genome.fa.s8105.2.7.7.80.10.50.1000.7.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: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5962497

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   

This is table  7  of  30  ( 3521 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)
1150635--1150692	30	1.9	30	89	0	89	24	12	17	46	1.81
1151214--1151254	14	3.0	13	86	10	55	24	0	26	48	1.51
1151222--1151254	13	2.4	14	90	5	50	24	0	30	45	1.53
1152268--1152477	34	6.2	34	70	15	123	49	3	4	42	1.40
1152268--1152537	69	4.0	68	79	4	251	48	5	5	40	1.48
1152268--1152537	139	2.0	134	83	5	344	48	5	5	40	1.48
1156460--1156649	100	1.9	100	96	0	353	30	16	10	43	1.81
1158014--1158215	34	5.9	34	72	14	148	52	4	2	40	1.36
1158013--1158218	70	2.9	69	80	11	240	52	5	2	39	1.37
1164736--1165094	190	1.9	190	90	2	578	29	23	22	24	1.99
1167833--1167900	21	3.2	21	97	0	127	29	25	23	22	1.99
1167915--1167978	21	3.0	21	93	0	110	18	20	31	29	1.96
1168215--1168281	21	3.3	21	72	8	75	32	28	17	20	1.96
1168194--1168263	19	3.5	19	71	11	59	38	21	20	20	1.94
1168191--1168281	40	2.2	42	92	3	150	36	24	17	21	1.95
1168296--1168349	21	2.6	21	90	0	81	22	22	25	29	1.99
1168499--1168588	28	3.1	28	82	4	99	41	7	10	41	1.67
1168672--1168750	28	2.7	29	76	9	72	36	11	10	41	1.75
1170193--1170297	31	3.4	30	73	10	88	43	11	9	35	1.73
1173443--1173485	21	2.0	21	86	0	59	23	25	13	37	1.92
1174874--1174944	22	3.2	21	72	14	54	52	1	1	45	1.18
1174870--1174998	54	2.3	57	76	15	135	51	0	1	45	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1178024--1178067	18	2.4	18	96	0	79	34	4	22	38	1.75
1178624--1178686	27	2.3	27	97	0	117	38	9	15	36	1.81
1178684--1178730	22	2.1	22	88	0	67	51	2	14	31	1.55
1179082--1179150	31	2.2	32	84	2	86	27	13	14	44	1.82
1181601--1181648	21	2.3	21	92	0	78	12	60	2	25	1.43
1181703--1181797	30	3.2	30	71	5	93	16	56	7	18	1.63
1181696--1181831	60	2.3	60	94	0	236	16	54	7	22	1.66
1181721--1181827	30	3.6	29	73	5	106	13	56	7	23	1.62
1181817--1182184	147	2.5	145	80	5	330	16	54	8	21	1.68
1181972--1182085	60	1.9	60	90	0	183	14	54	7	23	1.66
1181979--1182082	30	3.5	30	67	5	84	13	53	7	25	1.65
1182072--1182230	15	10.8	15	68	14	89	19	55	6	18	1.63
1182005--1182176	87	2.0	87	84	0	227	16	55	6	20	1.63
1182063--1182230	30	5.7	30	75	8	112	18	56	6	18	1.62
1182043--1182176	45	3.0	44	74	10	139	17	55	5	20	1.62
1181856--1182199	147	2.3	146	83	4	417	15	54	8	21	1.67
1183927--1183990	4	16.5	4	80	6	69	17	0	32	50	1.46
1183927--1183990	12	5.5	12	79	7	78	17	0	32	50	1.46
1183932--1183988	14	4.1	14	83	0	78	14	0	35	50	1.42
1184314--1184387	24	3.1	24	74	1	78	25	13	16	44	1.84
1184389--1184431	22	2.0	22	95	4	79	13	13	23	48	1.79
1185591--1185632	4	10.5	4	89	0	66	54	21	0	23	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1185593--1185632	16	2.5	16	100	0	80	55	20	0	25	1.44
1186784--1186897	60	1.9	60	87	3	167	31	14	20	33	1.93
1188936--1188973	3	12.7	3	94	0	67	34	2	0	63	1.09
1198117--1198244	60	2.1	60	78	2	132	35	17	17	28	1.93
1201448--1201475	14	2.0	14	100	0	56	0	21	0	78	0.75
1213295--1213352	29	2.0	29	93	0	98	51	24	8	15	1.71
1214325--1214404	35	2.3	35	86	4	117	31	12	6	50	1.65
1215285--1215314	12	2.5	12	100	0	60	0	0	60	40	0.97
1216437--1216493	21	2.7	21	83	0	78	17	10	22	49	1.77
1216985--1217316	42	7.8	41	89	6	468	32	24	24	18	1.97
1216985--1217316	84	3.9	84	94	3	542	32	24	24	18	1.97
1218244--1218316	29	2.5	29	77	2	74	41	19	8	31	1.81
1218270--1218340	29	2.4	29	88	0	97	39	25	5	29	1.78
1224208--1224539	42	7.8	41	88	6	459	32	24	24	18	1.97
1224208--1224539	84	3.9	84	92	3	524	32	24	24	18	1.97
1225477--1225632	29	5.3	29	75	3	143	42	21	6	30	1.77
1225585--1225649	29	2.2	29	81	5	78	46	23	6	24	1.75
1225492--1225661	89	1.9	89	86	0	241	44	20	6	28	1.76
1228985--1229036	25	2.1	25	100	0	104	44	5	19	30	1.74
1234958--1235009	20	2.5	21	96	3	97	19	34	26	19	1.95
1240715--1240774	21	2.8	22	77	10	70	25	35	25	15	1.94
1242244--1242283	18	2.2	18	91	8	64	45	22	32	0	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1242810--1242847	2	19.0	2	100	0	76	50	0	0	50	1.00
1243106--1243140	13	2.7	13	100	0	70	42	14	8	34	1.76
1246083--1246141	29	2.0	31	93	6	104	40	5	3	50	1.41
1246718--1246779	32	1.9	32	96	0	115	25	17	6	50	1.70
1248488--1248531	20	2.2	20	91	0	70	11	29	34	25	1.91
1256402--1256472	31	2.3	31	87	0	106	16	12	26	43	1.84
1256447--1256522	28	2.9	25	71	17	73	21	9	25	44	1.81
1256465--1256522	28	2.1	28	86	0	80	18	8	24	48	1.76
1256835--1256893	28	2.1	29	84	9	77	47	13	16	22	1.82
1256977--1257022	12	3.6	12	81	16	56	45	17	19	17	1.85
1256983--1257023	12	3.1	13	80	19	57	46	14	17	21	1.84
1259300--1259339	21	1.9	21	94	0	71	30	15	7	47	1.72
1259334--1259432	33	3.0	33	92	1	155	32	8	15	44	1.75
1259418--1259472	13	4.2	13	75	13	58	34	3	12	49	1.59
1259668--1259716	21	2.3	21	89	0	71	24	24	24	26	2.00
1259680--1259720	21	2.0	21	100	0	82	19	24	24	31	1.98
1259910--1259943	18	1.9	18	94	5	61	38	11	8	41	1.73
1259890--1259946	15	3.6	15	73	19	53	31	12	10	45	1.76
1260037--1260076	16	2.5	16	95	0	71	50	20	20	10	1.76
1261316--1261388	19	3.7	19	74	13	76	24	36	12	26	1.91
1261337--1261408	20	3.6	20	74	7	83	27	34	13	23	1.93
1261318--1261409	40	2.3	39	90	3	157	26	36	13	23	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1262223--1262408	96	2.0	94	89	2	282	40	10	24	24	1.86
1272154--1272186	6	5.5	6	100	0	66	18	0	30	51	1.46
1274927--1274951	13	1.9	13	100	0	50	60	8	0	32	1.26
1279762--1279997	120	2.0	119	89	4	368	36	16	14	32	1.89
1285577--1285681	30	3.5	30	73	7	88	22	18	20	38	1.94
1286881--1286955	37	2.0	37	82	10	91	49	4	1	45	1.29
1291505--1291529	5	5.0	5	100	0	50	40	0	0	60	0.97
1294907--1295045	69	2.0	69	98	0	269	30	22	10	36	1.87
1296315--1296353	17	2.4	17	95	4	71	51	5	0	43	1.24
1296283--1296357	34	2.2	33	83	9	87	52	4	0	44	1.20
1299775--1300845	394	2.7	393	90	2	1660	28	14	19	37	1.91
1300658--1301219	274	2.0	274	85	2	743	25	15	20	38	1.91
1304351--1304376	2	13.0	2	100	0	52	50	0	0	50	1.00
1307072--1307129	28	2.0	29	86	3	82	32	18	18	29	1.96
1311065--1311098	17	2.0	17	88	0	50	26	5	5	61	1.42
1311366--1311480	59	1.9	59	83	1	149	41	14	9	33	1.79
1313028--1313291	63	4.2	63	99	0	519	40	12	12	34	1.81
1313236--1313369	41	3.2	41	97	1	250	41	11	15	31	1.84
1314726--1314759	17	2.0	17	88	0	50	26	5	5	61	1.42
1316689--1316826	63	2.2	63	98	0	267	41	13	12	33	1.81
1316771--1316865	41	2.3	41	96	1	172	41	11	15	31	1.83
1321488--1321514	9	3.0	9	100	0	54	11	22	11	55	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1322161--1322484	63	5.2	63	75	18	336	41	12	13	32	1.82
1322243--1322421	41	4.3	41	96	0	331	41	11	15	31	1.82
1322285--1322590	145	2.1	146	94	2	537	42	12	14	31	1.82
1322429--1322564	41	3.3	41	97	1	254	41	11	15	31	1.83
1322180--1322564	186	2.1	186	97	0	734	41	11	14	31	1.82
1322328--1322525	104	1.9	104	98	0	387	41	12	14	32	1.82
1323099--1323169	2	35.5	2	100	0	142	50	0	0	49	1.00
1326119--1326158	20	2.0	21	85	5	55	35	0	0	65	0.93
1326129--1326170	16	2.5	17	84	3	50	33	0	2	64	1.07
1328606--1328647	13	2.9	15	86	13	54	54	7	2	35	1.41

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30