genome.fa.s3924.2.7.7.80.10.50.1000.4.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: VEPZ01003924.1 Hibiscus syriacus cultivar Beakdansim tig00008483_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1466330

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 520 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)
1033881--1033993	44	2.5	44	80	4	120	24	23	21	30	1.98
1033957--1034072	39	3.0	39	88	0	169	20	28	21	29	1.98
1034085--1034457	43	8.7	43	85	0	485	25	24	18	31	1.97
1034085--1034457	129	2.9	127	89	4	550	25	24	18	31	1.97
1036012--1036261	42	6.0	42	89	2	371	32	24	24	19	1.98
1037179--1037216	17	2.2	17	95	0	67	13	21	47	18	1.82
1042279--1042360	40	2.0	40	100	0	164	32	26	17	23	1.96
1048407--1048435	14	2.1	14	100	0	58	41	6	31	20	1.79
1049073--1049234	40	4.1	40	97	0	306	33	27	16	22	1.95
1054793--1054827	18	1.9	18	94	0	61	14	22	45	17	1.84
1069778--1069824	24	2.0	24	91	0	76	29	8	17	44	1.78
1077288--1077334	23	2.0	23	95	0	85	27	23	19	29	1.98
1082990--1083065	24	3.2	24	86	3	73	44	18	11	25	1.83
1083007--1083140	24	5.6	24	81	7	119	41	17	14	26	1.88
1089097--1089133	18	2.1	18	100	0	74	10	24	48	16	1.77
1089091--1089120	13	2.3	13	100	0	60	13	23	46	16	1.82
1089090--1089158	31	2.2	31	84	0	93	18	23	42	15	1.89
1089152--1089200	9	5.1	9	80	9	53	38	26	20	14	1.91
1089150--1089200	20	2.7	18	82	14	66	39	27	19	13	1.90
1089150--1089205	19	2.9	19	87	10	78	35	26	21	16	1.94
1096267--1096303	13	2.8	13	91	0	56	21	18	43	16	1.88
1096316--1096370	10	5.6	10	85	10	78	34	29	21	14	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1096316--1096371	19	2.9	19	87	10	78	33	28	21	16	1.95
1101183--1101232	25	1.9	27	84	8	68	36	10	14	40	1.79
1101374--1101413	21	2.0	20	85	5	53	42	0	2	55	1.13
1104309--1104384	24	3.2	24	84	3	73	47	18	11	22	1.81
1104326--1104437	24	4.7	24	86	6	138	41	19	14	24	1.88
1104326--1104459	48	2.8	48	80	6	130	43	18	13	24	1.86
1106993--1107020	13	2.2	13	100	0	56	14	25	42	17	1.87
1107585--1107617	12	2.8	12	100	0	66	45	9	9	36	1.68
1109120--1109171	24	2.2	24	82	0	59	50	17	11	21	1.77
1109149--1109281	72	1.9	71	85	7	189	45	18	12	24	1.84
1109143--1109258	24	4.8	24	82	6	137	42	18	14	24	1.88
1113819--1113868	27	1.9	27	88	8	77	36	12	14	38	1.83
1114010--1114049	21	2.0	20	85	5	53	42	0	2	55	1.13
1115826--1115875	27	1.9	27	88	8	77	36	12	14	38	1.83
1116017--1116056	21	2.0	20	85	5	53	42	0	2	55	1.13
1120080--1120119	21	2.0	20	85	5	53	42	0	2	55	1.13
1120689--1120776	46	1.9	46	100	0	176	36	17	12	34	1.87
1131449--1131503	9	5.6	10	81	12	69	14	23	29	32	1.94
1131506--1131536	13	2.4	13	100	0	62	16	48	22	12	1.80
1131515--1131549	18	1.9	18	88	0	52	17	42	22	17	1.88
1131557--1131623	29	2.3	29	84	5	82	22	8	26	41	1.83
1138711--1138749	13	3.0	13	92	0	60	15	43	20	20	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1146064--1146093	13	2.3	13	94	0	51	20	46	20	13	1.83
1157552--1157629	31	2.5	32	82	2	95	26	26	29	16	1.97
1164561--1164694	29	4.6	28	81	9	128	37	22	5	35	1.77
1171810--1171975	57	2.9	56	79	8	176	35	16	4	42	1.70
1171793--1172008	29	7.6	28	79	7	186	37	17	5	40	1.72
1171811--1171975	85	1.9	85	80	4	190	35	16	4	43	1.70
1171811--1172009	28	7.0	29	82	4	154	35	18	5	40	1.73
1172005--1172043	18	2.2	18	90	0	60	7	20	46	25	1.77
1183587--1183656	12	5.8	13	71	15	53	17	12	17	52	1.74
1187785--1187823	12	3.2	12	92	7	62	12	17	17	51	1.76
1187785--1187831	24	2.0	24	83	8	60	17	14	17	51	1.77
1200537--1200598	30	2.1	30	87	0	88	16	46	19	17	1.84
1200569--1200600	13	2.5	13	94	0	55	15	43	25	15	1.86
1203090--1203144	24	2.3	24	90	0	83	16	18	16	49	1.81
1203107--1203155	11	4.3	11	80	10	53	14	14	16	55	1.70
1207777--1207838	29	2.2	29	82	2	81	25	1	32	40	1.66
1209227--1209390	80	2.0	81	96	1	303	43	11	7	36	1.70
1213597--1213637	12	3.4	12	83	12	57	19	41	21	17	1.90
1213604--1213639	11	3.1	11	88	11	54	19	38	25	16	1.92
1213692--1213841	57	2.6	57	93	1	255	31	5	15	48	1.67
1213644--1213851	29	7.2	29	80	5	215	29	4	16	49	1.66
1221189--1221405	29	7.6	28	86	3	254	29	5	17	48	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1221188--1221405	57	3.8	58	88	2	289	28	5	17	48	1.69
1221189--1221405	86	2.5	85	85	4	265	29	5	17	48	1.68
1222116--1222166	24	2.1	24	85	0	66	29	13	21	35	1.92
1228662--1228873	57	3.7	58	85	5	243	28	4	17	48	1.68
1228668--1228879	86	2.4	85	83	6	248	29	5	16	48	1.68
1228662--1228879	29	7.6	29	82	4	208	28	5	17	48	1.69
1229590--1229647	24	2.4	24	85	0	80	27	10	20	41	1.85
1230819--1230866	24	1.9	24	83	8	60	31	8	4	56	1.48
1236077--1236288	29	7.4	28	81	8	203	27	4	19	48	1.67
1236076--1236288	57	3.7	57	83	6	234	27	4	19	48	1.67
1236077--1236289	86	2.5	85	81	6	232	27	4	19	48	1.68
1237000--1237072	24	3.0	24	80	4	85	26	15	20	38	1.92
1237089--1237117	2	14.5	2	100	0	58	48	0	0	51	1.00
1237786--1237822	15	2.5	15	95	0	65	24	16	24	35	1.95
1238661--1238749	42	2.1	41	93	6	153	33	2	7	56	1.41
1248116--1248184	10	6.7	10	82	11	68	15	30	30	23	1.96
1248112--1248175	19	3.3	19	82	10	67	17	31	29	21	1.96
1250469--1250517	24	2.0	24	92	0	80	20	10	16	53	1.72
1250479--1250525	12	3.9	12	82	0	58	21	8	17	53	1.70
1256054--1256097	22	2.0	23	86	4	63	52	20	0	27	1.47
1257880--1257981	28	3.6	28	94	1	177	33	3	22	40	1.72
1258869--1259000	63	2.1	63	78	10	137	18	27	27	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1259008--1259060	25	2.1	25	85	0	70	28	5	15	50	1.66
1261292--1261330	18	2.2	18	95	0	69	28	23	25	23	1.99
1286519--1286556	20	1.9	20	94	0	67	18	15	34	31	1.92
1289197--1289252	24	2.3	24	90	0	85	37	21	21	19	1.94
1294183--1294362	65	2.8	65	78	5	186	32	15	21	30	1.94
1295560--1295586	13	2.1	13	100	0	54	48	22	7	22	1.75
1298110--1298149	13	3.1	13	88	0	62	17	47	22	12	1.81
1298150--1298247	29	3.4	29	80	7	110	28	2	27	41	1.67
1305186--1305226	18	2.3	18	87	4	57	19	41	21	17	1.90
1305234--1305330	29	3.4	29	89	2	142	27	5	26	40	1.77
1306597--1306647	21	2.4	21	90	0	84	23	3	11	60	1.47
1311750--1311849	44	2.3	44	83	0	119	25	23	19	33	1.97
1311905--1311985	39	2.1	39	81	4	92	17	25	24	32	1.97
1311964--1312090	43	3.0	43	90	0	200	25	25	18	29	1.98
1312076--1312105	15	2.0	15	100	0	60	33	26	13	26	1.93
1312033--1312143	58	1.9	58	92	0	186	27	25	17	30	1.97
1312091--1312187	43	2.3	43	85	5	133	23	23	19	32	1.97
1311990--1312187	101	2.0	101	90	2	317	24	24	18	32	1.97
1313668--1313851	29	6.4	29	77	9	148	32	3	19	45	1.67
1320888--1320917	11	2.7	11	94	0	51	50	3	0	46	1.18
1322860--1322889	13	2.3	13	94	0	51	16	43	23	16	1.87
1335321--1335374	24	2.2	25	83	9	76	20	11	16	51	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1353627--1353660	18	1.9	18	88	5	52	50	0	20	29	1.49
1355301--1355523	79	2.8	79	84	3	286	21	21	25	31	1.98
1359847--1359905	24	2.5	24	78	10	66	23	13	15	47	1.81
1366632--1366656	12	2.1	12	100	0	50	28	16	24	32	1.96
1399436--1399472	13	2.8	13	91	0	65	16	48	21	13	1.80
1399434--1399498	31	2.1	31	88	0	94	15	47	20	16	1.82
1399475--1399525	8	7.1	7	79	16	52	13	33	23	29	1.93
1399483--1399536	15	3.4	15	87	7	63	12	31	25	29	1.93
1400825--1400860	18	2.0	18	88	0	54	52	0	16	30	1.44
1401987--1402042	24	2.3	23	73	8	58	21	17	14	46	1.84

Tables:   1   2   3   4   5