genome.fa.s7911.2.7.7.80.10.50.1000.6.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: VEPZ01007911.1 Hibiscus syriacus cultivar Beakdansim tig00110307_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1972160

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 1033 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)
1209990--1210067	30	2.6	31	81	6	88	47	3	24	24	1.68
1213592--1213743	82	1.9	81	86	5	220	44	5	7	42	1.56
1213665--1213777	35	3.2	34	72	12	93	45	4	6	44	1.49
1224598--1224662	29	2.2	29	86	2	85	38	16	23	21	1.93
1228266--1228310	23	2.0	23	86	0	63	51	22	2	24	1.60
1228421--1228478	20	2.9	20	75	7	64	44	18	1	34	1.60
1228402--1228547	40	3.8	40	67	12	115	45	17	2	34	1.63
1244771--1244820	24	2.1	24	85	7	66	24	2	14	60	1.45
1253352--1253399	21	2.3	21	96	3	89	16	22	43	16	1.87
1254103--1254198	51	1.9	50	95	2	174	26	21	6	45	1.75
1257957--1258245	111	2.6	108	84	6	359	32	11	10	44	1.75
1258678--1259160	111	4.3	111	88	1	673	33	10	10	45	1.73
1258678--1259160	223	2.2	222	88	2	700	33	10	10	45	1.73
1259654--1259705	20	2.6	20	100	0	104	26	9	21	42	1.83
1259676--1260090	109	3.8	111	89	2	624	32	11	10	45	1.74
1260570--1260633	23	2.8	23	97	2	121	35	20	9	34	1.85
1260485--1260720	109	2.2	110	96	2	431	33	15	10	39	1.82
1260679--1260723	23	2.0	23	86	8	65	40	17	8	33	1.81
1261070--1261541	227	2.1	228	85	2	644	38	13	15	32	1.87
1261700--1261732	2	16.5	2	100	0	66	0	0	48	51	1.00
1261975--1262006	2	16.0	2	100	0	64	50	0	0	50	1.00
1262006--1262050	2	22.5	2	95	0	81	2	0	46	51	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1263363--1263411	19	2.6	19	100	0	98	26	28	22	22	1.99
1263431--1263479	19	2.6	19	84	9	57	24	26	18	30	1.98
1269683--1269717	17	2.0	18	88	5	54	54	8	0	37	1.31
1271327--1271353	2	13.5	2	100	0	54	48	0	0	51	1.00
1271858--1272018	66	2.5	63	84	7	189	31	23	18	26	1.97
1271990--1272038	19	2.6	19	84	9	57	24	28	20	26	1.99
1273966--1274681	375	1.9	375	87	2	1062	28	12	13	45	1.80
1274493--1274843	157	2.2	157	83	3	447	26	14	15	44	1.84
1274933--1274972	19	2.0	20	90	4	64	30	12	7	50	1.68
1276670--1276714	6	7.5	6	87	0	54	55	6	8	28	1.56
1277033--1277062	15	2.0	15	93	0	51	50	13	6	30	1.67
1285987--1286087	46	2.2	46	91	1	159	42	13	21	21	1.88
1286073--1286529	46	9.9	46	87	0	619	42	13	22	21	1.87
1286352--1286423	26	3.3	20	67	22	56	41	15	25	18	1.89
1291021--1291045	12	2.1	12	100	0	50	24	8	32	36	1.84
1293190--1293667	46	10.4	46	90	0	695	42	12	23	21	1.87
1296114--1296267	77	2.0	77	92	0	254	22	29	22	25	1.99
1315638--1315679	19	2.2	19	100	0	84	59	9	0	30	1.29
1318603--1318690	24	3.7	23	86	6	113	35	20	19	25	1.96
1324532--1324622	24	3.8	24	85	5	112	36	20	17	25	1.94
1324532--1324623	48	1.9	48	88	0	139	35	20	17	26	1.95
1325597--1325649	26	2.0	26	85	0	70	26	20	16	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1329118--1329299	91	2.0	91	98	0	355	32	21	16	29	1.95
1335356--1335385	14	2.1	14	100	0	60	43	20	6	30	1.77
1335607--1335916	38	8.3	37	78	14	252	40	8	3	47	1.51
1335677--1335771	44	2.1	46	82	7	115	41	7	3	48	1.47
1335733--1335781	25	2.0	25	88	8	73	42	8	4	44	1.53
1336306--1336771	199	2.3	199	82	3	540	27	21	17	33	1.96
1343620--1343652	15	2.1	16	94	5	59	78	0	3	18	0.87
1344869--1345063	37	5.2	37	83	6	252	41	8	3	46	1.52
1345765--1345824	27	2.2	27	93	0	102	53	21	10	15	1.70
1347157--1347189	13	2.4	14	90	5	50	57	3	0	39	1.14
1348990--1349043	19	2.8	19	94	0	90	35	18	38	7	1.79
1357570--1357633	28	2.2	29	80	8	76	32	9	12	45	1.74
1357843--1357919	29	2.6	29	87	2	109	32	7	12	46	1.71
1357995--1358480	38	13.3	38	75	17	326	46	3	5	43	1.45
1359782--1359828	24	2.0	24	86	0	67	25	0	4	70	1.05
1359876--1359948	9	8.3	9	76	8	53	23	2	1	72	1.05
1359880--1360052	4	43.5	4	68	23	73	17	2	4	75	1.10
1359876--1360041	34	5.1	32	72	14	85	17	3	4	74	1.12
1359941--1360017	15	5.3	14	77	18	77	12	2	6	77	1.06
1359957--1360049	31	3.1	29	75	24	70	12	3	6	77	1.08
1359943--1360052	23	5.2	21	73	20	79	13	2	6	77	1.07
1359914--1360052	57	2.5	54	75	19	124	15	2	5	76	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1363921--1364176	95	2.7	94	81	4	278	33	16	17	32	1.93
1364971--1365853	85	10.4	85	84	3	1044	35	22	18	24	1.96
1364972--1365793	341	2.4	341	89	2	1242	35	22	18	24	1.95
1366537--1366564	3	9.3	3	100	0	56	32	0	0	67	0.91
1366562--1366590	2	15.0	2	92	7	51	48	0	0	51	1.00
1366575--1366671	40	2.4	42	82	5	119	45	2	8	44	1.45
1366608--1367042	36	11.8	35	80	14	341	46	2	6	44	1.42
1366608--1367042	116	3.9	108	79	16	432	46	2	6	44	1.42
1367028--1367100	14	5.2	13	75	21	51	30	1	2	65	1.15
1367044--1367114	14	5.5	13	76	15	60	25	2	1	70	1.09
1367314--1367352	19	2.1	18	90	4	60	38	30	20	10	1.86
1368310--1368348	3	12.7	3	83	5	51	30	0	2	66	1.05
1368298--1368345	19	2.6	19	87	9	64	27	0	4	68	1.07
1368310--1368352	22	2.0	22	95	0	77	30	0	2	67	1.03
1368314--1368361	22	2.2	22	84	0	60	31	4	2	62	1.26
1368420--1368457	3	13.7	3	84	15	55	26	0	0	73	0.83
1368420--1368457	20	1.9	19	94	5	67	26	0	0	73	0.83
1368388--1368509	66	1.9	63	83	8	156	20	3	2	73	1.09
1368403--1368501	8	12.9	7	77	15	58	22	2	1	74	0.98
1368412--1368514	6	16.0	6	71	24	52	20	1	2	74	1.04
1368470--1368503	14	2.3	15	90	5	52	20	0	0	79	0.73
1368414--1368507	51	1.9	50	83	14	126	20	2	2	75	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1368879--1368924	15	3.1	15	70	17	51	47	4	8	39	1.54
1368861--1368937	29	2.6	29	78	17	95	49	10	6	33	1.63
1370415--1370513	45	2.1	47	88	11	148	43	15	6	35	1.71
1373136--1373167	16	2.0	16	93	0	55	12	9	0	78	0.97
1378036--1378185	43	3.5	43	91	1	239	42	8	4	45	1.52
1384755--1384819	20	3.2	20	80	0	76	41	18	16	23	1.90
1384729--1384820	40	2.3	40	81	7	116	42	20	16	20	1.89
1384939--1385011	20	3.7	20	83	0	101	41	17	21	19	1.91
1385131--1385184	20	2.7	20	91	0	81	35	16	24	24	1.95
1385429--1385475	20	2.3	20	92	0	76	19	19	23	38	1.93
1385465--1385541	20	3.8	21	82	5	95	22	14	31	32	1.93
1400000--1400089	7	12.7	7	72	2	54	50	26	0	23	1.50
1400001--1400054	22	2.5	21	88	8	81	55	22	0	22	1.44
1400044--1400089	21	2.2	21	88	7	67	45	28	0	26	1.54
1403213--1403413	3	63.7	3	70	17	88	35	4	1	58	1.28
1403266--1403413	7	23.8	6	69	17	81	36	2	1	60	1.17
1403261--1403329	19	3.5	19	72	18	61	40	1	0	57	1.07
1403314--1403427	40	2.8	39	73	17	106	32	2	4	60	1.30
1403787--1403815	11	2.7	11	94	5	51	72	0	0	27	0.85
1403915--1403971	22	2.6	22	97	0	105	50	8	0	40	1.33
1403980--1404039	31	1.9	31	93	0	102	43	6	6	43	1.57
1403826--1404121	147	2.0	148	90	2	470	46	8	3	41	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1404064--1404140	22	3.5	22	92	0	127	49	9	0	41	1.34
1404127--1404162	13	2.8	13	87	4	56	55	2	0	41	1.14
1404129--1404175	13	3.9	12	77	8	51	53	4	2	40	1.32
1403956--1404303	184	1.9	182	90	1	561	49	6	2	41	1.43
1404164--1404223	31	1.9	31	96	0	111	45	6	5	43	1.52
1404247--1404302	22	2.6	22	97	2	105	55	3	0	41	1.17
1406430--1406473	20	2.1	21	84	12	56	40	18	6	34	1.77
1407951--1407982	15	2.1	15	100	0	64	25	25	34	15	1.95
1407966--1408254	69	4.2	68	82	4	314	26	22	25	24	2.00
1408204--1408294	36	2.5	36	83	5	103	30	24	19	25	1.98

Tables:   1   2   3   4   5   6   7   8   9