genome.fa.s8661.2.7.7.80.10.50.1000.5.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: VEPZ01008661.1 Hibiscus syriacus cultivar Beakdansim tig00111659_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1762280

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 822 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)
1015437--1015466	4	7.2	4	92	7	51	3	0	23	73	0.98
1015435--1015466	12	2.5	13	90	10	57	6	0	21	71	1.07
1017649--1018270	4	156.8	4	98	1	1209	25	0	49	25	1.50
1021890--1021922	10	3.2	10	95	4	57	57	18	9	15	1.63
1026132--1026179	22	2.1	23	85	11	64	56	2	0	41	1.11
1026583--1026702	40	2.9	42	77	7	136	23	18	34	24	1.96
1026437--1026705	129	2.1	129	77	4	283	28	18	28	24	1.98
1026770--1026893	33	3.8	33	73	11	103	35	13	19	31	1.91
1027007--1027093	33	2.7	33	89	1	122	43	12	13	29	1.81
1028431--1028617	99	1.9	99	87	2	277	30	17	17	34	1.93
1033201--1033278	32	2.4	32	84	0	102	57	7	14	20	1.61
1037083--1037130	22	2.1	23	85	11	64	56	2	0	41	1.11
1040231--1040265	17	2.0	18	88	5	54	54	20	11	14	1.70
1040893--1040962	36	1.9	37	82	2	88	35	11	14	38	1.82
1046008--1046032	12	2.1	12	100	0	50	24	36	0	40	1.55
1050362--1050425	3	20.7	3	73	17	51	39	0	0	60	0.97
1050353--1050421	12	6.5	11	82	11	65	39	0	0	60	0.97
1050388--1050421	9	3.8	9	96	0	59	35	0	0	64	0.94
1063178--1063285	12	8.7	12	80	15	114	86	0	13	0	0.58
1063178--1063284	10	10.2	10	81	12	126	85	0	14	0	0.58
1063184--1063285	7	14.7	7	84	11	115	86	0	13	0	0.58
1063181--1063285	43	2.5	40	85	11	142	86	0	13	0	0.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1063178--1063284	37	2.9	39	83	12	136	85	0	14	0	0.58
1063181--1063285	1	105.0	1	73	0	84	86	0	13	0	0.57
1064643--1064864	83	2.7	83	92	0	372	26	12	22	39	1.89
1065719--1065984	112	2.4	111	87	4	383	36	15	19	28	1.92
1066189--1066424	124	1.9	122	82	4	296	41	16	19	23	1.90
1066574--1066632	9	6.9	9	79	11	70	38	0	0	61	0.96
1066566--1066634	21	3.3	21	80	9	79	39	0	0	60	0.97
1066566--1066614	12	4.2	12	84	2	64	38	0	0	61	0.96
1066575--1066636	12	5.7	12	83	11	64	38	0	0	61	0.96
1066574--1066635	33	2.0	33	90	9	103	38	0	0	61	0.96
1069225--1069290	33	2.0	33	100	0	132	27	18	15	39	1.90
1071837--1071941	52	2.0	51	98	1	201	33	18	28	20	1.96
1084838--1084948	40	2.8	40	87	2	161	33	25	17	24	1.96
1084838--1084963	40	3.2	39	82	4	153	32	25	16	25	1.96
1086794--1086876	30	2.8	30	83	5	89	33	15	7	43	1.74
1090892--1090923	16	2.0	16	93	0	55	53	0	0	46	1.00
1091757--1091802	13	3.5	13	85	5	65	60	0	0	39	0.97
1093196--1093292	51	1.9	51	93	0	167	38	9	15	37	1.80
1103603--1103665	31	2.0	31	93	0	108	26	12	12	47	1.78
1105297--1105359	27	2.3	27	94	0	108	20	9	36	33	1.85
1110573--1110645	36	2.0	36	97	0	137	38	19	23	19	1.93
1115927--1115970	20	2.1	21	83	4	54	59	2	9	29	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1120936--1121015	42	1.9	42	100	0	160	22	12	23	41	1.88
1130450--1130491	21	2.0	21	95	0	75	26	28	21	23	1.99
1130597--1130643	19	2.5	19	92	0	76	38	12	8	40	1.74
1136397--1136580	31	5.8	32	77	6	137	33	20	17	29	1.95
1136759--1136851	5	19.2	5	85	14	133	40	19	0	39	1.52
1140880--1141015	39	3.5	38	78	9	116	21	22	23	32	1.98
1143557--1143583	3	9.0	3	100	0	54	33	0	0	66	0.92
1144041--1144152	39	2.9	39	72	10	102	17	24	24	33	1.96
1149697--1152984	942	3.5	950	93	1	5429	33	17	20	28	1.95
1156137--1156203	23	2.9	23	77	4	73	19	20	25	34	1.96
1156462--1156518	28	2.0	28	96	0	105	28	3	15	52	1.59
1163049--1163140	23	4.0	23	79	1	94	22	23	21	31	1.98
1164243--1164333	31	3.0	31	88	4	132	37	20	15	26	1.93
1170960--1171005	19	2.4	19	96	0	83	10	36	2	50	1.50
1171906--1171959	20	2.6	21	88	2	74	31	22	18	27	1.97
1180171--1180426	111	2.3	109	84	5	322	23	18	24	34	1.96
1180222--1180429	111	1.9	111	90	4	339	22	18	23	35	1.95
1181533--1181585	14	3.9	13	82	4	61	1	13	1	83	0.82
1188554--1188604	25	2.0	27	88	7	79	70	5	7	15	1.30
1191736--1191782	23	2.0	24	84	12	62	65	4	14	14	1.41
1191850--1191891	17	2.5	17	77	11	50	73	2	9	14	1.18
1191878--1191949	23	3.1	22	77	15	74	75	1	8	15	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1191952--1191980	2	14.5	2	100	0	58	51	0	0	48	1.00
1195426--1195477	23	2.2	25	86	6	72	65	1	7	25	1.30
1197648--1197698	2	25.5	2	100	0	102	50	0	0	49	1.00
1201935--1201973	20	2.0	20	84	0	51	30	23	10	35	1.88
1204788--1204823	15	2.4	15	100	0	72	50	8	5	36	1.56
1215956--1216324	184	2.0	185	99	0	731	17	26	25	30	1.97
1220147--1220177	16	1.9	16	100	0	62	12	25	38	22	1.90
1222296--1222329	13	2.5	14	90	4	52	85	2	0	11	0.71
1222294--1222329	14	2.7	13	87	8	54	86	2	0	11	0.68
1222296--1222321	7	3.7	7	100	0	52	88	0	0	11	0.52
1240233--1240300	28	2.4	28	83	13	79	44	5	1	48	1.36
1240499--1240549	19	2.6	19	84	3	57	37	33	9	19	1.85
1240635--1240676	20	2.1	20	95	0	75	40	23	11	23	1.88
1240662--1240710	20	2.5	20	93	0	80	46	22	12	18	1.82
1240799--1240844	20	2.3	20	100	0	92	52	28	0	19	1.47
1240885--1240931	22	2.1	22	96	0	85	25	44	10	19	1.82
1242950--1242999	21	2.4	21	82	0	55	22	12	30	36	1.90
1243387--1243436	21	2.4	21	89	0	73	28	26	18	28	1.98
1243432--1243497	21	3.2	20	73	16	53	21	34	21	22	1.96
1243382--1243517	42	3.2	42	79	6	125	22	32	19	26	1.97
1243447--1243517	21	3.4	21	80	0	79	19	35	22	22	1.96
1244847--1244996	64	2.3	64	94	0	255	29	1	16	52	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1245057--1245142	20	4.3	20	74	0	73	38	22	17	22	1.93
1245057--1245142	40	2.2	40	84	0	109	38	22	17	22	1.93
1245420--1245455	18	2.0	18	94	0	63	16	2	25	55	1.55
1246620--1246656	18	2.1	18	89	0	56	51	10	5	32	1.60
1247035--1247083	25	2.0	25	95	0	89	46	18	8	26	1.76
1247162--1247225	20	3.2	20	80	6	76	31	18	20	29	1.96
1247469--1247504	18	2.0	18	94	0	63	19	2	22	55	1.56
1250728--1250836	20	5.5	19	77	11	80	33	11	23	31	1.91
1250748--1250881	61	2.2	60	85	4	171	31	12	24	31	1.92
1250768--1250878	41	2.7	40	81	10	118	30	13	25	30	1.94
1250768--1250878	20	5.5	20	77	10	109	30	13	25	30	1.94
1250887--1250935	20	2.5	20	93	0	80	18	16	26	38	1.91
1250925--1251063	21	6.8	21	71	4	68	30	17	23	28	1.97
1251590--1251635	4	10.8	4	86	9	56	28	0	0	71	0.86
1251935--1251990	13	4.8	13	69	24	52	37	12	0	50	1.41
1251912--1252006	34	2.8	34	93	4	165	33	11	0	54	1.36
1251998--1252033	11	3.1	11	92	8	54	44	2	0	52	1.15
1251998--1252042	13	3.6	13	80	17	51	46	2	0	51	1.13
1265554--1265594	22	2.0	21	85	9	57	26	0	29	43	1.55
1267115--1267363	85	3.0	85	82	5	319	23	19	18	38	1.93
1267108--1267357	43	6.0	43	85	4	323	23	19	18	38	1.93
1270031--1270082	22	2.4	22	100	0	104	38	0	3	57	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1270517--1270934	41	10.2	41	87	5	517	34	19	19	27	1.96
1273872--1273896	6	4.2	6	100	0	50	16	16	52	16	1.76
1277516--1277587	30	2.4	31	85	2	92	33	6	22	37	1.81
1284522--1284559	20	2.0	20	89	5	60	34	0	26	39	1.57
1288535--1288897	179	2.0	182	98	1	705	41	14	12	31	1.83
1292319--1292354	2	18.0	2	100	0	72	50	0	0	50	1.00
1293726--1293883	21	7.8	20	70	7	77	38	24	17	19	1.92
1293850--1294043	20	9.6	20	80	7	205	35	26	18	19	1.95
1293850--1294043	60	3.2	60	80	6	230	35	26	18	19	1.95
1294424--1294494	33	2.2	33	92	0	115	11	22	18	47	1.80

Tables:   1   2   3   4   5   6   7