genome.fa.s8111.2.7.7.80.10.50.1000.7.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: VEPZ01008111.1 Hibiscus syriacus cultivar Beakdansim tig00110647_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1666726

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1021 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)
1237588--1237943	187	1.9	187	85	8	491	47	1	5	44	1.37
1246048--1246119	35	2.1	35	91	0	117	22	18	4	55	1.59
1251194--1251513	37	8.6	37	79	11	334	47	2	5	44	1.42
1251252--1251479	103	2.2	102	89	3	341	47	3	6	43	1.43
1251337--1251403	26	2.5	27	92	4	109	49	1	2	46	1.26
1251337--1251417	26	3.0	26	83	7	90	49	1	3	45	1.27
1252750--1252783	9	4.0	9	85	14	54	11	0	0	88	0.52
1252750--1252783	16	2.1	16	100	0	68	11	0	0	88	0.52
1252750--1252789	16	2.6	15	92	4	62	15	0	0	85	0.61
1264597--1264663	34	1.9	34	82	14	84	20	11	19	47	1.81
1265559--1265611	22	2.3	23	78	12	65	67	13	5	13	1.38
1273393--1273460	24	2.8	24	86	0	91	20	25	25	29	1.99
1273473--1273533	24	2.5	24	91	0	95	19	24	22	32	1.97
1276463--1276535	31	2.4	31	80	11	80	41	8	9	41	1.68
1276451--1276543	29	3.1	28	79	10	96	37	8	10	43	1.70
1277327--1277370	23	1.9	23	81	9	54	38	2	11	47	1.52
1280375--1280446	26	3.0	24	68	27	62	26	6	4	62	1.39
1282539--1282571	16	2.1	16	88	11	50	39	0	0	60	0.97
1282577--1282610	17	2.0	17	88	11	52	29	5	0	64	1.17
1282616--1282657	2	21.0	2	95	0	75	47	0	0	52	1.00
1282740--1282775	19	1.9	19	88	5	56	61	0	0	38	0.96
1282838--1282891	27	2.0	27	89	3	83	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1283369--1283416	23	2.1	23	84	7	62	27	2	0	70	0.98
1290029--1290248	114	1.9	114	90	0	350	34	15	20	30	1.94
1292764--1292886	22	5.6	22	95	0	210	32	14	13	39	1.86
1293289--1293984	123	5.9	113	82	10	654	39	14	19	27	1.90
1294165--1294306	39	3.6	39	87	1	196	47	9	21	21	1.79
1296471--1296513	2	22.0	2	85	4	61	46	0	2	51	1.13
1296451--1296509	27	2.2	27	81	6	66	49	3	1	45	1.28
1296675--1296716	21	2.0	21	85	0	57	54	0	0	45	0.99
1298334--1298495	80	2.0	80	100	0	324	24	18	29	28	1.98
1300205--1300238	2	17.0	2	100	0	68	50	0	0	50	1.00
1306829--1306878	20	2.7	19	74	20	52	54	0	4	42	1.19
1306867--1306920	22	2.7	20	78	13	58	40	3	5	50	1.44
1308333--1308432	9	12.0	8	75	16	64	30	1	0	69	0.96
1308335--1308432	6	16.5	6	83	6	110	30	1	0	68	0.97
1310158--1310198	15	2.6	16	78	17	50	46	2	7	43	1.44
1312295--1312348	14	3.8	14	82	4	63	24	14	9	51	1.71
1315349--1315396	23	2.1	23	100	0	96	37	18	25	18	1.94
1315925--1315973	13	3.8	13	78	10	57	83	0	14	2	0.73
1315927--1315974	25	1.9	25	83	8	62	81	0	16	2	0.79
1315932--1315979	23	2.1	22	88	3	69	83	0	14	2	0.74
1318116--1318328	114	1.9	114	90	0	345	32	16	21	30	1.95
1320395--1320474	40	2.0	40	97	0	151	33	15	21	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1320881--1320957	22	3.5	22	83	0	109	33	14	14	37	1.86
1321393--1322706	112	11.7	111	89	4	1826	36	13	20	29	1.91
1321393--1322704	225	5.8	227	90	3	1964	37	13	20	29	1.91
1321364--1322704	562	2.4	561	92	2	2185	36	13	20	29	1.91
1323045--1323142	3	33.0	3	87	6	146	30	1	0	68	0.97
1324877--1324917	15	2.6	16	78	17	50	46	2	7	43	1.44
1329920--1329984	23	3.0	23	72	22	59	61	0	4	33	1.16
1332121--1332218	45	2.2	45	85	3	135	25	38	15	20	1.92
1335703--1335748	21	2.1	22	88	4	67	17	21	8	52	1.71
1335740--1335782	20	2.2	20	82	0	50	23	9	4	62	1.44
1338562--1338586	11	2.3	11	100	0	50	32	0	0	68	0.90
1338732--1338773	15	2.8	15	85	0	57	38	0	0	61	0.96
1339109--1339160	20	2.6	20	93	0	86	51	19	17	11	1.75
1339174--1339316	43	3.4	43	82	5	202	37	17	23	21	1.94
1339174--1339327	20	7.4	20	79	6	137	37	18	24	20	1.94
1339412--1339479	6	11.5	6	98	1	129	32	51	16	0	1.45
1340177--1340215	6	6.5	6	96	0	69	0	15	53	30	1.42
1340302--1340412	20	5.4	20	80	6	123	21	24	17	36	1.94
1340300--1340433	43	3.2	43	82	6	193	20	24	17	36	1.94
1340302--1340412	40	2.7	41	85	4	143	21	24	17	36	1.94
1340447--1340500	20	2.7	20	91	0	81	11	16	18	53	1.72
1340487--1340537	19	2.6	20	90	3	77	15	17	23	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1343276--1343339	2	32.0	2	100	0	128	50	0	0	50	1.00
1344821--1344872	22	2.4	22	93	6	88	53	3	0	42	1.19
1344843--1345354	257	2.0	253	87	8	750	39	19	13	26	1.89
1346237--1346269	14	2.4	14	90	10	50	78	6	9	6	1.08
1349370--1349409	19	2.1	19	100	0	80	25	15	35	25	1.94
1352434--1352459	10	2.6	10	100	0	52	38	0	19	42	1.51
1355314--1355372	31	1.9	31	89	0	91	40	5	8	45	1.56
1355388--1355440	14	3.5	14	72	18	52	56	5	0	37	1.23
1355388--1355552	32	5.7	32	77	21	184	53	12	0	33	1.38
1355431--1355505	22	3.2	23	75	17	82	54	17	0	28	1.43
1355532--1355649	15	7.5	15	75	13	112	49	2	0	48	1.15
1355500--1355619	52	2.4	49	85	8	147	49	5	0	45	1.26
1355545--1355621	19	4.3	19	65	31	53	46	3	0	49	1.20
1358715--1358801	35	2.4	36	84	5	106	43	17	8	31	1.78
1362815--1362848	16	2.1	16	94	0	59	32	26	8	32	1.87
1363281--1363367	35	2.4	36	84	5	106	43	17	8	31	1.78
1366761--1366857	45	2.2	45	86	1	133	35	20	19	24	1.96
1366868--1366925	20	2.6	22	89	10	84	31	20	22	25	1.98
1367580--1367636	23	2.7	21	83	8	71	19	21	29	29	1.97
1370919--1371055	64	2.2	63	82	5	168	33	18	21	25	1.97
1371043--1371099	20	2.6	23	86	13	84	33	19	22	24	1.97
1371755--1371820	23	3.0	22	85	12	82	21	22	27	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1374234--1374272	17	2.2	18	86	4	53	53	0	0	46	1.00
1377171--1377222	25	2.1	25	100	0	104	34	21	23	21	1.97
1377393--1377419	14	1.9	14	100	0	54	51	0	22	25	1.48
1378845--1378882	20	1.9	20	88	0	58	21	26	10	42	1.85
1382131--1382184	24	2.2	24	86	0	81	37	24	14	24	1.93
1390925--1390973	21	2.3	21	86	10	64	40	2	0	57	1.10
1398103--1398140	19	2.0	20	89	5	60	42	5	10	42	1.62
1398211--1398260	21	2.3	22	79	10	57	26	30	22	22	1.99
1398957--1399050	31	3.0	31	89	6	138	37	22	19	21	1.95
1405641--1405723	3	27.7	3	95	0	148	33	0	0	66	0.92
1406226--1406267	21	2.0	22	86	13	61	76	7	16	0	1.00
1418161--1418203	7	5.9	7	78	10	50	81	0	13	4	0.84
1418157--1418199	12	3.7	12	84	6	61	81	0	13	4	0.84
1418152--1418216	18	3.7	17	80	12	69	78	0	18	3	0.88
1419349--1419940	83	7.1	83	94	3	1018	28	11	22	37	1.89
1420568--1421205	113	5.6	113	93	2	1012	36	13	20	29	1.91
1421342--1421447	3	35.7	3	96	1	196	34	0	0	65	0.93
1426797--1426934	61	2.3	61	87	0	195	33	23	21	21	1.97
1429783--1429819	2	18.5	2	100	0	74	51	0	0	48	1.00
1429990--1430031	18	2.3	19	84	12	52	50	16	0	33	1.46
1430101--1430155	18	3.1	19	89	5	80	52	9	0	38	1.33
1430845--1430882	14	2.8	13	84	7	58	52	0	5	42	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1431018--1431081	16	4.0	16	95	0	119	42	6	18	32	1.76
1431145--1431174	11	2.7	11	100	0	60	33	10	30	26	1.89
1438435--1438473	21	1.9	19	85	10	51	33	2	17	46	1.62
1441372--1441398	14	1.9	14	100	0	54	25	14	14	44	1.84
1441815--1441887	19	3.7	20	80	8	78	34	8	16	41	1.78
1442606--1442657	27	1.9	27	88	0	77	57	13	17	11	1.64
1445819--1445857	19	2.0	20	95	5	71	25	0	7	66	1.18
1448502--1448709	48	4.3	48	100	0	416	46	3	19	30	1.68
1459885--1459919	17	2.1	17	94	0	61	20	25	11	42	1.85
1474198--1474228	16	1.9	16	93	0	53	29	16	22	32	1.95

Tables:   1   2   3   4   5   6   7   8   9