genome.fa.s7838.2.7.7.80.10.50.1000.6.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: VEPZ01007838.1 Hibiscus syriacus cultivar Beakdansim tig00110187_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3429202

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

This is table  6  of  13  ( 1485 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)
1280579--1280908	165	2.0	165	92	0	552	22	18	17	41	1.90
1281460--1281499	19	2.0	20	85	4	55	5	17	5	72	1.21
1288407--1288458	4	12.0	4	82	15	52	69	1	5	23	1.20
1291775--1291807	3	11.0	3	87	12	50	66	3	0	30	1.06
1292221--1292316	37	2.6	37	83	0	120	32	12	15	39	1.85
1293476--1293571	37	2.6	37	91	0	156	35	13	13	37	1.84
1294298--1294327	3	10.0	3	100	0	60	66	0	0	33	0.92
1294749--1294834	37	2.3	37	89	0	127	38	11	11	38	1.78
1294747--1294842	37	2.6	37	83	3	122	39	11	12	36	1.79
1295562--1295594	3	11.0	3	100	0	66	66	0	0	33	0.92
1296028--1296124	37	2.6	37	90	0	149	32	14	16	36	1.89
1296851--1296892	3	14.0	3	90	9	68	64	0	0	35	0.94
1297320--1297452	37	3.6	37	96	0	248	33	13	15	36	1.87
1298631--1298726	37	2.6	36	83	3	120	35	13	12	38	1.83
1299458--1299484	3	9.0	3	100	0	54	66	0	0	33	0.92
1299905--1299989	37	2.3	37	87	0	116	32	12	12	41	1.82
1300170--1300200	13	2.4	13	94	0	53	6	9	0	83	0.79
1300293--1300324	15	2.0	17	88	11	50	46	6	15	31	1.71
1313947--1314514	214	2.6	213	86	8	708	29	11	17	41	1.84
1317051--1317083	2	16.5	2	93	0	57	45	0	3	51	1.16
1318273--1318312	9	4.4	9	84	12	55	37	0	0	62	0.95
1318362--1318582	73	3.0	73	92	0	352	31	24	14	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1323678--1323707	4	7.5	4	100	0	60	23	0	0	76	0.78
1324311--1324769	231	2.0	231	98	0	891	26	15	19	37	1.92
1325074--1325159	43	2.0	42	86	2	118	52	1	3	43	1.26
1333651--1333681	8	3.9	8	100	0	62	22	12	25	38	1.90
1334389--1334718	165	2.0	165	93	0	570	21	19	16	42	1.89
1335196--1335323	64	2.0	64	96	0	238	46	10	17	25	1.80
1339705--1339811	42	2.5	43	85	8	148	49	0	1	47	1.18
1341450--1341483	17	2.0	17	88	11	52	58	0	0	41	0.98
1341598--1341623	6	4.3	6	100	0	52	65	0	0	34	0.93
1347274--1347313	17	2.2	19	86	13	57	62	0	7	30	1.23
1347284--1347321	20	2.0	20	85	10	53	65	0	7	26	1.19
1350266--1350308	23	1.9	23	85	4	61	37	11	2	48	1.52
1355744--1355787	20	2.3	19	81	11	54	34	4	0	61	1.16
1356756--1356807	26	2.0	26	85	14	72	48	3	9	38	1.54
1358761--1358998	89	2.7	89	92	1	388	27	25	24	22	2.00
1364894--1364926	15	2.2	15	94	0	57	21	36	21	21	1.95
1372804--1372890	35	2.5	34	80	12	97	55	10	8	26	1.61
1374557--1374600	16	2.9	15	81	18	63	52	4	0	43	1.22
1374557--1374618	31	2.0	31	84	12	83	50	6	1	41	1.38
1375251--1375279	13	2.1	14	93	6	51	58	17	20	3	1.53
1384523--1384570	13	3.8	13	78	10	55	81	2	0	16	0.79
1385826--1386102	36	7.7	36	95	1	450	19	25	24	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1385800--1386108	72	4.3	72	90	3	455	21	24	23	30	1.99
1385800--1386108	108	2.9	108	89	3	462	21	24	23	30	1.99
1387568--1387633	21	3.2	20	79	8	78	60	21	1	16	1.43
1390175--1390227	21	2.5	21	81	0	70	22	24	16	35	1.95
1390217--1390302	20	4.3	20	96	0	154	39	20	19	19	1.93
1390296--1390382	20	4.3	20	95	0	147	29	26	19	24	1.98
1390236--1390364	40	3.2	40	82	6	120	34	24	20	21	1.97
1391224--1391277	24	2.2	24	93	0	90	20	18	20	40	1.91
1393713--1393781	20	3.5	19	81	15	86	39	24	18	17	1.92
1393694--1393837	33	4.1	34	79	15	141	40	21	22	15	1.90
1393773--1393826	14	3.5	14	73	22	54	44	20	24	11	1.83
1393753--1393848	33	2.9	34	90	3	149	43	19	22	13	1.86
1393863--1393958	33	2.9	34	84	3	122	13	22	18	44	1.85
1394064--1394100	14	2.6	14	86	0	56	48	21	0	29	1.50
1395504--1395596	42	2.2	42	80	3	107	22	16	39	21	1.92
1396076--1396164	20	4.4	20	89	0	124	37	23	20	19	1.94
1396209--1396365	20	8.5	20	76	18	135	17	19	21	41	1.90
1396188--1396342	34	4.4	34	74	13	152	16	20	21	42	1.89
1398230--1398296	20	3.3	20	89	0	89	43	23	16	16	1.87
1398472--1398566	20	4.8	20	94	0	172	21	18	20	40	1.92
1398869--1398898	15	2.0	15	100	0	60	40	6	6	46	1.56
1412288--1412369	29	2.8	29	94	1	137	32	14	9	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1414333--1414664	167	2.0	166	95	3	607	33	22	25	19	1.97
1417093--1417174	29	2.8	29	94	1	137	32	14	9	42	1.79
1420073--1420137	20	3.2	20	95	0	112	33	13	32	20	1.91
1421603--1421664	23	2.7	23	84	0	79	51	19	4	24	1.66
1423217--1423246	2	15.0	2	92	0	51	46	0	0	53	1.00
1426209--1426268	29	2.1	29	90	0	93	26	15	13	45	1.83
1426592--1426652	32	1.9	32	90	6	97	31	22	13	32	1.92
1435578--1435608	15	2.1	15	100	0	62	67	6	12	12	1.40
1436577--1437232	228	2.9	228	92	0	1026	15	23	31	29	1.95
1438650--1438719	13	5.2	13	72	19	54	50	1	2	45	1.25
1438665--1438710	15	3.1	15	73	14	51	52	0	0	47	1.00
1438650--1438732	42	2.0	43	85	2	114	46	2	3	46	1.33
1439400--1439439	17	2.4	17	87	8	55	37	5	0	57	1.21
1439464--1439512	25	2.0	25	91	0	80	42	6	0	51	1.27
1439464--1439518	25	2.3	24	84	6	76	47	5	0	47	1.25
1439860--1439905	2	23.0	2	100	0	92	50	0	0	50	1.00
1449458--1449534	34	2.3	34	100	0	154	24	32	24	18	1.97
1450301--1450353	20	2.7	20	96	0	97	24	24	16	33	1.96
1450341--1450414	21	3.5	21	92	3	114	21	25	16	36	1.94
1450404--1450455	21	2.5	20	81	3	59	40	17	21	21	1.91
1450444--1450558	20	5.7	20	78	6	88	33	25	17	24	1.96
1450441--1450578	41	3.4	41	77	9	156	35	23	16	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1450745--1450788	22	2.0	22	90	0	70	22	40	13	22	1.89
1451101--1451205	20	5.7	20	72	20	102	45	19	21	13	1.84
1451101--1451205	33	2.9	37	84	9	119	45	19	21	13	1.84
1451218--1451254	19	1.9	19	94	0	65	10	24	18	45	1.81
1453127--1453436	154	2.0	154	100	0	620	27	19	20	32	1.96
1453519--1453585	21	3.2	21	66	6	55	23	35	20	19	1.95
1453467--1453585	42	2.8	42	80	7	116	22	35	18	23	1.96
1455072--1455111	18	2.2	18	86	0	53	37	32	17	12	1.87
1455113--1455238	33	3.8	33	94	1	207	13	22	18	46	1.84
1455147--1455238	19	5.4	19	71	24	96	14	21	18	45	1.84
1455133--1455220	14	5.6	14	69	23	50	12	23	19	44	1.85
1456059--1456158	50	2.0	50	100	0	200	30	14	14	42	1.84
1457727--1457780	24	2.2	24	90	0	81	38	20	16	24	1.92
1458534--1458656	33	3.7	33	85	1	147	46	16	22	14	1.83
1459105--1459161	19	2.9	20	92	5	98	36	24	22	15	1.94
1459199--1459244	19	2.4	19	100	0	92	15	19	17	47	1.82
1459371--1459404	14	2.4	14	90	0	50	47	20	0	32	1.51
1461253--1461320	20	3.5	19	78	6	73	39	23	22	14	1.91
1461309--1461366	14	3.9	14	79	16	71	48	24	17	10	1.78
1461293--1461371	32	2.4	33	95	2	142	46	22	18	11	1.81
1461456--1461498	20	2.2	20	87	4	61	11	20	25	41	1.86
1461937--1461981	18	2.5	18	88	0	72	13	15	44	26	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1463388--1463446	20	3.0	20	87	0	73	42	22	18	16	1.89
1463708--1463751	22	2.0	22	90	0	70	25	15	38	20	1.92
1463907--1463959	21	2.5	20	85	8	79	33	16	26	22	1.96
1466029--1466089	2	30.5	2	100	0	122	49	0	0	50	1.00
1466231--1466586	180	2.0	180	89	2	554	32	11	15	40	1.83
1480754--1480787	18	1.9	18	88	5	52	50	2	0	47	1.16
1480755--1480805	27	1.9	26	84	4	66	52	3	0	43	1.19
1480880--1480914	15	2.3	15	90	0	52	37	5	0	57	1.23
1481123--1481173	20	2.7	19	75	19	54	54	0	5	39	1.24
1485994--1486037	23	1.9	23	100	0	88	27	9	20	43	1.82

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