genome.fa.s8290.2.7.7.80.10.50.1000.6.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: VEPZ01008290.1 Hibiscus syriacus cultivar Beakdansim tig00110954_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1890093

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 972 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)
1311337--1311383	22	2.1	22	88	7	69	44	0	0	55	0.99
1313188--1313228	17	2.4	17	84	11	57	43	4	0	51	1.23
1315983--1316087	21	5.0	21	81	4	86	40	20	36	1	1.64
1316487--1316749	43	6.2	43	79	5	230	33	23	14	28	1.94
1318175--1318201	2	13.5	2	100	0	54	48	0	0	51	1.00
1318449--1318481	2	17.0	2	93	6	59	51	0	0	48	1.00
1324387--1324571	88	2.1	88	96	0	352	32	15	23	29	1.95
1326767--1326847	32	2.6	32	86	2	101	25	11	20	41	1.86
1326788--1326850	32	2.0	32	93	0	108	26	11	20	41	1.86
1330687--1330740	19	2.8	19	78	13	65	38	11	16	33	1.84
1356798--1356837	18	2.2	18	86	4	53	60	0	0	40	0.97
1359693--1359729	9	4.1	9	85	0	56	10	18	21	48	1.78
1360141--1360189	22	2.2	23	88	3	73	55	2	10	32	1.45
1361511--1361577	31	2.2	31	86	5	91	29	8	11	49	1.70
1361709--1361780	32	2.2	32	81	11	85	63	1	2	31	1.17
1361741--1361802	27	2.4	27	84	10	78	59	0	3	37	1.13
1372452--1372597	64	2.3	64	85	5	188	32	21	17	29	1.96
1373271--1373334	30	2.1	30	85	0	83	18	18	28	34	1.95
1376285--1376329	21	2.1	22	84	12	58	53	2	0	44	1.13
1376646--1376803	21	7.8	20	70	7	77	37	24	17	19	1.93
1376771--1377081	20	15.5	20	81	6	79	34	26	19	20	1.96
1376771--1377160	40	9.7	40	87	2	439	35	25	18	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1376809--1377160	20	17.6	19	85	5	398	34	25	18	21	1.96
1377386--1377412	14	1.9	14	100	0	54	29	7	29	33	1.85
1377451--1377475	12	2.1	12	100	0	50	72	0	28	0	0.86
1379749--1380022	19	15.4	19	81	15	345	46	17	21	14	1.83
1379816--1379963	13	11.6	13	64	19	53	46	15	22	15	1.83
1379777--1380044	109	2.5	105	91	6	450	46	16	22	14	1.84
1379777--1380044	52	5.0	52	92	4	446	46	16	22	14	1.84
1379749--1380044	71	4.2	70	79	10	331	46	17	21	14	1.84
1380051--1380132	19	4.6	18	78	18	100	14	24	18	42	1.87
1380238--1380272	14	2.6	14	95	4	63	42	22	0	34	1.54
1382218--1382274	14	3.7	14	77	20	60	45	22	21	10	1.82
1382199--1382291	33	2.8	33	95	0	168	47	21	20	10	1.80
1382162--1382296	19	7.6	19	76	16	128	45	23	19	11	1.82
1382292--1382420	19	7.3	19	75	17	125	8	17	28	45	1.77
1382292--1382383	33	2.8	33	93	3	150	7	18	28	45	1.76
1382464--1382839	181	2.0	186	96	2	708	46	18	12	22	1.83
1384545--1384667	14	7.7	14	74	24	102	41	23	26	8	1.83
1384537--1384686	33	4.5	33	96	0	264	43	22	25	9	1.82
1384544--1384708	19	9.8	18	75	21	137	43	22	24	9	1.83
1384537--1384708	52	3.4	52	75	18	182	43	21	25	9	1.83
1384720--1384776	14	3.7	14	75	20	60	8	24	22	43	1.81
1384704--1384784	33	2.5	33	95	0	144	8	22	22	46	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1384761--1384836	21	3.7	21	83	3	109	11	25	17	46	1.82
1384760--1384837	41	1.9	41	97	0	147	12	25	16	44	1.83
1384916--1384986	33	2.2	33	92	0	115	47	18	22	11	1.80
1385167--1385221	22	2.5	22	81	0	74	20	16	40	23	1.91
1385367--1385559	20	9.6	20	82	5	219	19	19	25	35	1.95
1385367--1385559	60	3.2	60	83	0	251	19	19	25	35	1.95
1388727--1388769	15	2.9	15	85	0	59	41	16	37	4	1.69
1391194--1391220	14	1.9	14	100	0	54	29	3	7	59	1.42
1394468--1394904	83	5.3	82	77	9	424	30	16	16	35	1.92
1394466--1394904	165	2.7	163	82	6	519	30	16	16	35	1.92
1395808--1395880	18	3.9	18	82	7	101	27	30	21	20	1.98
1395807--1395900	38	2.5	38	85	3	127	25	28	21	24	1.99
1395807--1395903	18	5.1	20	75	15	89	25	27	21	24	1.99
1396297--1396336	21	1.9	21	89	0	62	40	12	0	47	1.41
1402613--1402662	23	2.2	23	100	0	100	30	20	24	26	1.98
1404434--1404494	22	2.8	22	79	0	68	26	22	22	27	1.99
1404926--1404961	14	2.6	14	100	0	72	52	0	19	27	1.46
1405268--1405292	7	3.6	7	100	0	50	56	0	16	28	1.41
1405244--1405325	35	2.4	35	75	18	84	47	1	18	32	1.56
1406770--1406804	2	17.5	2	100	0	70	48	0	0	51	1.00
1411935--1411966	2	15.5	2	93	6	55	50	0	3	46	1.17
1414896--1414928	16	2.1	16	94	0	57	24	15	27	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1417433--1417476	22	2.0	22	82	8	54	43	6	22	27	1.78
1417708--1417741	16	2.1	17	88	5	52	29	0	17	52	1.45
1418047--1418134	31	2.9	31	86	1	115	28	18	18	35	1.94
1423906--1423950	16	2.6	17	89	6	65	73	0	8	17	1.08
1424041--1424100	13	4.8	13	76	17	56	71	0	1	26	0.95
1424038--1424082	22	2.0	22	83	8	56	73	0	2	24	0.95
1424043--1424150	26	4.1	26	66	25	66	67	1	3	26	1.17
1424225--1424251	2	13.5	2	100	0	54	51	0	0	48	1.00
1424307--1424449	8	16.9	8	72	18	53	62	1	2	33	1.15
1424413--1424445	2	17.0	2	93	6	59	51	0	0	48	1.00
1424840--1424932	37	2.5	37	85	0	114	31	12	13	41	1.83
1430494--1430618	64	1.9	65	87	7	184	28	23	19	28	1.98
1430692--1430716	13	1.9	13	100	0	50	32	8	8	52	1.60
1431286--1431343	28	2.0	28	83	9	73	18	3	22	55	1.58
1432049--1432168	45	2.6	45	84	6	154	28	21	18	31	1.97
1438705--1438753	2	24.5	2	95	0	89	48	2	0	48	1.12
1440589--1440715	63	2.0	65	92	4	213	51	1	0	46	1.16
1441922--1442606	112	6.1	112	92	1	1099	45	14	15	24	1.82
1441922--1442606	223	3.1	222	92	1	1086	45	14	15	24	1.82
1441922--1442606	335	2.0	335	92	1	1124	45	14	15	24	1.82
1442483--1442925	182	2.4	181	89	3	649	44	13	13	28	1.82
1443479--1443526	23	2.1	23	92	0	78	37	18	8	35	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1447941--1447978	15	2.5	15	91	0	58	39	21	39	0	1.53
1448483--1448557	29	2.5	30	86	4	125	20	37	29	13	1.90
1448752--1448834	42	2.0	42	97	0	157	15	20	42	21	1.89
1448863--1448941	29	2.7	28	90	3	113	22	25	31	20	1.98
1449356--1449408	28	1.9	27	88	3	79	32	1	16	49	1.57
1449355--1449419	27	2.3	29	82	10	82	36	1	15	46	1.55
1449535--1449589	18	3.4	18	65	31	52	38	0	9	52	1.33
1449617--1449656	21	1.9	21	100	0	80	27	0	15	57	1.38
1449852--1449936	30	2.9	30	91	8	131	41	1	9	48	1.43
1449834--1449936	30	3.4	29	85	11	129	39	0	10	48	1.44
1449884--1449933	15	3.3	15	72	10	57	42	0	12	46	1.41
1452253--1452345	14	6.6	14	75	14	84	47	13	0	38	1.44
1452252--1452345	25	4.0	25	71	17	92	46	13	0	39	1.44
1452272--1452552	60	5.3	49	79	18	300	46	12	0	40	1.44
1452268--1452830	109	5.1	108	84	10	680	46	12	0	40	1.44
1452427--1452732	60	5.1	60	83	9	419	46	13	0	40	1.45
1452318--1452883	169	3.4	168	86	8	813	46	12	0	40	1.45
1452546--1452661	49	2.3	49	95	1	205	46	12	0	41	1.41
1452596--1452732	71	1.9	70	97	1	256	45	13	0	40	1.49
1452591--1452743	49	3.1	49	78	11	111	44	14	0	40	1.50
1452566--1452892	98	3.2	97	71	25	290	46	11	0	40	1.43
1452645--1452683	11	3.6	11	96	3	71	43	17	0	38	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1452666--1452879	49	4.3	49	95	0	374	46	12	0	41	1.45
1452596--1452753	71	2.2	69	88	8	212	46	13	0	39	1.48
1455950--1456003	28	1.9	28	96	0	99	57	12	0	29	1.36
1455946--1456010	28	2.3	28	84	10	96	55	10	0	33	1.35
1455980--1456028	21	2.3	21	85	3	71	53	16	0	30	1.43
1456677--1456803	29	4.2	29	76	7	101	18	25	32	24	1.97
1467003--1467053	20	2.5	20	81	15	59	43	1	1	52	1.23
1467005--1467043	20	2.0	19	90	5	60	46	0	2	51	1.14
1467005--1467043	19	2.0	20	85	14	55	46	0	2	51	1.14
1479523--1479575	20	2.7	20	74	11	63	28	33	15	22	1.94

Tables:   1   2   3   4   5   6   7   8   9