genome.fa.s7749.2.7.7.80.10.50.1000.6.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: VEPZ01007749.1 Hibiscus syriacus cultivar Beakdansim tig00110015_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1787532

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 889 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)
1181659--1181724	19	3.3	19	74	15	62	42	19	16	21	1.89
1181740--1181978	123	1.9	123	87	1	345	36	23	19	20	1.95
1181778--1181978	41	4.9	41	94	2	359	36	23	18	20	1.95
1187906--1187990	29	2.9	29	91	0	134	11	34	29	24	1.91
1188006--1188078	33	2.2	33	85	0	92	10	36	26	26	1.89
1195563--1195609	16	2.9	16	100	0	94	25	44	17	12	1.84
1199180--1199234	21	2.6	21	97	0	101	43	16	18	21	1.88
1203160--1203184	12	2.1	12	100	0	50	16	32	8	44	1.76
1204077--1204104	2	14.0	2	100	0	56	50	0	0	50	1.00
1205105--1205134	3	10.0	3	100	0	60	66	0	33	0	0.92
1206232--1206288	28	2.0	29	86	6	82	50	3	8	36	1.50
1207955--1208021	29	2.3	29	82	5	82	25	2	8	62	1.39
1209737--1209801	3	21.7	3	93	6	114	33	0	0	66	0.92
1213044--1213086	20	2.2	20	86	0	59	32	13	20	32	1.92
1213440--1213483	18	2.4	18	96	0	79	18	43	20	18	1.89
1217297--1217444	47	3.2	47	92	1	228	31	21	6	40	1.79
1217574--1217775	40	5.1	40	98	0	395	32	26	17	23	1.96
1226172--1226205	16	2.1	17	88	5	52	35	0	20	44	1.52
1232462--1232737	138	2.0	138	100	0	552	35	21	15	27	1.93
1238003--1238214	75	2.9	74	85	4	295	34	12	27	25	1.92
1242067--1242115	21	2.3	21	96	0	89	26	18	20	34	1.95
1242814--1242849	17	2.0	19	89	10	58	16	8	2	72	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1249448--1249758	157	2.0	154	96	3	570	29	15	30	24	1.95
1254107--1254180	36	2.1	36	92	2	123	32	9	14	43	1.78
1259056--1259129	35	2.1	35	97	0	139	32	10	14	41	1.81
1267425--1267486	24	2.6	24	89	0	79	12	9	20	56	1.65
1267720--1267809	33	2.7	33	94	0	162	27	27	20	24	1.99
1268223--1268315	48	1.9	48	95	0	168	33	8	31	26	1.87
1268235--1268308	24	3.1	24	62	14	62	32	9	31	27	1.88
1268911--1269046	69	2.0	67	97	2	254	43	17	17	21	1.88
1272487--1272551	16	4.1	16	89	0	103	7	9	23	60	1.53
1272889--1272922	17	1.9	18	88	5	52	29	2	0	67	1.05
1272951--1273007	28	2.0	28	96	0	105	40	17	12	29	1.86
1281420--1281483	27	2.4	27	97	2	121	34	31	7	26	1.85
1296855--1296889	18	1.9	18	88	11	54	34	8	0	57	1.29
1297809--1297902	48	2.0	48	83	4	120	48	3	1	46	1.25
1297842--1297902	15	3.9	15	74	19	61	49	3	0	47	1.18
1297809--1297893	15	5.4	17	68	20	58	48	2	1	48	1.22
1297828--1297919	48	2.0	46	83	10	116	51	3	1	44	1.25
1297766--1298224	230	2.0	228	84	7	590	46	5	3	44	1.42
1297784--1298250	229	2.0	227	79	8	509	47	5	2	43	1.40
1300304--1300351	20	2.4	20	79	6	53	39	0	6	54	1.26
1300325--1300359	17	2.1	17	100	0	70	40	0	11	48	1.39
1300769--1300818	24	2.0	24	84	3	64	32	12	30	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1301930--1301961	2	16.0	2	100	0	64	50	0	0	50	1.00
1303973--1304022	25	2.0	24	85	11	66	70	0	4	26	1.05
1304075--1304130	29	2.0	29	89	3	87	42	7	7	42	1.59
1304093--1304182	36	2.5	35	83	13	121	44	8	5	41	1.59
1304315--1304408	20	4.7	20	82	2	116	13	21	24	40	1.89
1304323--1304474	63	2.4	63	86	4	211	19	20	23	36	1.95
1304422--1304511	41	2.2	40	92	2	144	25	18	22	33	1.97
1304488--1304531	19	2.2	20	96	4	81	11	18	22	47	1.80
1304523--1304575	22	2.4	22	96	0	97	16	15	28	39	1.89
1305329--1305381	22	2.4	22	96	0	97	39	28	15	16	1.89
1305373--1305424	20	2.6	20	96	0	95	44	23	23	9	1.82
1305393--1305481	39	2.2	39	90	4	142	38	23	17	20	1.93
1305413--1305482	21	3.5	21	67	11	65	35	25	15	22	1.94
1305629--1305686	31	1.9	31	96	3	109	41	6	3	48	1.47
1305672--1305760	34	2.6	34	80	3	108	47	5	1	46	1.33
1305734--1305837	39	2.7	39	79	4	115	48	7	1	42	1.43
1306241--1306314	20	3.7	20	76	3	85	41	18	21	17	1.90
1306241--1306330	41	2.2	41	97	0	171	41	17	23	17	1.90
1306241--1306369	20	6.3	20	69	9	82	41	17	20	19	1.90
1306264--1306394	41	3.2	41	80	6	115	38	19	21	19	1.93
1306364--1306416	20	2.7	20	93	0	88	28	28	18	24	1.98
1306923--1306965	20	2.2	20	95	0	77	9	18	18	53	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1308285--1308329	18	2.5	18	88	0	72	26	44	15	13	1.83
1308809--1308875	20	3.4	20	81	2	73	38	23	22	14	1.92
1308864--1308921	14	3.9	14	75	16	62	48	22	18	10	1.78
1308848--1308936	32	2.8	32	92	1	151	46	21	20	12	1.83
1308948--1309026	32	2.4	33	89	2	115	13	18	21	45	1.84
1309002--1309049	19	2.5	20	72	3	53	14	22	20	41	1.89
1310841--1310876	14	2.6	14	90	0	54	30	0	22	47	1.52
1310993--1311060	19	3.8	19	85	14	101	47	17	22	13	1.82
1312174--1312227	24	2.2	24	86	0	72	25	16	18	38	1.92
1314913--1314972	14	4.5	13	78	10	50	51	20	0	28	1.47
1314924--1314960	14	2.6	14	91	0	65	45	24	0	29	1.53
1316307--1316373	21	3.2	21	68	4	55	19	20	35	23	1.95
1318453--1318552	33	3.0	33	88	1	137	41	26	22	11	1.86
1318428--1318593	20	9.1	19	71	15	109	43	22	21	12	1.85
1318589--1318655	19	3.5	19	83	2	89	8	16	23	50	1.73
1319164--1319277	20	5.7	20	81	6	122	25	18	24	31	1.97
1319164--1319280	61	1.9	61	87	0	171	24	17	23	33	1.97
1319164--1319298	61	2.2	61	81	2	155	23	20	23	31	1.98
1319348--1319388	21	2.0	21	85	0	55	34	31	17	17	1.93
1320180--1320227	16	2.8	17	81	9	53	45	4	6	43	1.48
1321669--1321721	21	2.5	21	84	0	70	30	30	22	16	1.96
1321717--1321783	21	3.3	19	74	13	71	20	20	20	37	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1321725--1321789	21	3.2	19	76	16	76	23	23	20	33	1.97
1321789--1321875	21	4.3	21	78	8	90	32	27	21	18	1.97
1322005--1322083	38	2.1	39	90	7	126	39	2	11	46	1.53
1334183--1334211	4	7.5	4	92	7	51	27	0	0	72	0.85
1337303--1337379	37	2.1	37	85	2	102	50	6	24	18	1.70
1338826--1338880	26	2.1	27	82	3	67	36	20	18	25	1.94
1338950--1338993	21	2.1	21	91	0	70	18	15	25	40	1.90
1339877--1339943	32	2.1	32	100	0	134	28	11	8	50	1.69
1346333--1346359	8	3.4	8	100	0	54	40	0	11	48	1.39
1347561--1347595	18	1.9	18	88	11	54	17	17	34	31	1.93
1348165--1348206	21	2.0	21	85	0	57	23	23	26	26	2.00
1355249--1355274	2	13.0	2	100	0	52	50	0	0	50	1.00
1355457--1355615	71	2.3	68	80	6	171	57	14	6	21	1.61
1357059--1357099	20	2.0	20	95	0	73	29	26	19	24	1.98
1357671--1357737	21	3.0	21	81	12	73	29	20	25	23	1.99
1357681--1357744	21	3.0	21	84	11	85	29	21	25	23	1.99
1359842--1359899	23	2.5	23	94	0	98	34	18	8	37	1.82
1359995--1360040	19	2.4	19	96	0	83	52	6	26	15	1.67
1361776--1361813	20	1.9	20	88	0	58	36	5	13	44	1.66
1370387--1370411	2	12.5	2	100	0	50	48	0	0	52	1.00
1379549--1379586	18	2.1	18	100	0	76	10	21	26	42	1.85
1401065--1401103	19	2.1	19	100	0	78	46	15	12	25	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1402275--1402335	31	2.0	31	86	0	86	29	19	13	37	1.90
1403911--1403965	21	2.6	21	76	0	65	40	10	18	30	1.85
1422170--1422617	178	2.5	180	90	2	686	27	15	14	42	1.86
1422488--1423059	111	5.1	112	95	0	979	25	15	14	44	1.84
1427854--1427923	36	1.9	36	85	5	97	38	4	5	51	1.45
1432683--1432721	17	2.3	17	90	0	60	10	43	10	35	1.73
1438057--1438094	18	2.2	18	86	13	53	65	2	0	31	1.06
1438374--1438426	16	3.4	16	80	15	65	56	15	0	28	1.39
1439526--1439685	55	3.0	55	83	5	195	28	26	17	26	1.98
1439693--1439769	37	2.1	37	87	4	111	20	18	18	42	1.89

Tables:   1   2   3   4   5   6   7   8