genome.fa.s8213.2.7.7.80.10.50.1000.6.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: VEPZ01008213.1 Hibiscus syriacus cultivar Beakdansim tig00110839_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2348840

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 1057 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)
1299318--1302284	200	14.8	200	92	0	4821	43	14	14	27	1.84
1302066--1302548	264	1.8	264	93	1	835	46	14	13	26	1.81
1302331--1303124	200	4.1	199	85	7	1076	44	13	13	28	1.81
1302692--1303124	197	2.2	200	90	2	694	43	14	13	28	1.83
1306053--1306109	23	2.4	23	73	2	60	38	14	8	38	1.77
1306082--1306228	64	2.3	64	91	2	233	32	12	8	45	1.73
1306200--1306251	23	2.3	23	86	0	68	32	19	7	40	1.80
1306311--1306355	16	2.8	16	93	0	72	24	28	8	37	1.86
1312776--1312813	17	2.2	17	95	0	67	10	26	44	18	1.82
1312770--1312819	22	2.2	23	92	7	84	14	26	42	18	1.87
1322640--1323247	303	2.0	303	100	0	1216	30	19	14	35	1.91
1337841--1338519	337	2.0	336	93	0	1151	31	11	18	38	1.86
1341521--1341619	28	3.5	28	100	0	198	18	14	39	28	1.89
1341935--1341982	16	3.0	16	100	0	96	43	31	12	12	1.80
1343303--1343656	176	2.0	176	100	0	708	22	16	22	38	1.93
1360871--1360916	24	1.9	24	100	0	92	30	13	15	41	1.85
1372006--1372076	3	23.7	3	80	8	65	2	22	0	74	0.94
1372017--1372101	6	13.8	6	78	14	84	2	17	0	80	0.83
1372006--1372090	31	2.7	32	85	9	120	2	20	0	77	0.88
1372005--1372087	27	3.2	26	86	9	109	2	20	0	77	0.89
1372072--1372103	11	2.9	11	95	0	55	6	9	0	84	0.78
1381028--1381117	13	6.9	13	83	0	108	26	21	17	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1381028--1381117	26	3.5	26	84	6	119	26	21	17	34	1.95
1381028--1381117	39	2.3	39	88	0	126	26	21	17	34	1.95
1385199--1385264	24	2.8	24	95	0	114	34	28	22	13	1.92
1385317--1385496	29	6.2	29	79	2	166	38	17	23	20	1.93
1386030--1386076	6	7.5	6	86	9	67	48	19	14	17	1.81
1398147--1398183	14	2.7	13	88	12	56	67	0	2	29	1.04
1398510--1398562	2	26.5	2	96	0	97	47	0	1	50	1.12
1400576--1400624	16	3.1	16	93	0	80	22	22	12	42	1.86
1400806--1400832	13	2.1	13	100	0	54	55	0	0	44	0.99
1401366--1401410	19	2.3	20	96	3	83	22	37	0	40	1.54
1401519--1401548	2	15.0	2	100	0	60	50	0	0	50	1.00
1401984--1402010	2	13.5	2	100	0	54	48	0	0	51	1.00
1402120--1402182	19	3.2	19	90	4	99	38	1	34	25	1.66
1402131--1402193	19	3.2	20	86	4	67	41	1	30	26	1.65
1402416--1402551	7	19.4	7	75	3	112	47	33	0	19	1.50
1402416--1402551	42	3.2	42	82	6	152	47	33	0	19	1.50
1402541--1402592	20	2.7	20	79	5	54	46	11	7	34	1.69
1402574--1402606	12	2.8	12	90	4	50	48	9	0	42	1.35
1402724--1402873	79	1.9	79	83	0	192	41	5	4	48	1.46
1402846--1403078	13	17.3	13	67	17	102	42	3	6	47	1.46
1402847--1402919	28	2.7	26	85	8	83	42	6	6	43	1.58
1402858--1402926	28	2.6	25	78	17	75	43	7	5	43	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1402909--1403063	18	8.2	18	71	19	111	43	2	6	47	1.42
1402866--1403059	98	2.0	98	93	0	334	42	4	6	46	1.47
1405158--1405232	39	1.9	39	94	0	132	25	25	21	28	1.99
1406081--1406136	25	2.2	25	90	0	85	57	5	7	30	1.48
1406149--1406262	38	3.0	38	97	0	219	30	13	19	36	1.90
1406438--1406524	38	2.3	38	88	4	122	25	9	25	40	1.85
1410316--1410478	27	5.7	27	70	12	110	43	5	14	36	1.68
1410325--1410488	90	1.8	90	87	0	247	42	4	15	37	1.66
1418088--1418170	21	3.9	21	88	3	94	22	31	27	18	1.97
1418109--1418170	21	3.0	21	95	0	106	20	32	29	17	1.96
1422499--1422546	24	2.0	24	91	0	78	56	18	6	18	1.62
1429114--1429145	12	2.7	12	100	0	64	25	50	9	15	1.74
1429988--1430027	14	2.9	14	88	0	62	37	25	22	15	1.93
1433405--1433492	45	1.9	46	90	2	142	29	19	25	26	1.98
1433471--1433574	45	2.3	45	100	0	208	29	18	19	32	1.95
1436126--1436417	146	2.0	146	100	0	584	32	16	26	23	1.96
1451301--1451369	35	2.0	35	88	5	104	33	14	20	31	1.92
1456965--1456998	17	2.0	17	100	0	68	29	29	11	29	1.92
1460709--1460748	20	2.0	21	95	5	73	17	15	30	37	1.90
1465891--1465924	2	17.0	2	100	0	68	50	0	0	50	1.00
1476376--1476535	29	5.6	29	87	5	202	48	15	3	32	1.63
1476376--1476535	57	2.8	58	88	5	227	48	15	3	32	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1476376--1476535	86	1.9	86	88	2	241	48	15	3	32	1.63
1482766--1482956	29	6.7	29	87	2	260	46	15	4	32	1.67
1484048--1484239	29	6.7	29	84	3	253	47	15	4	32	1.64
1485297--1485486	29	6.6	29	87	2	249	48	15	3	32	1.60
1489505--1489547	21	2.0	22	86	4	61	32	18	11	37	1.87
1491860--1491919	12	5.0	11	76	15	57	71	3	3	21	1.15
1491950--1492291	38	9.1	37	82	7	372	44	7	3	44	1.50
1504299--1504349	2	25.5	2	100	0	102	50	0	0	49	1.00
1505444--1505489	18	2.6	18	86	6	58	78	0	4	17	0.91
1505529--1505603	39	1.9	38	84	7	98	41	4	5	49	1.44
1505540--1505630	37	2.5	35	81	13	105	41	4	4	49	1.42
1505532--1505630	35	2.8	36	77	12	109	42	5	4	48	1.44
1505600--1505645	23	2.0	22	91	4	74	43	4	0	52	1.21
1519786--1519811	3	8.7	3	100	0	52	0	0	30	69	0.89
1524209--1524248	22	1.9	20	85	10	53	25	5	25	45	1.73
1524861--1525270	81	5.1	81	88	2	560	33	20	10	34	1.87
1528860--1529154	82	3.6	82	90	1	459	27	21	12	38	1.89
1529291--1529849	54	10.4	54	80	4	563	27	16	19	36	1.94
1530263--1530311	20	2.5	20	90	3	73	24	32	12	30	1.92
1534549--1534853	82	3.7	81	89	4	425	25	20	13	40	1.89
1534989--1535925	54	17.4	54	84	2	1125	26	17	20	35	1.94
1540456--1540937	81	6.1	81	83	5	617	31	21	10	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1540456--1540937	232	2.0	237	84	4	632	31	21	10	35	1.89
1544638--1544680	9	4.7	9	83	13	52	67	0	9	23	1.19
1559629--1559895	137	1.9	136	83	6	340	42	17	11	28	1.85
1560579--1560637	21	2.8	21	94	0	109	32	23	11	32	1.91
1566395--1566473	13	6.3	13	80	19	89	16	46	22	13	1.82
1566373--1566467	18	5.6	18	85	12	146	16	49	22	11	1.78
1566377--1566473	31	3.1	31	88	8	137	16	47	22	13	1.81
1568929--1569046	24	4.9	25	83	9	147	23	16	18	41	1.89
1568983--1569056	24	3.1	24	86	3	87	21	14	18	44	1.86
1571239--1571317	13	6.3	13	78	19	80	17	46	21	13	1.83
1571217--1571311	18	5.6	18	82	12	137	17	49	21	11	1.78
1571221--1571317	31	3.1	31	85	8	128	17	47	21	13	1.82
1571217--1571317	49	2.1	49	96	0	184	17	48	20	12	1.80
1573759--1573890	48	2.8	48	79	6	151	21	15	18	43	1.88
1573776--1573890	24	4.8	24	88	6	162	22	17	19	40	1.91
1573827--1573900	24	3.1	24	86	3	78	21	16	18	43	1.88
1573980--1574073	35	2.7	35	96	0	170	8	29	27	34	1.87
1574139--1574171	2	16.5	2	100	0	66	48	0	0	51	1.00
1574100--1574242	71	2.0	71	100	0	286	33	9	19	37	1.85
1574210--1574256	2	23.5	2	100	0	94	48	0	0	51	1.00
1575401--1575482	27	2.9	28	82	7	78	53	15	2	28	1.55
1575880--1576140	137	1.9	137	82	3	319	40	18	13	27	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1578210--1578247	17	2.1	19	85	9	53	18	0	2	78	0.86
1578257--1578375	39	3.1	39	81	6	127	36	14	0	47	1.50
1578432--1578486	18	2.8	19	82	15	67	34	0	1	63	1.05
1584081--1584126	9	4.9	9	84	7	56	82	0	2	15	0.76
1585354--1585439	24	3.8	21	74	16	82	68	2	0	29	1.02
1585437--1585610	42	4.4	38	79	15	176	47	8	1	43	1.43
1585469--1585610	37	3.7	35	77	18	115	45	8	1	44	1.42
1585594--1585624	2	15.5	2	100	0	62	48	0	0	51	1.00
1585437--1585614	79	2.2	77	84	8	216	47	7	1	43	1.42
1585514--1585697	88	2.1	88	80	13	209	46	8	2	43	1.45

Tables:   1   2   3   4   5   6   7   8   9