genome.fa.s8017.2.7.7.80.10.50.1000.6.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: VEPZ01008017.1 Hibiscus syriacus cultivar Beakdansim tig00110483_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3132588

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  6  of  15  ( 1748 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)
1139579--1139622	22	2.0	23	86	4	63	54	0	0	45	0.99
1139583--1139639	21	2.6	22	81	10	64	52	0	0	47	1.00
1139828--1139947	42	2.9	42	87	1	170	47	18	17	16	1.83
1143644--1143794	18	8.6	18	76	11	134	28	19	10	41	1.84
1143650--1143794	35	4.1	35	83	9	152	28	17	11	42	1.83
1143650--1143766	53	2.2	54	89	3	175	29	17	11	41	1.85
1149005--1149094	18	5.2	17	75	10	85	30	24	10	35	1.88
1149009--1149097	35	2.5	35	88	1	124	30	21	10	38	1.86
1150014--1150050	19	1.9	19	94	0	65	32	29	16	21	1.95
1150016--1150226	41	5.1	42	79	7	125	31	25	18	24	1.97
1150076--1150255	41	4.3	42	84	4	204	33	24	17	23	1.96
1150076--1150188	20	5.6	20	72	8	84	30	24	19	24	1.98
1150407--1150448	6	7.0	6	100	0	84	33	50	16	0	1.46
1150747--1150855	19	5.4	19	73	13	74	33	26	4	35	1.77
1150864--1150917	21	2.6	21	79	2	56	24	18	24	33	1.97
1151736--1151840	34	3.1	34	81	10	142	17	8	13	60	1.56
1151951--1152009	20	3.2	19	70	22	54	20	10	13	55	1.66
1151942--1152010	35	2.0	35	88	0	102	17	8	11	62	1.53
1152594--1152653	27	2.2	27	84	0	84	31	33	16	18	1.93
1152787--1152867	28	2.9	28	83	5	92	49	0	2	48	1.14
1152810--1152867	15	4.0	15	86	8	84	51	0	0	48	1.00
1152838--1152922	33	2.4	34	86	9	118	42	0	8	49	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1152899--1152941	22	2.0	22	100	0	86	34	0	13	51	1.42
1152925--1153027	32	3.6	30	74	25	114	36	0	11	51	1.39
1152855--1153759	54	16.8	54	68	19	407	34	0	12	52	1.41
1152958--1153606	80	8.0	79	82	9	383	33	0	12	53	1.42
1153064--1153116	14	3.5	14	72	18	52	35	0	7	56	1.28
1153054--1153139	32	2.7	31	90	3	136	34	0	12	52	1.40
1153092--1153397	80	3.8	80	95	0	540	33	0	12	53	1.38
1153092--1153397	161	1.9	160	95	0	549	33	0	12	53	1.38
1153333--1153434	32	3.5	31	72	25	105	36	0	8	54	1.31
1153360--1153402	22	2.0	22	95	0	77	37	0	11	51	1.39
1153089--1153744	295	2.2	290	87	5	946	34	0	12	53	1.41
1153333--1153759	133	3.2	133	87	5	546	35	0	11	52	1.41
1153171--1153744	213	2.7	214	92	0	970	34	0	12	53	1.41
1153707--1153749	22	2.0	22	100	0	86	34	0	13	51	1.42
1153774--1153832	31	1.9	31	92	0	100	42	10	6	40	1.65
1154256--1154321	22	3.0	22	78	10	73	7	16	21	54	1.66
1154256--1154315	21	2.8	20	80	9	66	8	16	20	55	1.67
1154989--1155020	8	3.9	8	95	4	55	12	0	3	84	0.74
1154994--1155027	16	2.1	16	88	0	50	14	2	0	82	0.79
1158909--1159140	119	2.0	118	88	2	349	43	17	10	28	1.82
1163690--1163776	35	2.5	34	80	12	97	55	10	8	26	1.61
1163990--1164040	15	3.4	15	86	0	66	15	35	17	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1163994--1164029	12	3.0	12	100	0	72	16	33	16	33	1.92
1166097--1166142	18	2.6	17	86	10	65	60	2	4	32	1.28
1166469--1166547	29	2.7	30	90	7	119	39	11	20	29	1.87
1166876--1166921	20	2.3	20	81	7	58	80	0	0	19	0.71
1169208--1169552	169	2.0	172	95	4	626	36	12	17	32	1.88
1170221--1170268	25	1.9	25	83	8	62	41	4	35	18	1.70
1176637--1176745	38	2.9	38	80	2	123	33	19	10	36	1.85
1176911--1176998	32	3.0	28	80	14	81	28	21	11	38	1.88
1177050--1177122	30	2.4	30	77	8	78	30	20	12	36	1.89
1176844--1177155	126	2.5	127	81	8	388	25	20	14	39	1.90
1176844--1177191	126	2.8	126	79	10	374	27	18	14	39	1.90
1177088--1177261	67	2.6	67	79	9	192	32	14	13	39	1.85
1177382--1177801	131	3.2	130	83	4	481	25	29	17	26	1.98
1177382--1177917	131	4.1	129	80	5	429	26	29	17	26	1.98
1178595--1178652	24	2.4	24	77	8	64	46	5	31	17	1.70
1180193--1180229	5	7.2	5	96	3	65	18	2	0	78	0.87
1183088--1183185	45	2.2	45	89	7	146	23	37	14	24	1.92
1183846--1183981	63	2.1	64	81	4	150	31	11	5	51	1.60
1184230--1184254	11	2.3	11	100	0	50	32	0	0	68	0.90
1184244--1184548	159	1.9	158	79	7	341	38	5	8	47	1.56
1187867--1188003	72	1.9	72	90	3	222	28	21	18	31	1.97
1189601--1189634	17	2.0	18	88	11	54	47	2	29	20	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1189798--1190013	54	4.0	54	85	4	292	36	12	24	26	1.92
1189798--1190008	109	1.9	108	88	2	316	36	12	24	26	1.92
1191104--1191364	73	3.6	73	90	0	423	32	15	12	39	1.85
1191400--1191668	39	6.9	39	84	3	335	42	11	23	21	1.86
1191369--1191668	78	3.8	77	86	4	397	42	11	23	23	1.85
1191369--1191668	117	2.6	117	83	6	365	42	11	23	23	1.85
1191965--1192062	45	2.2	45	85	3	126	24	38	13	23	1.90
1192714--1192850	63	2.2	64	85	6	181	32	10	2	54	1.49
1196538--1196589	3	17.7	3	84	7	63	67	0	0	32	0.91
1196538--1196589	16	3.3	16	86	2	70	67	0	0	32	0.91
1199888--1199920	17	1.9	17	93	0	57	27	0	3	69	1.03
1204568--1204592	13	1.9	13	100	0	50	0	8	0	92	0.40
1211253--1211298	19	2.4	19	92	0	74	39	6	17	36	1.76
1211262--1211300	19	2.1	19	100	0	78	30	10	20	38	1.86
1212990--1213020	9	3.4	9	95	0	53	0	9	3	87	0.66
1237314--1237341	14	2.0	14	100	0	56	42	7	14	35	1.73
1239187--1239238	19	2.9	17	77	16	52	69	0	5	25	1.10
1239858--1240228	188	2.0	181	95	4	663	30	21	14	32	1.93
1240845--1241191	170	2.0	170	88	4	511	23	15	26	34	1.94
1241071--1241602	105	5.1	105	95	0	893	23	18	25	32	1.97
1240809--1241296	275	1.8	265	88	5	753	23	16	26	34	1.95
1253067--1253110	2	22.0	2	100	0	88	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1253146--1253197	19	2.9	17	77	16	52	69	0	5	25	1.10
1254658--1255414	105	7.2	105	91	0	1127	24	18	24	32	1.97
1254546--1255414	315	2.8	313	87	3	1195	24	18	24	32	1.97
1256332--1257088	105	7.2	105	90	0	1138	24	17	24	33	1.96
1256219--1257088	315	2.8	312	87	3	1211	24	17	24	33	1.96
1258006--1258972	105	9.2	105	91	0	1423	24	17	24	33	1.97
1257893--1258972	315	3.5	315	88	2	1502	24	18	24	33	1.97
1259890--1260646	105	7.2	105	90	0	1145	24	17	24	33	1.96
1259777--1260646	315	2.8	312	87	3	1211	24	17	24	33	1.97
1261564--1262422	105	8.2	105	91	1	1312	23	18	24	33	1.97
1261451--1262422	417	2.3	417	88	4	1405	23	18	24	32	1.97
1274448--1274478	11	2.8	11	100	0	62	16	19	6	58	1.59
1275408--1275488	28	3.1	27	63	17	62	32	6	1	60	1.29
1275581--1275630	18	2.7	20	76	14	54	44	2	0	54	1.11
1275710--1275834	32	3.9	32	82	0	142	11	12	29	47	1.75
1275738--1275834	16	6.1	16	75	0	86	9	13	29	47	1.74
1279115--1279518	199	2.0	202	97	2	769	33	17	20	28	1.95
1281734--1281785	18	2.9	18	91	0	77	21	21	32	25	1.98
1282777--1282814	13	2.6	16	88	12	55	63	2	7	26	1.35
1282898--1282937	19	2.2	18	90	4	62	37	2	5	55	1.35
1283492--1283548	22	2.6	22	77	5	62	33	0	1	64	1.04
1285230--1285286	22	2.6	22	77	5	62	33	0	1	64	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1289170--1289281	42	2.7	43	81	4	147	18	16	25	39	1.91
1289730--1289778	21	2.3	21	82	6	64	4	34	20	40	1.71
1296052--1296090	7	5.6	7	85	11	53	30	0	10	58	1.31
1297283--1297353	34	2.1	34	97	0	133	35	12	18	33	1.89
1304052--1304123	34	2.1	34	97	0	135	41	13	22	22	1.89
1307310--1307339	15	2.1	15	93	6	53	66	26	0	6	1.16
1318610--1318671	31	2.0	31	96	0	115	9	17	29	43	1.81
1327489--1327528	21	1.9	21	84	0	53	42	5	15	37	1.68
1336496--1336574	37	2.1	37	97	0	149	31	18	25	24	1.98
1337763--1337832	36	1.9	37	91	2	115	15	20	14	50	1.78

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15