genome.fa.s8007.2.7.7.80.10.50.1000.8.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: VEPZ01008007.1 Hibiscus syriacus cultivar Beakdansim tig00110469_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1953294

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

This is table  8  of  11  ( 1251 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)
1234293--1234335	21	2.0	21	95	0	77	23	37	18	20	1.94
1234867--1234926	23	2.6	23	91	0	93	23	28	20	28	1.99
1235815--1235882	27	2.5	28	85	2	93	44	22	13	20	1.86
1241704--1241759	27	2.1	27	82	0	67	55	3	1	39	1.28
1243741--1243783	18	2.4	18	92	0	68	20	6	0	72	1.08
1248763--1248798	18	2.0	18	94	0	63	25	2	11	61	1.43
1249550--1249592	18	2.4	18	92	0	68	25	4	0	69	1.07
1255127--1255161	18	2.0	17	88	5	52	28	0	0	71	0.86
1257255--1257606	54	6.5	54	89	0	515	34	17	18	29	1.94
1275843--1275975	64	2.1	64	97	0	248	54	10	8	26	1.62
1280516--1280557	22	2.0	22	85	4	59	66	7	9	16	1.42
1280703--1280761	24	2.4	24	80	8	66	66	6	1	25	1.26
1285059--1285111	21	2.5	21	81	6	63	22	24	18	33	1.97
1285101--1285301	20	10.4	20	76	12	181	38	18	20	21	1.94
1285164--1285324	20	8.6	18	72	17	107	36	20	21	21	1.95
1285142--1285290	75	2.0	74	85	6	187	38	18	21	20	1.93
1285911--1285962	18	2.8	18	91	2	77	13	21	19	46	1.84
1285911--1286016	19	6.1	19	72	21	90	13	20	19	46	1.83
1287682--1288052	94	4.1	93	93	4	596	21	12	18	46	1.82
1287682--1288052	187	2.0	179	90	5	582	21	12	18	46	1.82
1288138--1288253	19	6.3	19	78	13	116	48	22	19	9	1.78
1288143--1288251	33	3.0	36	78	13	107	47	22	20	9	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1288216--1288253	20	1.9	20	94	0	67	50	26	15	7	1.72
1288262--1288326	33	1.9	34	90	3	105	10	16	23	49	1.77
1288259--1288342	19	4.6	19	78	15	79	13	19	21	46	1.83
1290140--1290175	14	2.6	14	95	0	63	33	0	22	44	1.53
1290282--1290343	19	3.3	19	93	4	99	45	22	19	12	1.84
1290282--1290357	19	4.0	19	91	3	93	46	23	17	13	1.83
1290362--1290479	17	7.1	17	67	25	83	11	22	18	47	1.80
1290362--1290488	33	3.8	33	94	0	218	11	22	18	46	1.82
1290383--1290470	14	5.6	14	70	23	59	11	23	19	45	1.83
1290397--1290508	19	6.4	19	72	20	91	13	22	19	44	1.85
1290461--1290515	20	2.8	19	83	2	65	18	21	21	38	1.94
1293029--1293080	24	2.2	24	82	6	61	36	21	21	21	1.95
1293914--1294301	21	19.3	19	75	13	214	35	17	20	25	1.95
1293925--1294199	21	13.6	20	82	11	278	40	16	21	21	1.91
1293914--1294300	41	9.6	41	84	5	323	35	17	20	25	1.95
1294202--1294301	40	2.5	41	96	1	184	24	22	18	36	1.95
1297804--1297828	13	1.9	13	100	0	50	28	8	32	32	1.86
1307046--1307171	65	2.0	64	93	4	218	20	21	18	39	1.92
1309764--1309866	45	2.3	45	86	5	136	29	21	20	29	1.98
1309807--1309932	65	2.0	63	81	10	148	26	18	22	32	1.97
1318352--1318509	65	2.4	65	86	5	205	27	19	24	29	1.98
1327270--1327322	27	2.0	27	82	17	67	33	18	5	41	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1332510--1332543	17	2.1	16	88	5	50	50	0	0	50	1.00
1338988--1339041	30	1.9	27	85	14	74	33	3	11	51	1.55
1339437--1339461	2	12.5	2	100	0	50	48	0	0	52	1.00
1340925--1340952	14	2.0	14	100	0	56	21	7	0	71	1.09
1345678--1345791	60	1.9	60	83	7	151	42	3	25	28	1.72
1345688--1345806	60	2.0	60	82	9	145	42	4	22	30	1.72
1348975--1349072	21	4.7	21	83	0	79	24	19	30	25	1.98
1350208--1350259	21	2.5	21	93	0	86	21	23	28	26	1.99
1350418--1350503	23	3.7	24	70	13	72	31	17	6	44	1.75
1350423--1350515	46	2.0	46	89	0	141	32	18	5	44	1.72
1356919--1356952	17	2.1	16	89	10	52	29	32	17	20	1.96
1356936--1356981	21	2.2	21	88	0	65	23	26	21	28	1.99
1357144--1357248	46	2.3	46	95	1	185	32	18	6	42	1.76
1359526--1359580	24	2.4	23	78	6	58	61	7	0	30	1.23
1367911--1367974	6	10.7	6	100	0	128	34	48	17	0	1.47
1367972--1368020	5	9.8	5	97	0	80	24	34	40	0	1.55
1373862--1373904	6	7.2	6	94	0	77	32	48	16	2	1.58
1383660--1383761	44	2.3	44	84	3	134	33	21	21	23	1.97
1386480--1386520	18	2.3	18	91	0	64	51	2	14	31	1.56
1387918--1388019	44	2.3	44	84	3	134	33	21	21	23	1.97
1390723--1390763	18	2.3	18	91	0	64	51	2	14	31	1.56
1392158--1392296	63	2.2	62	84	3	179	32	23	21	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1393854--1393914	23	2.7	23	86	0	86	27	26	26	19	1.99
1400768--1400874	23	4.7	23	92	0	178	29	26	26	17	1.98
1404635--1404660	11	2.4	11	100	0	52	57	0	7	34	1.27
1405124--1405169	7	6.6	7	82	0	56	32	2	0	65	1.05
1405124--1405169	14	3.3	14	93	0	83	32	2	0	65	1.05
1406836--1406880	22	2.1	21	83	4	54	42	2	4	51	1.34
1410445--1410485	18	2.3	18	87	4	57	24	4	0	70	1.06
1416475--1416516	19	2.3	19	88	8	61	38	0	21	40	1.53
1422059--1422093	13	2.7	13	95	0	61	17	2	25	54	1.57
1423519--1423557	18	2.2	18	86	13	55	69	0	12	17	1.19
1423530--1423596	28	2.4	28	87	7	93	65	0	19	14	1.27
1423530--1423594	18	3.6	18	75	10	60	64	0	20	15	1.29
1423672--1423724	18	2.8	19	83	11	74	81	5	0	13	0.86
1423672--1423730	20	3.0	20	87	2	75	79	5	1	13	0.97
1423676--1423730	10	5.9	9	77	14	58	80	3	1	14	0.94
1425435--1425476	19	2.2	20	86	4	59	21	9	11	57	1.63
1426631--1426684	24	2.2	24	80	0	63	57	9	7	25	1.56
1427914--1427973	30	1.9	30	87	12	86	53	3	15	28	1.57
1428014--1428169	60	2.6	60	84	2	197	35	23	4	36	1.75
1428201--1428384	60	3.1	59	74	9	165	42	3	20	33	1.68
1430475--1430535	30	2.0	30	100	0	122	29	16	31	22	1.96
1436101--1436166	24	2.8	24	75	13	73	13	19	12	54	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1436835--1436864	15	2.0	15	93	0	51	70	0	10	20	1.16
1436908--1436947	13	3.1	13	100	0	80	22	25	15	37	1.93
1438626--1438665	2	20.0	2	100	0	80	50	0	0	50	1.00
1445944--1445982	13	3.0	13	84	0	60	58	0	5	35	1.20
1446672--1446743	36	2.0	36	86	7	103	41	34	12	11	1.78
1447052--1447131	29	2.7	29	84	3	97	47	5	3	43	1.43
1448188--1448439	126	2.0	127	99	0	497	45	19	12	22	1.83
1448984--1449011	2	14.0	2	100	0	56	50	0	0	50	1.00
1454241--1454289	23	2.2	23	85	3	64	38	2	12	46	1.53
1456201--1456250	18	2.8	18	96	0	91	16	20	34	30	1.94
1458110--1458148	6	6.5	6	93	0	60	46	0	48	5	1.24
1462961--1463030	18	3.9	18	86	0	104	17	20	32	30	1.95
1473787--1473987	111	1.8	111	83	4	271	30	2	12	53	1.52
1474107--1474322	117	1.8	119	83	7	289	31	4	11	52	1.57
1476854--1476883	14	2.1	15	93	6	53	26	16	0	56	1.40
1476420--1477320	300	3.0	295	90	5	1339	36	14	5	42	1.71
1477288--1477335	23	2.1	23	96	0	87	35	6	4	54	1.45
1482100--1482201	17	5.9	17	81	6	125	39	13	9	37	1.78
1482104--1482201	34	2.8	35	89	6	155	40	13	9	36	1.76
1483076--1483159	40	2.2	39	91	4	134	48	15	2	33	1.58
1484009--1484042	15	2.3	15	94	0	59	47	17	0	35	1.48
1484243--1484383	72	2.0	72	89	0	219	45	9	16	29	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1485433--1485463	5	6.2	5	100	0	62	0	19	58	22	1.40
1487080--1487104	2	12.5	2	100	0	50	52	0	0	48	1.00
1488313--1488354	2	21.0	2	100	0	84	50	0	0	50	1.00
1495544--1495608	22	3.0	22	83	0	85	27	24	21	26	1.99
1498496--1498542	21	2.4	19	80	16	51	42	0	6	51	1.27
1510724--1510985	118	2.2	116	79	3	283	30	19	11	38	1.87
1510640--1510981	59	5.8	58	68	12	146	29	21	11	37	1.89
1511354--1511386	15	2.2	15	94	0	57	78	0	6	15	0.93
1512726--1512758	16	2.1	16	100	0	66	69	0	0	30	0.88
1512819--1512907	32	2.7	31	86	10	115	39	7	4	48	1.53

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