genome.fa.s8724.2.7.7.80.10.50.1000.5.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: VEPZ01008724.1 Hibiscus syriacus cultivar Beakdansim tig00111783_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5289199

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  5  of  23  ( 2733 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)
1090635--1090913	137	2.0	137	85	6	379	27	12	15	43	1.83
1097590--1097650	22	2.8	22	87	0	68	39	18	21	21	1.93
1097681--1097720	20	2.0	20	90	0	62	17	37	25	20	1.94
1105407--1105495	29	3.0	29	75	8	81	41	4	16	37	1.69
1107477--1107567	39	2.3	39	100	0	182	30	18	6	43	1.76
1116838--1116928	44	2.1	44	97	0	173	37	28	4	29	1.77
1118282--1118325	23	2.0	23	86	4	63	25	36	15	22	1.94
1119007--1119071	3	22.0	3	81	9	80	63	1	3	32	1.19
1119007--1119071	19	3.3	20	79	16	82	63	1	3	32	1.19
1119314--1119387	20	3.7	20	79	0	85	29	21	22	25	1.99
1119398--1119586	100	1.9	100	92	0	315	31	16	16	34	1.92
1119558--1119647	20	4.4	20	74	13	76	26	18	25	28	1.98
1119614--1119845	99	2.3	99	85	1	304	31	17	16	34	1.93
1122702--1122756	9	6.4	9	81	8	62	1	16	0	81	0.77
1122702--1122756	18	3.2	17	92	7	94	1	16	0	81	0.77
1129887--1129948	3	20.0	3	77	12	63	61	3	4	30	1.33
1129881--1129949	25	2.8	25	80	8	79	60	2	4	31	1.31
1129890--1129931	16	2.5	17	88	7	68	61	2	4	30	1.29
1135520--1135684	82	2.0	82	93	0	285	52	12	9	25	1.68
1138130--1138186	24	2.5	24	78	16	75	24	3	12	59	1.48
1142775--1142933	65	2.5	64	85	7	207	27	18	21	32	1.96
1149979--1150070	44	2.1	44	82	11	109	28	23	19	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1149998--1150075	23	3.5	22	74	15	70	24	24	20	30	1.98
1150386--1150425	21	1.9	21	89	0	62	25	40	25	10	1.86
1152694--1152726	16	2.1	16	94	0	57	39	0	15	45	1.46
1155187--1155265	23	3.5	23	72	18	67	30	20	25	24	1.98
1161740--1161809	35	2.0	35	94	0	122	34	8	28	28	1.87
1162547--1162574	2	14.0	2	100	0	56	50	0	0	50	1.00
1166559--1166613	13	4.3	13	82	11	69	78	5	1	14	1.02
1166783--1166824	15	2.8	16	75	14	52	64	7	7	21	1.43
1166783--1166828	14	3.1	15	75	12	51	63	6	8	21	1.46
1167035--1167241	110	1.9	109	81	1	252	45	16	12	24	1.82
1168206--1168277	24	3.0	23	78	8	72	59	0	1	38	1.06
1168279--1168309	16	1.9	16	93	0	53	22	25	32	19	1.97
1169009--1169085	15	5.0	15	69	12	57	49	16	6	27	1.70
1169559--1169594	2	18.0	2	100	0	72	50	0	0	50	1.00
1169697--1169791	43	2.2	43	86	0	136	49	8	7	34	1.61
1170119--1170156	20	2.0	19	85	10	51	50	7	18	23	1.73
1172448--1172507	31	1.9	31	93	0	102	45	13	16	25	1.84
1176024--1176095	33	2.2	33	90	2	110	13	8	33	44	1.74
1176040--1176102	33	1.9	33	96	0	117	12	4	31	50	1.61
1176662--1176708	18	2.7	18	93	3	78	27	31	8	31	1.87
1183343--1183382	14	2.9	14	88	7	55	27	15	30	27	1.96
1184489--1184810	46	7.0	46	86	0	394	32	17	9	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1185576--1185601	11	2.4	11	100	0	52	26	7	19	46	1.77
1186882--1186924	21	2.0	21	90	0	68	23	23	13	39	1.90
1186942--1186983	19	2.2	19	95	0	75	45	23	9	21	1.81
1187141--1187192	22	2.4	22	90	0	77	19	36	15	28	1.92
1187535--1187573	20	2.0	20	89	0	60	53	15	17	12	1.72
1189009--1189105	42	2.3	42	87	0	131	29	36	16	17	1.92
1189220--1189269	21	2.4	21	82	0	64	20	10	32	38	1.85
1189425--1189450	12	2.2	12	100	0	52	34	30	7	26	1.85
1189713--1189783	21	3.4	21	84	0	97	22	39	16	21	1.92
1189695--1189783	42	2.2	39	86	6	115	22	38	16	22	1.93
1197243--1197422	24	7.5	24	98	1	344	29	16	16	37	1.91
1200878--1201026	25	5.9	26	91	0	108	26	27	22	23	2.00
1200908--1201043	25	5.4	25	93	0	227	26	28	22	22	1.99
1221899--1221998	46	2.2	46	82	7	114	41	9	16	34	1.79
1221912--1222263	46	7.6	46	82	0	371	42	9	17	31	1.80
1221912--1222262	138	2.5	138	83	0	414	41	9	17	31	1.80
1222249--1222273	11	2.3	11	100	0	50	52	8	24	16	1.70
1228970--1229069	23	4.2	24	70	3	78	26	23	18	33	1.97
1235685--1235755	23	3.0	23	83	4	88	22	23	25	28	2.00
1235684--1235759	24	3.2	24	84	3	100	22	23	23	30	1.99
1245252--1245414	64	2.5	64	81	3	186	29	18	24	27	1.98
1245380--1245451	19	3.8	19	100	0	144	30	16	30	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1251269--1251345	25	3.3	25	65	26	69	19	23	20	36	1.95
1258120--1258169	23	2.2	23	88	0	73	40	8	20	32	1.81
1258467--1258499	17	1.9	17	100	0	66	30	15	6	48	1.69
1261801--1262814	200	5.1	201	84	3	1240	32	13	16	37	1.88
1261799--1262766	400	2.4	401	89	2	1428	32	13	15	37	1.87
1267650--1267705	18	3.1	18	75	17	62	8	33	0	57	1.30
1267654--1267711	18	3.2	18	75	4	55	6	31	0	62	1.22
1270226--1270282	23	2.3	25	73	14	64	43	7	15	33	1.74
1270238--1270287	23	2.2	23	88	0	73	40	6	22	32	1.78
1270201--1270363	87	1.9	87	93	0	281	42	11	14	32	1.80
1270515--1270868	180	1.9	180	83	4	447	31	14	15	38	1.88
1274438--1275380	200	4.7	200	85	3	1236	31	14	15	37	1.89
1274436--1275348	399	2.3	399	91	2	1449	32	14	15	37	1.89
1275802--1275860	30	2.0	30	93	0	100	47	11	1	38	1.50
1278152--1278200	19	2.6	19	93	0	80	36	18	0	44	1.50
1278625--1279280	182	3.6	182	87	1	951	26	16	14	42	1.86
1280846--1281062	46	4.7	46	96	0	389	19	22	14	44	1.86
1280876--1281055	26	7.6	25	72	21	174	19	23	13	43	1.87
1287701--1288049	46	7.7	46	83	4	449	19	21	13	45	1.84
1287938--1288017	20	3.7	20	74	18	79	20	27	12	40	1.88
1287923--1288043	26	5.1	25	68	22	91	19	23	14	43	1.86
1289701--1289908	69	3.0	69	86	6	294	31	19	9	39	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1290661--1290897	45	5.3	45	90	0	366	22	21	12	43	1.85
1291264--1291462	94	2.1	94	81	9	237	27	18	13	40	1.88
1304020--1304208	45	4.2	45	89	0	288	22	21	11	44	1.84
1306290--1306330	18	2.3	18	87	8	57	2	31	21	43	1.66
1307897--1307936	21	1.9	21	89	0	62	17	27	27	27	1.98
1307920--1307980	23	2.7	23	86	0	86	18	24	32	24	1.97
1307899--1307980	23	3.7	22	80	6	76	18	25	30	25	1.98
1313559--1313612	19	2.8	20	80	5	67	1	5	12	79	0.98
1313552--1313612	28	2.2	28	81	0	77	1	6	14	77	1.05
1313942--1313987	23	2.0	23	88	12	69	65	4	13	17	1.42
1317395--1317436	21	2.0	21	86	9	59	35	11	2	50	1.52
1323752--1323792	21	2.0	21	95	0	73	41	17	0	41	1.49
1324078--1324390	105	3.0	105	93	1	522	52	10	5	31	1.59
1325140--1325200	17	3.4	17	69	20	52	42	1	3	52	1.27
1325080--1325199	37	3.2	38	79	2	136	44	2	5	47	1.40
1325127--1325228	37	3.0	33	77	14	100	45	2	4	47	1.39
1325867--1325941	2	38.5	2	92	5	127	49	1	0	49	1.09
1331077--1331118	16	2.6	16	78	10	50	50	14	0	35	1.43
1331645--1331729	32	2.7	32	77	3	82	28	25	28	17	1.98
1346784--1347223	59	7.5	59	76	8	353	37	11	21	28	1.89
1346764--1347223	118	3.9	118	75	10	390	37	12	21	28	1.90
1346775--1347163	177	2.2	177	82	8	445	37	12	22	28	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1346907--1347147	60	4.1	61	74	14	195	38	11	21	28	1.88
1347300--1347688	44	9.0	44	88	4	533	39	6	19	35	1.76
1347380--1347633	80	3.1	80	83	8	328	40	5	18	35	1.74
1347300--1347688	124	3.0	124	84	6	436	39	6	19	35	1.76
1347300--1347633	168	2.0	168	93	0	569	40	5	18	35	1.74
1353044--1353493	59	7.6	59	76	7	369	38	10	21	29	1.87
1353043--1353424	177	2.2	177	81	6	425	38	10	22	28	1.88
1353561--1353913	44	8.0	44	91	0	508	40	6	18	35	1.76
1358872--1358915	18	2.5	18	85	3	63	54	25	6	13	1.63
1359389--1359421	13	2.5	13	95	5	57	36	15	27	21	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23