genome.fa.s8893.2.7.7.80.10.50.1000.7.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: VEPZ01008893.1 Hibiscus syriacus cultivar Beakdansim tig00112159_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2797279

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

This is table  7  of  13  ( 1547 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)
1228901--1228939	8	5.0	8	84	6	53	10	17	12	58	1.61
1230122--1230167	11	4.0	11	88	8	65	80	8	10	0	0.91
1230124--1230168	12	3.8	12	86	13	58	84	6	8	0	0.78
1230125--1230169	9	4.6	10	88	5	58	84	6	8	0	0.78
1230775--1230818	22	2.0	22	91	8	72	38	22	11	27	1.88
1231781--1231904	36	3.4	36	82	6	160	25	20	13	40	1.89
1231880--1232036	68	2.4	68	84	5	205	31	22	8	36	1.85
1232686--1233403	105	6.9	105	93	1	1146	33	26	17	22	1.96
1232686--1233403	207	3.4	207	90	2	1118	33	26	17	22	1.96
1234552--1234594	18	2.5	17	85	7	61	25	4	2	67	1.22
1236652--1236745	20	4.7	20	76	5	73	34	26	11	27	1.91
1248996--1249023	14	2.0	14	100	0	56	14	35	28	21	1.92
1254967--1255008	17	2.5	17	84	3	59	11	47	19	21	1.81
1255130--1255177	22	2.4	19	78	18	60	6	31	22	39	1.79
1255136--1255196	22	2.8	22	87	2	79	9	27	24	37	1.87
1263152--1263195	23	1.9	23	95	0	79	34	25	15	25	1.95
1274466--1274584	61	2.0	61	87	0	175	28	28	16	26	1.97
1279763--1279797	2	17.5	2	100	0	70	48	0	0	51	1.00
1280449--1280549	45	2.3	45	94	1	177	50	5	5	37	1.51
1288133--1288180	9	5.1	9	79	5	51	16	2	4	77	1.03
1289727--1289783	31	2.0	29	83	13	73	47	8	15	28	1.75
1290053--1290132	42	1.9	42	94	0	142	32	23	8	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1292804--1292888	41	2.1	41	97	0	161	23	17	15	43	1.87
1303893--1303932	18	2.2	19	86	4	55	55	0	0	45	0.99
1304088--1305075	76	13.0	76	97	0	1813	36	20	21	21	1.95
1310496--1310549	22	2.4	23	84	6	67	1	16	0	81	0.78
1315126--1315182	25	2.3	24	82	14	71	70	0	3	26	1.03
1315127--1315168	7	5.9	7	78	15	50	69	0	2	28	1.01
1315158--1315199	17	2.5	17	85	11	59	73	0	4	21	1.01
1317241--1317280	3	13.0	3	94	5	71	65	0	0	35	0.93
1320285--1320323	2	19.5	2	100	0	78	48	0	0	51	1.00
1321347--1321409	31	2.2	28	78	15	67	30	25	22	22	1.99
1321421--1321451	6	5.3	6	92	7	55	35	32	16	16	1.91
1323305--1323504	98	2.0	98	95	0	355	29	25	10	35	1.88
1324871--1324929	25	2.4	25	97	0	109	30	8	37	23	1.85
1330236--1330272	13	2.8	13	100	0	74	29	21	16	32	1.95
1333859--1333892	13	2.6	13	86	13	52	47	26	2	23	1.66
1337519--1337631	60	1.9	60	81	3	138	38	8	12	39	1.74
1341635--1341668	2	17.0	2	88	11	52	50	0	2	47	1.16
1341715--1341755	2	21.0	2	95	5	75	51	0	0	48	1.00
1341775--1341867	45	2.1	45	83	4	116	27	19	18	34	1.95
1343835--1343880	18	2.6	18	92	0	74	21	23	6	47	1.74
1346343--1346377	18	1.9	18	88	0	52	25	5	20	48	1.71
1354519--1354543	4	6.2	4	100	0	50	24	0	48	28	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1354792--1354856	30	2.2	30	78	10	71	36	1	6	55	1.34
1357041--1357204	81	2.0	81	90	0	256	35	14	23	26	1.93
1358845--1358895	25	2.0	25	84	0	66	41	7	21	29	1.81
1358884--1358908	11	2.3	11	100	0	50	64	0	8	28	1.22
1358905--1358930	8	3.2	8	100	0	52	76	0	11	11	1.01
1360332--1360360	2	14.5	2	100	0	58	51	48	0	0	1.00
1360360--1360418	2	29.5	2	100	0	118	50	0	0	49	1.00
1360542--1362354	226	8.0	227	89	1	2610	33	15	14	37	1.87
1360975--1362282	108	11.7	106	74	12	920	34	14	13	37	1.86
1360542--1362354	451	4.0	452	89	1	2679	33	15	14	37	1.87
1360543--1362354	677	2.7	677	89	1	2713	33	15	14	37	1.87
1368509--1368560	3	18.3	3	76	11	56	59	0	1	38	1.08
1368515--1368560	14	3.3	14	82	11	67	60	0	2	36	1.09
1368762--1369083	134	2.4	134	84	1	412	26	17	30	25	1.97
1368779--1369119	134	2.5	133	82	4	389	25	17	30	26	1.98
1369144--1369207	28	2.3	28	89	5	94	45	15	12	26	1.82
1370782--1370881	21	4.5	19	70	23	56	3	16	10	71	1.26
1370782--1370881	11	8.9	11	69	29	61	3	16	10	71	1.26
1370788--1370852	26	2.5	26	73	14	71	3	15	9	72	1.23
1370771--1370890	14	8.6	14	72	18	81	2	17	10	70	1.27
1372157--1372199	21	2.0	21	86	0	59	30	27	25	16	1.97
1372228--1372272	22	2.0	22	91	4	72	28	33	26	11	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1383087--1383305	103	2.1	103	96	0	402	26	13	23	36	1.92
1383322--1383389	23	3.0	23	86	0	91	22	25	25	27	1.99
1386280--1386320	2	20.5	2	94	0	73	48	0	2	48	1.14
1388059--1388193	20	6.7	20	84	5	128	30	25	19	25	1.98
1388100--1388193	40	2.3	40	87	0	143	26	26	20	26	1.99
1388413--1388437	12	2.1	12	100	0	50	72	0	28	0	0.86
1388838--1388893	20	2.8	20	94	0	94	39	21	23	16	1.92
1390695--1390789	42	2.2	42	83	3	118	21	14	43	21	1.88
1391227--1391274	20	2.4	20	92	0	78	14	25	27	33	1.94
1391245--1391300	20	2.8	20	88	0	76	23	16	28	32	1.96
1391826--1391873	18	2.7	18	86	0	78	14	10	45	29	1.78
1393171--1393213	20	2.2	20	86	0	59	48	20	18	11	1.79
1393669--1393747	40	2.0	40	94	0	140	27	15	29	27	1.96
1393663--1393755	20	4.7	20	87	0	123	26	17	26	29	1.97
1393745--1393792	21	2.3	21	82	3	62	16	22	16	43	1.87
1393786--1393838	21	2.5	22	78	6	65	37	18	22	20	1.94
1394555--1394675	44	2.8	44	88	1	172	25	6	19	47	1.73
1394805--1395057	126	2.0	126	96	0	470	34	13	26	25	1.93
1398630--1398671	15	3.1	14	77	19	52	19	9	33	38	1.84
1399217--1399279	23	2.7	24	80	7	85	38	7	23	30	1.84
1401023--1401174	60	2.5	60	80	7	166	16	11	9	62	1.53
1401023--1401188	30	5.6	30	74	9	117	17	10	8	63	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1402667--1402786	60	2.0	60	100	0	240	30	21	21	26	1.99
1403003--1403045	18	2.3	18	80	4	50	20	16	9	53	1.70
1403578--1403604	12	2.2	12	100	0	54	14	22	14	48	1.81
1403784--1403814	16	1.9	16	100	0	62	25	6	22	45	1.76
1404858--1404983	12	11.3	11	75	18	59	76	6	15	1	1.05
1404869--1404983	51	2.3	49	81	11	135	79	6	13	1	1.00
1404929--1404984	26	2.1	27	87	6	80	82	5	8	3	0.94
1404867--1404983	17	7.1	16	73	17	87	78	5	13	1	1.01
1404869--1404984	25	4.4	26	74	20	82	79	6	12	1	0.99
1406670--1406710	3	14.3	3	90	10	68	34	0	0	65	0.93
1406670--1406710	14	2.9	14	96	3	73	34	0	0	65	0.93
1408104--1408209	55	1.9	54	86	5	151	16	16	6	61	1.54
1408102--1408231	31	4.5	29	73	12	106	16	15	8	60	1.58
1411757--1411911	84	1.9	83	91	4	258	39	18	18	23	1.92
1412665--1412723	21	2.8	21	89	0	100	6	30	42	20	1.78
1412957--1413231	75	3.7	75	89	2	418	18	28	16	36	1.92
1413725--1413815	36	2.5	36	98	0	173	36	23	19	20	1.95
1415055--1415097	22	2.0	22	95	0	77	34	16	9	39	1.80
1415056--1415102	22	2.2	22	88	3	69	40	17	6	36	1.75
1418927--1418985	23	2.6	23	86	0	82	30	23	23	22	1.99
1425868--1425926	23	2.6	23	91	0	91	27	25	28	18	1.98
1429239--1429343	38	2.8	38	84	4	115	30	20	8	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1429390--1429563	62	2.8	63	84	3	217	27	22	12	37	1.91
1429376--1429583	62	3.3	62	81	5	193	27	23	12	37	1.91
1429375--1429735	56	6.0	62	77	6	174	28	22	11	37	1.89
1429650--1429765	61	1.9	62	85	1	162	28	21	12	37	1.89
1430250--1430415	48	3.4	48	79	6	172	27	29	15	27	1.96
1432437--1432537	38	2.7	38	87	3	132	29	20	8	40	1.83
1432579--1432928	56	5.8	61	81	4	306	27	22	12	37	1.90
1432668--1432984	56	5.5	56	80	6	238	25	23	12	38	1.90
1432668--1432984	173	1.8	174	82	2	404	25	23	12	38	1.90
1433763--1433802	17	2.4	18	80	16	50	22	2	2	72	1.09

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