genome.fa.s389.2.7.7.80.10.50.1000.9.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: VEPZ01000389.1 Hibiscus syriacus cultivar Beakdansim tig00000715_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2672246

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  9  of  15  ( 1688 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)
1213207--1213258	20	2.6	20	90	0	86	19	15	23	42	1.89
1213250--1213295	21	2.2	21	88	0	65	39	19	23	17	1.92
1222265--1222309	16	2.9	16	80	12	58	42	11	0	46	1.39
1222252--1222309	30	2.0	29	86	3	80	43	10	0	46	1.38
1233545--1233583	19	2.0	20	85	14	55	28	2	0	69	1.02
1238557--1238586	15	2.0	15	100	0	60	53	13	20	13	1.72
1241103--1241233	21	6.3	21	74	10	117	22	19	22	35	1.96
1241103--1241247	42	3.5	40	85	3	164	22	20	21	35	1.96
1241173--1241248	23	3.5	23	73	14	88	21	22	21	35	1.96
1242102--1242292	21	9.3	21	75	14	150	37	21	19	21	1.95
1242123--1242223	42	2.4	42	96	0	184	36	24	18	19	1.95
1242095--1242284	61	3.1	61	85	4	258	35	21	20	22	1.96
1250471--1250502	2	16.0	2	100	0	64	50	0	50	0	1.00
1252508--1252544	18	2.1	18	94	0	65	18	27	0	54	1.44
1259902--1259932	2	15.5	2	100	0	62	51	0	0	48	1.00
1266368--1266431	22	3.0	21	80	8	76	28	25	18	28	1.98
1267535--1267585	26	2.0	26	84	7	68	41	1	19	37	1.63
1268997--1269026	15	2.0	15	100	0	60	40	26	6	26	1.81
1272389--1272429	2	20.5	2	100	0	82	51	0	0	48	1.00
1272812--1272989	60	3.0	60	80	11	179	33	22	4	39	1.74
1273104--1273251	59	2.5	60	77	10	153	45	4	21	28	1.72
1273314--1273467	20	7.6	20	85	1	101	37	24	19	18	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1273352--1273426	21	3.6	21	92	0	132	29	26	16	28	1.96
1280589--1280628	18	2.3	17	83	8	53	27	0	0	72	0.85
1281595--1281621	2	13.5	2	100	0	54	51	0	0	48	1.00
1285477--1285515	21	1.9	19	85	10	51	23	10	33	33	1.88
1287033--1287111	33	2.4	33	91	2	133	13	3	16	65	1.40
1287264--1287305	18	2.4	17	81	14	50	50	16	7	26	1.71
1288481--1288536	23	2.6	21	72	8	58	39	0	0	60	0.97
1290028--1290184	64	2.5	64	81	8	194	34	18	17	29	1.94
1290549--1290629	29	2.8	29	96	3	146	44	16	22	17	1.86
1296946--1297033	45	2.0	45	86	4	124	38	17	13	30	1.88
1300261--1300537	144	1.9	144	84	1	367	29	29	14	26	1.95
1302416--1302477	20	3.1	20	97	0	115	17	11	30	40	1.85
1303230--1303259	7	4.3	7	100	0	60	56	30	13	0	1.37
1303418--1303460	17	2.5	17	77	7	52	9	27	2	60	1.40
1316497--1316548	2	26.0	2	100	0	104	50	0	0	50	1.00
1317140--1317165	2	13.0	2	100	0	52	50	0	0	50	1.00
1317691--1317741	19	2.6	20	90	3	77	43	23	17	15	1.88
1317691--1317988	20	14.6	20	78	9	147	38	20	24	17	1.93
1317816--1317986	40	4.2	40	85	4	207	35	18	27	18	1.95
1317795--1317988	63	3.1	63	86	2	259	35	19	27	18	1.95
1317975--1318018	20	2.2	20	91	0	70	54	15	18	11	1.70
1317712--1318006	60	4.8	60	75	4	205	38	19	24	17	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1318096--1318143	6	8.5	6	97	2	75	29	54	16	0	1.43
1318938--1318981	20	2.2	20	91	0	70	11	18	15	54	1.70
1318968--1319285	20	15.6	20	78	7	165	19	22	19	38	1.93
1318970--1319160	40	4.7	40	85	3	238	21	25	17	36	1.95
1318978--1319140	83	2.0	83	91	0	263	20	25	17	36	1.94
1318968--1319181	103	2.1	103	89	0	320	21	25	17	35	1.95
1318970--1319160	83	2.4	81	84	6	237	21	25	17	36	1.95
1319235--1319285	19	2.6	20	90	3	77	15	17	23	43	1.88
1322053--1322259	21	10.0	21	72	13	160	20	19	24	35	1.96
1322078--1322256	42	4.3	40	92	1	259	20	18	24	36	1.95
1322078--1322256	84	2.2	82	92	2	295	20	18	24	36	1.95
1322349--1322379	6	5.2	6	92	0	53	32	51	16	0	1.44
1322983--1323197	40	5.3	40	93	3	367	35	23	19	21	1.95
1322983--1323197	82	2.6	80	94	2	367	35	23	19	21	1.95
1323212--1323262	21	2.4	21	93	0	84	17	23	29	29	1.97
1328418--1328492	20	3.7	20	82	10	80	26	21	28	24	1.99
1328435--1328492	22	2.8	20	85	10	80	25	18	27	27	1.98
1329333--1329400	23	3.0	23	88	0	91	20	27	25	26	1.99
1330575--1330642	2	34.0	2	100	0	136	50	0	0	50	1.00
1333726--1333802	20	3.8	20	72	17	59	29	19	25	24	1.98
1334626--1334671	23	2.0	23	86	0	65	19	23	26	30	1.98
1337694--1337748	26	2.1	26	96	0	101	25	18	14	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1361187--1361221	17	1.9	19	88	11	56	25	34	8	31	1.86
1367852--1367895	19	2.5	18	82	13	56	65	9	13	11	1.46
1374048--1374098	25	2.0	25	100	0	102	45	19	11	23	1.83
1376689--1376716	14	2.0	14	100	0	56	14	21	14	50	1.78
1384398--1384498	51	2.0	51	96	0	184	29	21	13	34	1.92
1386718--1386761	14	3.0	14	87	12	70	15	22	13	47	1.81
1386718--1386761	16	2.9	16	93	6	74	15	22	13	47	1.81
1389560--1389594	16	2.1	17	94	5	63	57	0	0	42	0.99
1394290--1394491	54	3.7	54	89	0	296	35	23	17	23	1.96
1394796--1394955	65	2.5	62	82	6	178	32	22	16	28	1.96
1396898--1396938	22	1.9	21	85	5	55	48	0	12	39	1.41
1400522--1400616	44	2.2	44	87	7	133	27	26	22	24	2.00
1400522--1400616	23	4.4	21	77	9	86	27	26	22	24	2.00
1400541--1400621	23	3.7	23	77	8	96	25	25	24	23	2.00
1400540--1400639	43	2.3	42	80	8	112	27	26	25	22	2.00
1403250--1403439	64	3.0	63	77	12	199	30	23	18	26	1.98
1403280--1403439	65	2.5	63	84	6	205	30	23	19	26	1.98
1404043--1404842	398	2.0	398	99	0	1564	29	17	16	36	1.92
1404906--1404995	24	3.8	24	98	0	171	37	3	5	53	1.41
1412655--1412690	2	18.5	2	94	5	65	50	0	0	50	1.00
1417840--1417893	21	2.6	21	76	5	56	37	1	1	59	1.19
1417903--1418006	45	2.3	44	86	4	138	49	0	5	44	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1418189--1418214	2	13.0	2	100	0	52	50	0	0	50	1.00
1430748--1430813	6	10.7	6	88	6	51	54	0	0	45	0.99
1430752--1430800	2	24.5	2	95	0	89	53	0	0	46	1.00
1430758--1430806	12	4.3	11	90	10	64	51	0	0	48	1.00
1430913--1430946	16	2.1	17	88	5	52	41	17	2	38	1.65
1441539--1441579	2	20.5	2	100	0	82	51	0	0	48	1.00
1442282--1442408	68	1.9	68	81	0	155	29	14	13	43	1.83
1442850--1442887	20	2.0	20	89	5	60	44	0	7	47	1.32
1454664--1454696	3	11.3	3	93	6	59	30	0	0	69	0.88
1454638--1454696	23	2.5	24	81	10	70	35	1	0	62	1.05
1455215--1455253	21	1.9	21	89	5	62	17	15	10	56	1.66
1455388--1455465	15	4.9	15	81	13	70	19	1	2	76	0.96
1458312--1458369	20	2.9	19	73	14	55	77	6	13	1	1.05
1459423--1459509	32	2.7	32	82	7	113	29	18	21	29	1.97
1459758--1459886	64	2.0	64	87	0	186	34	20	12	31	1.90
1460314--1460540	36	6.5	35	73	13	141	25	18	13	42	1.87
1460426--1460545	37	3.3	36	82	6	143	21	18	15	45	1.86
1460552--1460657	33	3.2	32	85	7	149	41	18	9	30	1.82
1460555--1460651	34	2.9	34	86	7	144	42	17	9	30	1.81
1460649--1460997	83	4.2	83	83	2	418	31	25	19	23	1.98
1460646--1460974	167	2.0	167	89	3	500	31	24	20	23	1.98
1461363--1461401	3	13.7	3	84	10	55	30	0	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1461363--1461403	8	4.9	8	90	3	55	29	0	0	70	0.87
1461357--1461401	23	2.0	24	91	8	76	33	0	0	66	0.92
1462033--1462132	14	7.2	14	71	18	57	20	2	5	73	1.12
1462033--1462077	16	2.8	16	80	9	56	22	2	0	75	0.91
1462116--1462159	6	7.7	6	94	2	65	18	9	0	72	1.10
1462276--1462306	13	2.4	13	94	0	53	32	0	0	67	0.91
1478711--1479058	43	8.1	43	83	3	398	36	17	20	25	1.94
1478711--1479058	85	4.1	87	81	5	388	36	17	20	25	1.94
1485711--1485805	44	2.2	44	85	7	124	27	25	22	25	2.00
1485730--1485810	23	3.7	23	75	8	87	25	24	24	24	2.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15