genome.fa.s8413.2.7.7.80.10.50.1000.4.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: VEPZ01008413.1 Hibiscus syriacus cultivar Beakdansim tig00111191_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2772818

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  4  of  10  ( 1103 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)
1007782--1007883	36	2.9	36	94	1	170	32	36	4	26	1.78
1007783--1007899	36	3.4	34	85	11	130	30	36	3	29	1.74
1007783--1007922	36	4.1	33	84	9	88	30	36	2	30	1.72
1009947--1009999	17	3.1	17	86	0	70	35	15	7	41	1.75
1015766--1015799	11	3.1	11	91	0	50	73	5	8	11	1.24
1049464--1049508	19	2.4	19	82	17	58	71	0	15	13	1.15
1049618--1049675	30	1.9	30	82	6	73	8	18	5	67	1.37
1049704--1049748	13	3.3	13	93	6	72	0	15	0	84	0.62
1054297--1054332	13	2.6	15	87	12	51	0	11	0	88	0.50
1059179--1059224	23	2.0	22	88	12	67	0	4	13	82	0.81
1063714--1063755	22	1.9	22	90	0	66	19	0	40	40	1.51
1081997--1082169	90	1.9	89	92	1	292	44	5	10	39	1.63
1093597--1093645	23	2.1	23	100	0	98	36	16	12	34	1.86
1096848--1096899	21	2.6	19	88	8	77	48	7	11	32	1.68
1101103--1101475	187	2.0	186	98	1	721	27	25	9	37	1.87
1102343--1102460	41	2.8	41	94	2	200	35	8	23	32	1.85
1106950--1106979	9	3.2	9	95	4	51	76	0	23	0	0.78
1106942--1106980	15	2.4	17	83	16	55	76	2	20	0	0.90
1107990--1108038	15	3.2	15	85	2	62	55	14	16	14	1.70
1137761--1137840	27	3.1	27	63	17	62	23	10	6	60	1.52
1141281--1141331	16	3.1	16	77	5	57	21	19	35	23	1.96
1141601--1141639	19	2.1	19	95	0	69	33	5	17	43	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1144749--1144801	18	2.9	18	88	0	88	20	13	33	32	1.91
1145070--1145108	19	2.1	19	95	0	69	33	5	17	43	1.72
1154576--1154630	5	10.8	5	74	18	51	18	1	5	74	1.10
1155734--1155793	30	2.0	29	83	3	75	26	15	1	56	1.48
1158129--1158169	14	2.9	15	78	10	50	29	26	7	36	1.83
1159746--1159858	9	12.2	9	75	11	95	79	0	16	3	0.86
1159775--1159850	26	3.0	26	84	9	102	82	0	15	1	0.73
1161005--1161234	112	2.1	112	94	0	415	33	20	23	23	1.97
1162058--1162278	88	2.5	88	82	5	259	22	18	19	39	1.92
1162058--1162278	45	5.0	45	76	4	200	22	18	19	39	1.92
1162959--1163766	134	6.1	134	80	6	812	30	19	18	32	1.95
1162989--1163766	267	3.0	262	78	9	764	30	19	18	31	1.96
1167349--1168969	806	2.0	809	99	0	3212	31	14	21	33	1.93
1173518--1173584	25	2.6	25	72	11	64	13	8	17	59	1.59
1174588--1175301	357	2.0	357	96	0	1320	29	10	19	40	1.85
1182009--1182056	19	2.4	19	79	10	51	39	8	18	33	1.81
1194024--1194537	254	2.0	254	92	0	857	28	17	20	33	1.95
1197714--1197772	17	3.5	17	68	13	50	30	13	8	47	1.73
1197703--1197768	33	2.0	33	81	0	78	33	10	12	43	1.76
1197763--1197808	18	2.6	18	92	0	74	32	6	13	47	1.68
1198825--1199400	291	2.0	291	95	0	1035	25	27	9	37	1.86
1199881--1199932	24	2.1	25	85	3	70	11	11	15	61	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1204833--1204864	2	16.0	2	100	0	64	50	0	0	50	1.00
1205090--1205245	85	1.8	85	82	8	201	30	18	21	30	1.97
1211417--1211449	11	2.8	12	86	9	50	33	39	0	27	1.57
1212704--1212889	46	4.1	46	92	0	293	32	20	6	40	1.78
1213994--1214053	31	1.9	32	83	10	79	35	25	6	33	1.82
1217479--1217590	9	12.6	9	74	17	67	4	15	0	79	0.94
1217485--1217562	6	12.3	6	80	14	86	2	16	1	79	0.91
1217488--1217590	19	5.6	17	76	16	91	4	14	0	79	0.94
1217476--1217603	29	4.3	29	80	12	127	6	13	0	79	0.95
1217477--1217601	32	4.2	29	80	17	107	5	13	0	80	0.94
1217551--1217602	20	2.8	18	83	11	68	11	7	0	80	0.89
1217551--1217602	9	5.6	9	84	8	68	11	7	0	80	0.89
1217549--1217612	29	2.2	29	77	5	67	12	10	1	75	1.13
1218738--1218762	13	1.9	13	100	0	50	16	4	0	80	0.87
1219341--1219393	16	3.2	18	65	29	53	20	13	16	49	1.79
1219331--1219393	32	2.0	32	96	0	117	20	12	17	49	1.79
1222903--1222941	16	2.4	16	95	4	69	28	7	17	46	1.76
1225166--1225242	31	2.4	32	76	8	86	27	28	27	16	1.97
1228095--1228134	17	2.3	18	91	4	64	15	20	45	20	1.86
1235076--1235128	18	2.9	19	81	10	67	22	22	26	28	1.99
1237662--1237719	24	2.4	24	97	0	107	43	3	10	43	1.55
1248556--1248624	30	2.3	31	84	5	95	30	37	7	24	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1249298--1249343	22	2.2	20	84	7	56	32	15	23	28	1.95
1249768--1250402	59	10.8	59	93	0	968	33	13	21	31	1.92
1250679--1250808	68	1.9	68	85	0	179	33	13	23	30	1.92
1252736--1253347	59	10.4	59	93	0	1019	32	15	18	33	1.92
1254222--1254270	24	2.0	24	84	4	62	57	16	10	16	1.65
1254584--1254638	22	2.4	23	93	6	103	50	14	21	12	1.76
1255123--1255166	14	3.1	14	83	6	54	56	2	2	38	1.24
1257510--1257641	59	2.2	60	86	1	185	34	18	19	26	1.95
1265063--1265096	13	2.6	13	95	0	59	23	20	23	32	1.98
1274183--1274232	20	2.5	20	90	6	75	32	20	28	20	1.97
1274256--1274309	22	2.6	21	77	8	58	31	16	20	31	1.95
1274735--1274831	43	2.3	43	81	3	106	37	21	20	20	1.95
1278340--1278853	41	12.5	41	81	4	509	33	16	19	30	1.94
1278340--1278853	83	6.3	82	80	4	534	33	16	19	30	1.94
1278956--1279201	54	4.6	54	90	0	384	28	19	19	32	1.96
1284665--1284704	20	2.0	20	100	0	80	45	5	25	25	1.73
1287136--1287330	103	1.9	103	88	2	293	26	17	25	30	1.97
1304545--1304588	21	2.0	22	91	4	72	36	6	9	47	1.62
1307625--1307664	14	2.9	14	88	0	53	37	27	10	25	1.88
1314195--1314280	15	5.8	15	69	17	63	43	4	5	46	1.48
1315290--1315318	2	15.0	2	92	7	51	48	0	0	51	1.00
1320263--1320295	17	2.1	16	88	11	50	24	12	0	63	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1320437--1320639	36	5.5	37	72	11	121	44	3	6	45	1.47
1320401--1320741	38	9.1	36	73	17	184	43	4	7	44	1.52
1320391--1320692	74	4.0	73	78	12	265	42	4	8	44	1.54
1320636--1320718	41	2.0	40	86	6	114	48	4	8	38	1.55
1320527--1320729	39	5.4	38	79	11	161	43	4	8	42	1.57
1322132--1322160	15	1.9	15	100	0	58	6	6	10	75	1.17
1326209--1326931	84	8.7	84	79	4	712	31	24	20	23	1.98
1326209--1326994	165	4.7	163	78	7	675	31	24	19	23	1.98
1326249--1326938	249	2.8	245	84	3	810	31	25	20	23	1.98
1326209--1326995	333	2.4	331	79	5	791	31	24	20	23	1.98
1327493--1327527	13	2.7	13	86	0	52	40	2	2	54	1.30
1327647--1327671	12	2.1	12	100	0	50	40	8	8	44	1.63
1327555--1327765	75	2.8	74	81	10	216	45	4	6	44	1.49
1327555--1327829	37	7.4	36	73	19	199	45	4	6	44	1.48
1327555--1327829	74	3.7	72	80	11	220	45	4	6	44	1.48
1327815--1327860	9	5.3	9	84	10	53	39	2	0	58	1.10
1327835--1327867	3	11.3	3	93	6	59	33	0	0	66	0.92
1334102--1334163	25	2.5	25	74	10	65	43	1	0	54	1.09
1348584--1348623	3	13.0	3	94	5	71	67	0	0	32	0.91
1348878--1349040	75	2.2	75	87	2	238	38	15	14	31	1.88
1350614--1350645	15	2.1	15	94	0	55	46	6	9	37	1.61
1353532--1353707	46	3.8	46	93	0	289	22	21	10	46	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1353695--1354087	46	8.6	46	91	1	601	21	21	10	47	1.80
1353649--1354087	92	4.8	88	86	5	461	20	21	10	47	1.80
1353649--1354073	138	3.1	135	79	10	457	20	21	10	47	1.80
1353518--1353872	164	2.2	164	90	1	559	21	20	10	46	1.81
1357956--1358042	31	2.8	32	79	10	99	25	27	27	19	1.99
1361403--1361562	51	3.2	50	78	2	153	43	16	22	16	1.87
1367805--1367876	35	2.1	35	94	0	126	38	12	9	38	1.76
1369007--1369159	77	2.0	79	87	5	222	44	8	4	42	1.55
1376278--1376321	20	2.2	20	84	8	54	40	22	22	13	1.89
1381593--1381618	2	13.0	2	100	0	52	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8   9   10