genome.fa.s1448.2.7.7.80.10.50.1000.6.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: VEPZ01001448.1 Hibiscus syriacus cultivar Beakdansim tig00002799_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1849635

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 993 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)
1265579--1265660	40	2.0	40	100	0	164	35	14	19	30	1.92
1274608--1274647	21	1.9	21	89	0	62	50	0	0	50	1.00
1278513--1278565	21	2.5	21	100	0	106	30	28	18	22	1.98
1288108--1288158	20	2.5	20	74	0	57	21	39	31	7	1.82
1288314--1288368	22	2.5	22	75	0	56	29	3	23	43	1.71
1292469--1292600	47	2.9	45	88	5	194	32	22	7	37	1.83
1292709--1292837	59	2.2	59	88	0	186	28	25	17	27	1.98
1298475--1298507	17	2.1	17	88	11	52	33	0	0	66	0.92
1299556--1299796	59	4.1	59	75	10	168	58	8	11	21	1.59
1299544--1299796	89	2.8	89	74	7	210	58	8	11	21	1.60
1299438--1299798	30	12.1	30	75	5	212	57	8	13	20	1.62
1299950--1300039	43	2.1	43	97	0	171	41	18	13	26	1.88
1301504--1301861	47	7.9	47	80	9	388	27	16	23	31	1.96
1301549--1301989	175	2.5	175	91	1	697	27	16	24	31	1.97
1301456--1301861	222	1.8	222	95	1	733	27	16	24	31	1.97
1301898--1301989	47	2.0	46	86	2	130	29	18	23	28	1.98
1301978--1302389	123	3.3	123	89	1	637	25	16	27	29	1.97
1304128--1304172	23	2.0	23	95	0	81	22	40	8	28	1.84
1307681--1307807	63	2.0	63	84	0	164	44	13	19	22	1.86
1308892--1308931	16	2.3	18	83	12	57	60	5	7	27	1.45
1309590--1309885	30	9.9	30	75	8	183	56	10	12	20	1.65
1309590--1309836	59	4.2	58	75	11	162	55	11	12	20	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1310603--1310634	10	3.2	10	95	0	55	9	6	0	84	0.78
1311558--1311592	14	2.5	14	90	0	61	11	45	25	17	1.81
1314993--1315142	75	2.0	75	100	0	300	42	13	18	25	1.87
1315325--1315403	34	2.3	33	81	14	90	59	16	2	21	1.49
1317722--1317754	16	1.9	18	88	11	52	60	3	0	36	1.12
1320147--1320190	14	3.2	14	78	18	56	47	4	0	47	1.22
1322605--1322661	29	2.0	29	85	0	78	42	7	5	45	1.53
1322617--1322826	106	2.0	106	81	7	248	40	5	5	49	1.49
1322634--1322883	36	6.9	36	75	12	165	41	6	4	47	1.49
1322872--1322912	2	21.0	2	90	5	66	46	0	2	51	1.14
1323545--1324506	84	11.6	82	80	6	987	24	20	24	29	1.99
1323560--1324506	249	3.8	249	93	1	1533	24	21	24	29	1.99
1326103--1326290	94	2.0	94	98	0	367	26	9	27	37	1.87
1327986--1328031	19	2.4	19	100	0	92	67	10	10	10	1.43
1331279--1331342	29	2.2	29	85	0	83	42	6	4	46	1.49
1331306--1331562	36	7.2	36	71	18	146	41	5	5	48	1.48
1331298--1331490	107	1.8	108	82	6	250	41	5	4	48	1.48
1331298--1331507	106	2.0	106	80	7	239	39	5	5	49	1.49
1333171--1333262	32	2.9	32	85	0	121	40	8	2	48	1.46
1340282--1340386	21	5.0	21	89	0	138	28	23	20	26	1.99
1340284--1340386	42	2.5	42	90	0	152	29	24	20	26	1.99
1340407--1340490	21	4.0	21	92	0	123	27	19	21	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1341234--1341296	24	2.7	24	80	2	65	33	22	23	20	1.97
1347280--1347340	18	3.3	18	88	9	88	26	18	34	21	1.96
1354080--1354140	22	2.7	23	84	5	79	22	36	24	16	1.94
1354093--1354160	21	3.2	21	84	10	84	22	35	25	17	1.95
1356027--1356092	16	4.1	16	75	14	64	22	1	24	51	1.57
1356345--1356429	42	2.0	42	97	0	161	35	0	38	25	1.56
1356337--1356422	25	3.8	25	68	23	71	36	0	37	26	1.57
1356360--1356427	20	3.3	20	67	28	61	35	0	42	22	1.54
1360494--1360527	18	1.9	17	94	5	59	32	0	8	58	1.29
1364726--1364912	101	1.9	101	87	2	277	36	13	14	34	1.86
1366001--1366135	38	3.5	38	88	4	200	29	11	25	32	1.92
1367773--1367944	37	4.6	37	83	1	209	41	17	16	25	1.89
1367895--1367988	48	1.9	49	89	2	145	40	20	13	25	1.89
1367944--1368023	36	2.2	37	84	6	101	41	18	15	25	1.89
1368025--1369590	55	28.6	55	77	6	1205	31	18	21	28	1.97
1368615--1368804	99	1.9	99	91	0	308	30	17	22	30	1.97
1368564--1368854	155	1.9	155	84	2	388	30	18	21	29	1.97
1368774--1369514	221	3.4	223	76	5	517	31	18	19	30	1.96
1369781--1369823	13	3.1	14	83	10	52	37	0	2	60	1.10
1370588--1370634	24	2.0	24	86	0	67	48	27	4	19	1.67
1383480--1383518	18	2.2	18	85	0	51	46	35	5	12	1.65
1383824--1383875	22	2.4	21	84	9	68	84	3	3	7	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1383833--1383874	13	3.2	13	86	0	57	88	2	4	4	0.71
1394526--1394709	92	2.0	92	100	0	368	27	16	11	44	1.82
1396563--1396603	19	2.2	19	86	0	55	43	2	0	53	1.13
1396656--1396690	17	2.1	16	94	5	61	42	2	5	48	1.41
1396656--1396690	16	2.1	17	89	5	54	42	2	5	48	1.41
1397923--1397979	24	2.4	24	100	0	114	19	15	10	54	1.70
1398748--1398780	14	2.4	14	94	0	57	30	0	24	45	1.53
1402811--1402841	14	2.2	14	94	0	53	48	0	25	25	1.52
1410974--1411044	34	2.0	37	86	13	105	8	15	1	74	1.12
1413114--1413176	25	2.4	26	86	7	92	33	3	6	57	1.40
1413600--1413633	16	2.1	17	88	5	52	17	35	11	35	1.87
1417399--1417465	31	2.2	31	94	0	116	32	14	29	22	1.94
1420424--1420606	62	3.0	62	88	4	248	45	6	15	32	1.71
1421033--1421064	15	2.1	15	94	0	55	31	6	28	34	1.82
1425966--1426022	28	2.0	28	100	0	114	43	7	10	38	1.66
1426877--1426961	34	2.5	34	96	0	152	15	24	24	35	1.94
1426990--1427046	22	2.6	22	97	0	105	24	22	38	14	1.91
1427050--1427093	23	1.9	23	100	0	88	9	25	40	25	1.84
1427047--1427100	23	2.4	22	84	9	81	11	24	42	22	1.85
1427551--1427909	172	2.1	173	90	1	560	39	5	18	37	1.72
1429634--1429664	6	5.2	6	100	0	62	16	0	64	19	1.29
1430118--1430256	42	3.4	42	86	6	173	49	5	4	41	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1430164--1430606	14	32.5	14	70	15	222	50	5	3	40	1.44
1430164--1430585	8	56.8	8	69	20	222	50	6	3	40	1.45
1430195--1430569	37	10.0	37	86	8	510	50	6	3	40	1.45
1430228--1430280	15	3.5	15	75	14	63	49	3	5	41	1.44
1430366--1430599	74	3.4	68	82	13	259	50	5	3	39	1.45
1430434--1430606	23	6.7	27	72	18	109	50	5	3	40	1.41
1430529--1430621	14	6.6	14	67	23	52	52	2	3	41	1.29
1433970--1434003	18	1.9	17	94	5	59	26	35	14	23	1.94
1434269--1434488	110	2.0	110	95	1	397	28	28	24	19	1.98
1434523--1434610	43	2.0	43	100	0	176	51	23	11	13	1.74
1435955--1435995	16	2.6	16	88	3	57	34	21	7	36	1.82
1436368--1436398	16	1.9	16	93	0	53	77	3	6	12	1.08
1438189--1438233	21	2.2	20	88	4	63	66	0	2	31	1.04
1439250--1439282	14	2.4	14	94	0	57	33	6	30	30	1.82
1439741--1439781	21	2.0	21	95	0	73	48	17	19	14	1.81
1440242--1440291	17	3.1	17	71	11	59	42	0	4	54	1.19
1440237--1440300	32	2.0	32	96	0	119	43	1	3	51	1.26
1440237--1440285	15	3.1	15	72	11	53	46	0	4	48	1.20
1445390--1445416	13	2.1	13	100	0	54	40	7	22	29	1.81
1446746--1446841	23	4.5	21	82	12	99	26	25	16	32	1.96
1468207--1468244	19	2.0	19	89	0	58	57	0	0	42	0.98
1469421--1469644	96	2.4	92	80	13	257	51	9	4	34	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1469474--1469658	96	1.9	98	85	8	263	50	11	4	32	1.59
1469460--1469991	207	2.6	206	77	9	496	53	11	2	31	1.51
1469459--1470005	102	5.3	100	74	12	394	53	11	2	31	1.51
1470172--1470222	25	2.0	25	88	0	75	33	21	15	29	1.94
1470554--1470756	107	1.9	107	83	5	259	45	5	11	36	1.65
1475612--1475672	29	2.2	28	82	11	72	50	16	11	21	1.76
1477656--1477775	22	5.3	22	74	11	100	36	8	2	52	1.45
1477656--1477713	8	7.8	8	77	11	61	34	10	1	53	1.45
1477656--1477781	44	2.7	46	73	15	118	35	8	3	52	1.48
1477889--1478060	23	7.3	23	69	19	97	37	8	2	52	1.44

Tables:   1   2   3   4   5   6   7   8   9