	1.54
1318130--1318167	18	2.1	19	85	5	51	50	7	31	10	1.66
1318965--1319002	19	2.1	17	90	9	58	23	5	0	71	1.07
1318968--1319009	21	2.0	22	95	4	77	23	4	0	71	1.05
1319109--1319137	12	2.3	13	94	5	51	27	0	3	68	1.05
1325550--1325681	64	2.0	65	94	1	230	24	17	15	43	1.87
1325711--1325749	18	2.2	18	100	0	78	17	28	38	15	1.91
1332575--1332600	2	13.0	2	100	0	52	50	0	0	50	1.00
1334790--1334845	3	18.3	3	92	3	94	30	0	33	35	1.58
1337511--1337562	17	3.2	17	75	10	54	32	3	13	50	1.60
1338540--1338574	16	2.1	17	89	5	54	34	0	22	42	1.54
1339322--1339353	15	2.1	15	94	0	55	53	15	25	6	1.65
1348309--1348357	21	2.3	22	85	3	64	65	0	2	32	1.04
1349756--1349785	14	2.1	14	93	0	51	43	0	6	50	1.28
1350439--1350468	3	10.0	3	92	0	51	33	3	0	63	1.11
1350599--1350842	135	1.8	134	81	7	305	37	6	9	46	1.62
1351333--1351393	28	2.3	27	85	5	79	31	6	0	62	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1351347--1351415	26	2.7	26	82	8	70	27	4	1	66	1.19
1351343--1351404	28	2.2	28	80	8	74	30	4	1	62	1.25
1355832--1355879	8	5.8	8	82	7	60	72	0	20	6	1.05
1358582--1358625	23	2.0	23	81	4	54	50	11	2	36	1.51
1367752--1367821	18	3.7	18	78	14	77	20	22	31	25	1.98
1372618--1372687	18	3.7	18	76	14	77	20	22	31	25	1.98
1375762--1375937	75	2.3	75	89	0	253	34	14	19	31	1.92
1377649--1377999	45	7.8	45	96	1	648	23	24	19	32	1.97
1377649--1377999	91	3.9	91	97	0	652	23	24	19	32	1.97
1378125--1378203	3	26.0	3	87	7	115	32	2	0	64	1.07
1380034--1380096	24	2.6	24	92	0	99	39	4	9	46	1.58
1380052--1380104	24	2.2	24	86	3	70	49	3	9	37	1.53
1380489--1380525	16	2.2	18	85	9	51	48	10	0	40	1.38
1380636--1380684	23	2.1	23	84	0	62	14	10	18	57	1.65
1388552--1388623	37	1.9	37	86	5	101	38	18	6	36	1.77
1413699--1413742	2	23.0	2	90	9	74	50	0	0	50	1.00
1415243--1415335	21	4.6	20	77	4	87	39	18	23	18	1.92
1415260--1415335	21	3.7	21	80	3	100	40	18	25	15	1.90
1415243--1415335	41	2.3	41	98	0	177	39	18	23	18	1.92
1415262--1415396	41	3.3	41	83	4	139	37	21	21	20	1.95
1415366--1415418	20	2.7	20	93	0	88	22	28	20	28	1.99
1415918--1415997	18	4.5	18	77	17	87	47	23	17	11	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1415993--1416176	19	10.1	19	77	15	174	11	22	22	43	1.85
1416064--1416151	33	2.6	33	92	1	140	11	25	25	38	1.89
1416119--1416176	20	2.9	20	80	10	64	13	24	18	43	1.87
1418167--1418289	42	2.9	42	80	2	122	22	36	17	22	1.95
1418223--1418289	21	3.2	21	66	6	55	23	35	20	19	1.95
1419611--1419646	14	2.6	14	95	0	63	30	0	25	44	1.54
1419783--1419821	18	2.2	18	95	0	69	48	20	15	15	1.81
1419818--1419950	65	2.0	67	92	2	225	17	22	18	41	1.90
1419825--1419951	34	3.8	33	83	7	177	15	22	18	42	1.89
1422214--1422238	12	2.1	12	100	0	50	0	28	0	72	0.86

Tables:   1   2   3   4   5   6   7