genome.fa.s8111.2.7.7.80.10.50.1000.6.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: 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  6  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)
1092988--1093161	81	2.2	81	84	3	226	21	8	52	17	1.70
1092978--1093170	49	4.0	47	78	15	214	21	8	52	17	1.70
1093213--1093276	32	2.0	32	100	0	128	21	25	21	31	1.98
1093585--1093633	21	2.3	21	82	3	62	32	0	16	51	1.45
1093610--1093670	28	2.2	28	93	0	104	32	0	11	55	1.36
1093632--1093739	47	2.5	44	81	14	125	39	0	8	50	1.39
1094156--1094212	16	3.3	16	75	17	60	40	0	10	49	1.37
1094472--1094530	26	2.3	25	75	18	66	47	8	3	40	1.51
1097804--1097894	44	2.0	46	87	8	134	47	12	0	40	1.41
1097825--1097962	41	3.3	40	76	15	111	47	11	0	40	1.45
1098099--1098155	4	14.0	4	75	10	53	1	33	0	64	1.04
1098099--1098155	24	2.3	25	93	3	98	1	33	0	64	1.04
1098115--1098156	17	2.5	17	88	3	59	0	35	0	64	0.94
1098217--1098268	25	2.1	25	92	0	86	28	32	9	28	1.89
1098379--1098438	23	2.6	23	97	0	111	23	8	45	23	1.80
1098444--1098552	29	3.8	29	93	2	175	22	30	31	16	1.96
1098560--1098597	19	2.0	19	100	0	76	21	42	15	21	1.89
1098660--1098770	55	2.0	55	100	0	222	16	34	21	27	1.95
1098579--1098854	139	2.0	139	100	0	552	17	32	25	24	1.96
1098667--1098752	27	3.1	27	62	15	68	16	37	22	24	1.93
1098725--1098856	41	3.2	41	66	19	119	16	31	28	23	1.96
1100006--1100046	8	5.1	8	100	0	82	36	24	12	26	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1103059--1103125	33	2.0	33	94	5	118	34	17	8	38	1.82
1104098--1104189	31	2.9	31	83	1	103	47	8	2	41	1.46
1105871--1105915	2	22.5	2	100	0	90	51	0	0	48	1.00
1109165--1109207	14	3.1	14	82	0	59	9	13	16	60	1.58
1113618--1113710	21	4.5	21	78	4	100	39	18	24	17	1.91
1113618--1113710	41	2.3	41	100	0	186	39	18	24	17	1.91
1113637--1113771	41	3.3	41	84	4	148	37	21	20	20	1.94
1113699--1113812	20	5.7	20	77	10	99	33	23	16	26	1.96
1113980--1114023	22	2.0	22	90	0	70	20	43	15	20	1.88
1115557--1115601	18	2.5	18	85	0	63	26	46	15	11	1.79
1116126--1116183	14	3.9	14	79	16	71	48	25	17	8	1.75
1116110--1116200	32	2.8	33	94	3	166	47	23	18	10	1.80
1116072--1116205	19	7.6	19	72	18	92	42	23	20	12	1.87
1116217--1116274	14	3.9	14	79	16	71	8	17	25	48	1.75
1116212--1116290	32	2.4	33	95	2	142	10	18	24	46	1.80
1116212--1116290	14	4.8	17	71	22	62	10	18	24	46	1.80
1116275--1116328	20	2.8	19	83	5	72	16	24	24	35	1.95
1118977--1119127	39	4.1	38	78	10	168	45	21	21	12	1.84
1118977--1119127	19	8.1	19	80	10	168	45	21	21	12	1.84
1119123--1119170	20	2.5	19	77	12	53	10	16	27	45	1.80
1119688--1119781	20	4.7	20	80	7	91	24	17	25	32	1.96
1119770--1119862	20	4.5	21	78	4	100	17	24	18	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1119709--1119843	41	3.3	41	84	4	148	20	20	21	37	1.94
1119770--1119862	41	2.3	41	100	0	186	17	24	18	39	1.91
1126863--1126937	35	2.1	35	90	0	114	29	0	26	44	1.55
1128428--1128501	28	2.5	28	80	8	76	17	24	14	43	1.87
1128428--1128505	16	5.1	16	78	12	83	19	24	14	42	1.88
1131796--1131893	28	3.3	28	68	17	72	34	9	4	52	1.52
1131964--1132191	33	7.5	33	68	23	144	44	6	6	42	1.55
1131962--1132132	51	3.2	53	86	9	226	44	7	6	42	1.57
1132071--1132179	35	3.2	34	90	5	166	45	5	4	44	1.47
1132023--1132146	51	2.5	51	89	6	182	45	5	6	42	1.53
1132235--1132307	2	36.0	2	72	22	55	46	2	4	46	1.36
1132240--1132281	9	4.4	9	78	21	50	42	0	7	50	1.30
1132235--1132307	20	3.6	20	76	16	62	46	2	4	46	1.36
1132357--1132463	18	5.7	18	77	18	110	40	7	10	42	1.67
1132269--1132410	53	2.6	53	88	4	196	43	7	7	40	1.62
1132247--1132410	53	3.1	52	83	6	188	43	6	7	42	1.58
1132357--1132468	35	2.9	40	81	14	144	41	7	9	41	1.65
1132336--1132499	18	9.4	17	71	21	101	43	6	8	41	1.61
1132447--1132513	33	2.1	32	91	2	107	50	4	5	38	1.47
1132464--1132537	20	3.5	20	77	16	85	52	1	6	39	1.36
1132464--1132524	23	2.7	23	79	16	74	54	1	6	37	1.37
1132477--1132526	13	3.8	13	77	17	59	54	2	6	38	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1132493--1132561	29	2.4	29	80	11	79	53	0	7	39	1.29
1132560--1132619	27	2.2	28	84	3	77	41	35	1	21	1.63
1132560--1132619	14	4.4	14	81	8	61	41	35	1	21	1.63
1132574--1132624	7	7.4	7	73	4	50	41	37	1	19	1.63
1132628--1132774	2	77.5	2	67	19	66	47	3	1	47	1.27
1132631--1132774	28	5.3	28	73	19	101	47	3	1	47	1.27
1132666--1132733	23	3.0	21	76	18	64	51	2	0	45	1.16
1132664--1132775	11	9.8	11	67	17	59	48	2	1	47	1.26
1132628--1132793	42	3.9	42	75	11	142	45	4	2	47	1.35
1132817--1132955	27	5.2	28	72	16	89	42	5	5	47	1.47
1132869--1132955	2	42.0	2	71	15	61	45	4	2	47	1.36
1132872--1132938	20	3.2	20	80	15	91	44	5	2	46	1.43
1132845--1132955	42	2.8	42	84	11	144	44	5	2	47	1.40
1132843--1132950	20	5.4	20	69	18	82	44	5	2	47	1.41
1132981--1133795	210	3.8	212	90	3	1187	29	11	8	50	1.67
1137127--1137182	3	18.7	3	88	0	85	62	0	0	37	0.95
1138217--1138559	147	2.3	147	88	4	487	28	13	21	35	1.92
1141328--1141387	28	2.1	28	87	0	84	45	18	1	35	1.60
1146061--1146091	2	15.5	2	100	0	62	51	0	0	48	1.00
1148907--1148936	2	15.5	2	93	6	53	0	53	0	46	1.00
1160270--1160337	31	2.2	30	82	10	75	57	10	7	25	1.57
1160818--1160848	15	2.1	15	93	0	53	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1171716--1171788	32	2.3	31	79	9	76	30	1	1	67	1.08
1172849--1172878	14	2.1	14	93	0	51	33	0	0	66	0.92
1173973--1174032	31	1.9	31	93	0	102	20	1	11	66	1.31
1176056--1176127	31	2.3	31	90	0	117	33	8	11	47	1.69
1176264--1176351	27	3.3	27	80	4	90	54	1	3	40	1.24
1176303--1176363	24	2.5	24	89	2	86	52	1	4	40	1.33
1176279--1176359	24	2.9	29	73	19	82	55	1	3	39	1.25
1176359--1176395	2	19.5	2	89	10	60	51	0	0	48	1.00
1176408--1176458	21	2.4	21	100	0	102	58	11	3	25	1.50
1177845--1178195	175	2.0	178	95	3	640	42	16	12	29	1.84
1185922--1186000	2	39.5	2	100	0	158	50	0	0	49	1.00
1189243--1189297	19	2.8	19	86	2	74	38	1	1	58	1.20
1190095--1190150	26	2.2	26	100	0	112	26	10	3	58	1.48
1192120--1192347	34	6.8	33	68	19	136	47	6	3	42	1.46
1193915--1193964	20	2.5	20	100	0	100	26	28	16	30	1.96
1194379--1194538	65	2.5	65	85	5	209	32	23	15	28	1.95
1204848--1204880	14	2.4	14	94	0	57	33	6	30	30	1.82
1207550--1207595	11	4.5	11	78	15	62	28	39	19	13	1.89
1207561--1207604	19	2.3	19	100	0	88	27	36	20	15	1.93
1214859--1214914	20	2.6	23	75	18	66	25	10	21	42	1.85
1219186--1219258	35	2.1	35	100	0	146	53	5	5	35	1.47
1220030--1220237	75	2.8	76	88	2	294	24	31	23	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1228697--1228820	54	2.3	55	88	2	180	22	32	23	21	1.98
1232055--1232100	23	2.0	23	95	0	83	43	21	15	19	1.87
1234720--1234811	20	4.6	20	80	0	94	47	23	13	15	1.80
1236209--1236265	25	2.3	25	100	0	114	59	7	5	28	1.45
1237567--1237633	2	33.0	2	96	3	125	49	0	1	49	1.10
1237612--1237932	83	4.2	80	77	17	256	47	2	5	43	1.39
1237616--1237944	37	8.7	38	76	16	285	47	2	6	44	1.39
1237698--1237856	36	4.2	36	72	15	108	48	1	5	44	1.34
1237778--1237833	26	2.1	27	93	6	98	46	0	5	48	1.25
1237698--1237909	104	2.0	104	90	5	340	48	1	5	44	1.35

Tables:   1   2   3   4   5   6   7   8   9