genome.fa.s7859.2.7.7.80.10.50.1000.6.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: VEPZ01007859.1 Hibiscus syriacus cultivar Beakdansim tig00110221_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3538007

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

This is table  6  of  18  ( 2075 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)
1112909--1113133	21	10.8	19	73	17	171	35	25	18	20	1.95
1112909--1113133	42	5.4	42	88	4	355	35	25	18	20	1.95
1113143--1113195	21	2.5	21	93	0	88	16	20	32	30	1.95
1119435--1119522	38	2.3	38	86	5	124	38	18	27	15	1.91
1128449--1128507	22	2.8	21	82	14	68	13	5	5	76	1.13
1128660--1128721	17	3.6	17	77	2	61	14	6	1	77	1.04
1128689--1128739	14	3.8	13	82	10	66	15	3	1	78	0.99
1135242--1135536	64	4.6	64	90	1	466	34	22	13	29	1.93
1135620--1135975	124	2.9	123	89	0	523	35	25	14	23	1.93
1143176--1143231	21	2.7	21	91	0	85	44	7	21	26	1.78
1149210--1149260	2	25.5	2	100	0	102	49	0	0	50	1.00
1150976--1151002	8	3.4	8	100	0	54	85	0	0	14	0.61
1152447--1152802	84	4.3	84	76	6	382	23	19	26	30	1.98
1152464--1152796	165	2.0	164	84	1	425	23	20	25	30	1.98
1159322--1159350	14	2.1	14	100	0	58	34	6	0	58	1.25
1159350--1159422	20	3.4	22	74	16	71	46	1	2	49	1.24
1169666--1169700	16	2.1	17	94	5	63	34	25	8	31	1.86
1174211--1174245	16	2.1	17	94	5	63	34	25	8	31	1.86
1182990--1183042	20	2.7	20	78	0	61	35	13	13	37	1.83
1184052--1184135	39	2.2	39	80	8	91	39	2	42	15	1.60
1189275--1189358	39	2.2	39	80	8	91	39	2	42	15	1.60
1197529--1197571	22	2.0	22	86	4	61	18	11	27	41	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1200440--1200479	13	2.9	14	81	11	55	25	0	25	50	1.50
1212902--1212966	31	2.0	32	85	8	87	24	21	23	30	1.99
1213097--1213123	8	3.4	8	100	0	54	48	37	0	14	1.45
1218810--1218943	36	3.7	35	84	8	180	19	22	20	37	1.95
1218810--1218955	72	2.0	72	90	2	231	18	22	19	39	1.93
1218951--1218990	21	1.9	21	84	0	53	10	32	0	57	1.32
1224184--1224245	25	2.5	25	100	0	124	43	20	19	16	1.88
1232266--1232736	211	2.2	215	83	8	578	33	16	14	35	1.89
1233009--1233341	131	2.5	132	81	4	375	31	19	19	29	1.96
1233038--1233341	134	2.3	131	82	4	351	31	19	20	28	1.97
1235050--1235088	20	2.0	20	89	0	60	33	23	10	33	1.88
1235171--1235704	132	4.0	131	85	2	683	31	21	18	28	1.97
1235171--1235704	266	2.0	264	86	3	743	31	21	18	28	1.97
1235654--1235749	45	2.1	45	90	0	147	36	17	18	27	1.94
1235518--1235881	177	2.1	178	84	4	477	32	20	18	28	1.96
1235698--1236035	132	2.6	132	78	1	365	31	19	19	29	1.96
1236225--1236269	3	15.3	3	86	4	65	37	0	0	62	0.96
1241572--1241641	35	2.0	35	100	0	140	25	37	0	37	1.57
1243456--1243519	31	2.1	31	90	0	101	43	17	4	34	1.69
1244822--1245167	43	8.1	43	87	2	464	21	19	19	39	1.92
1245010--1245080	21	3.3	21	64	24	58	23	18	16	40	1.90
1248008--1248075	16	4.4	16	72	20	56	38	32	0	29	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1250340--1250681	41	8.3	41	79	9	351	34	18	19	26	1.95
1250316--1250681	82	4.4	83	83	7	476	33	18	20	27	1.96
1250340--1250681	124	2.8	121	83	5	452	34	18	19	26	1.95
1250316--1250681	165	2.2	164	86	3	495	33	18	20	27	1.96
1252296--1252479	15	12.4	14	78	14	103	39	2	5	53	1.36
1252322--1252469	28	5.2	28	78	13	92	39	1	5	54	1.32
1252347--1252482	5	26.6	5	84	14	172	39	0	2	56	1.20
1254961--1255009	24	2.1	23	85	11	64	55	2	2	40	1.23
1261838--1261940	5	19.8	5	69	15	66	21	5	1	70	1.18
1261825--1261886	22	2.8	22	75	7	63	16	6	3	74	1.16
1261837--1261884	11	4.5	11	84	5	62	14	4	2	79	0.98
1262101--1262133	15	2.3	15	89	5	50	54	12	21	12	1.69
1271331--1271391	26	2.3	26	88	0	86	44	1	9	44	1.47
1271256--1271368	37	3.0	37	84	5	154	47	1	7	43	1.41
1271299--1271438	63	2.2	63	82	5	165	48	2	6	42	1.40
1271255--1271380	37	3.3	38	80	8	141	48	1	7	42	1.40
1271430--1271486	7	8.3	7	81	9	64	38	0	3	57	1.16
1271433--1271487	15	3.8	14	80	7	56	36	0	3	60	1.15
1272142--1272205	29	2.2	29	97	0	119	14	31	15	39	1.87
1272633--1272675	17	2.6	16	79	13	52	23	9	2	65	1.34
1272715--1272797	32	2.5	33	82	11	89	20	4	1	73	1.08
1273484--1273508	13	1.9	13	100	0	50	40	0	16	44	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1274174--1274389	54	3.9	56	83	3	215	34	11	18	35	1.87
1274601--1274787	68	2.8	68	91	0	311	31	14	25	29	1.95
1274737--1275060	81	4.0	81	83	2	391	34	12	23	28	1.92
1280314--1280351	20	1.9	20	94	0	67	18	15	34	31	1.92
1282979--1283078	44	2.3	44	82	6	114	28	18	25	29	1.98
1296583--1296680	28	3.4	28	83	10	135	43	3	8	44	1.49
1296515--1296716	39	5.7	38	75	20	151	44	2	7	45	1.47
1296639--1296813	37	4.8	39	77	18	157	42	3	9	44	1.53
1296583--1296741	58	2.6	56	82	15	176	44	2	8	45	1.47
1296680--1296746	27	2.4	27	92	5	107	44	1	8	44	1.44
1296611--1296779	66	2.5	66	87	10	236	44	2	8	43	1.50
1296680--1296760	27	2.9	27	87	7	92	45	1	8	44	1.42
1296611--1296779	64	2.5	64	85	10	214	44	2	8	43	1.50
1296819--1296880	2	33.0	2	75	18	62	43	1	1	53	1.20
1296858--1296913	14	4.4	14	72	21	50	25	1	0	73	0.93
1296861--1296915	11	5.0	11	78	8	58	23	1	0	74	0.91
1296866--1296915	16	3.1	16	83	13	66	22	2	0	76	0.89
1296866--1296922	16	3.5	16	83	11	62	19	3	0	77	0.92
1299194--1299250	28	2.0	29	86	3	80	36	5	7	50	1.52
1302006--1302156	77	2.0	77	89	2	232	35	33	7	23	1.84
1304987--1305014	3	9.3	3	100	0	56	32	32	0	35	1.58
1306942--1306982	17	2.5	17	77	14	50	70	0	0	29	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1309617--1309658	15	2.8	15	96	0	75	47	16	14	21	1.82
1316635--1316742	42	2.8	41	78	16	115	49	2	0	47	1.22
1316903--1316949	14	3.5	14	77	8	53	53	2	2	42	1.25
1316935--1317024	27	3.2	28	77	18	73	53	2	1	43	1.20
1318718--1318762	17	2.7	16	89	6	63	71	0	0	28	0.87
1318709--1318763	26	2.3	23	84	12	67	72	0	1	25	0.94
1318718--1318763	22	2.1	23	88	8	69	71	0	0	28	0.86
1318723--1318763	12	3.2	13	86	13	59	70	0	0	29	0.87
1318742--1318775	14	2.4	14	90	0	50	61	5	0	32	1.20
1318839--1318872	13	2.5	13	85	4	50	41	8	2	47	1.50
1318829--1318905	36	2.2	36	84	11	99	44	9	2	44	1.49
1318892--1318948	25	2.4	25	82	8	66	38	7	8	45	1.62
1318918--1319060	37	3.9	36	77	11	123	43	11	3	41	1.57
1318829--1319022	96	2.0	92	81	9	221	43	10	3	42	1.56
1333247--1333290	21	2.1	21	82	0	52	38	20	15	25	1.92
1339365--1339407	19	2.3	19	91	0	68	32	37	16	13	1.88
1348075--1348120	11	4.2	12	76	18	55	67	0	0	32	0.91
1348066--1348114	21	2.3	21	89	6	73	69	0	0	30	0.89
1348080--1348118	9	4.0	9	81	18	51	69	0	0	30	0.89
1348105--1348152	24	1.9	26	83	8	64	56	4	0	39	1.19
1348134--1348178	17	2.6	17	85	0	63	46	4	2	46	1.35
1348109--1348195	41	2.1	43	82	8	108	50	5	2	41	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1348073--1348158	25	3.6	25	75	19	76	60	2	0	37	1.10
1348124--1348417	37	7.8	37	75	15	203	43	9	4	42	1.57
1348310--1348350	21	2.0	21	85	9	57	41	9	2	46	1.50
1348119--1348417	73	3.9	75	76	15	208	43	9	4	43	1.56
1348880--1348939	30	2.0	30	100	0	120	36	13	6	43	1.70
1354223--1354304	42	2.0	42	83	9	105	39	6	17	37	1.74
1354456--1354511	23	2.4	23	96	0	103	25	21	25	28	1.99
1358050--1358074	2	12.5	2	100	0	50	48	0	0	52	1.00
1359532--1359590	31	1.9	31	92	0	100	59	10	0	30	1.30
1363366--1363604	112	2.1	112	90	1	372	45	12	15	27	1.82

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