genome.fa.s7978.2.7.7.80.10.50.1000.5.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: VEPZ01007978.1 Hibiscus syriacus cultivar Beakdansim tig00110415_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1479011

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 755 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)
982760--982806	18	2.6	18	82	0	58	29	17	38	14	1.89
982757--982796	21	1.9	21	94	0	71	30	17	37	15	1.90
982763--982806	15	2.9	15	86	0	52	29	15	38	15	1.89
983012--983096	35	2.5	33	78	14	91	25	8	10	55	1.62
986859--986907	15	3.5	15	72	16	59	51	8	4	36	1.51
986858--986918	27	2.3	27	100	0	122	52	6	3	37	1.44
1002566--1002603	19	2.0	19	85	10	51	34	2	5	57	1.35
1010187--1010239	24	2.2	25	86	3	72	32	15	3	49	1.62
1012916--1012945	14	2.1	14	100	0	60	20	23	6	50	1.71
1022060--1022154	48	2.0	48	82	0	118	25	7	15	51	1.69
1022221--1022261	16	2.6	16	85	14	50	46	9	9	34	1.70
1025721--1025768	21	2.3	21	85	7	62	22	20	29	27	1.99
1025671--1025899	105	2.2	105	89	5	347	27	19	27	25	1.99
1025826--1025867	21	2.0	21	81	9	50	23	21	28	26	1.99
1025922--1026101	84	2.1	84	86	2	245	25	12	33	28	1.92
1026263--1026330	33	2.1	33	88	0	100	23	2	41	32	1.69
1026179--1026399	117	1.9	117	83	1	291	25	13	31	30	1.93
1026293--1026449	84	1.9	84	86	7	230	22	15	31	31	1.95
1026424--1026493	21	3.3	21	82	7	79	18	24	27	30	1.98
1026471--1026710	27	9.6	27	70	17	176	16	23	27	32	1.96
1026441--1026587	75	2.0	75	95	0	267	14	25	28	31	1.95
1026498--1026673	48	3.7	48	90	3	291	17	23	27	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1026441--1026736	123	2.4	121	82	8	341	17	23	27	32	1.96
1031285--1031359	23	3.2	22	76	10	69	58	14	12	14	1.63
1031283--1031349	24	2.9	23	76	12	73	58	14	11	14	1.64
1031570--1031608	20	2.0	20	89	0	60	66	12	5	15	1.41
1036655--1036915	6	43.5	6	98	0	504	16	15	33	34	1.91
1038027--1038259	128	1.8	126	82	7	303	36	16	20	26	1.93
1038186--1038335	75	2.0	75	94	2	266	32	21	16	30	1.95
1044799--1044866	30	2.3	30	89	5	102	26	16	38	19	1.92
1055622--1055667	2	23.0	2	100	0	92	50	0	0	50	1.00
1056950--1057008	25	2.7	21	76	20	59	45	3	0	50	1.18
1056988--1057031	20	2.2	20	87	0	61	36	0	0	63	0.95
1057028--1057097	31	2.2	29	77	20	70	47	0	4	48	1.21
1057124--1057172	23	2.2	21	78	7	53	40	2	2	55	1.23
1057357--1057403	22	2.1	23	88	4	69	53	0	2	44	1.12
1057365--1057408	22	2.0	22	82	8	54	54	0	2	43	1.12
1057325--1057474	53	2.9	53	74	14	134	48	0	2	49	1.15
1057891--1057923	2	16.5	2	93	0	57	45	0	3	51	1.16
1066003--1066212	65	3.3	63	77	14	205	30	23	18	27	1.98
1066200--1066270	19	3.7	19	98	0	133	21	30	21	26	1.98
1074230--1074879	316	2.1	312	87	3	930	40	9	14	36	1.78
1075021--1075118	21	4.8	20	73	10	72	37	20	19	22	1.94
1075086--1075396	20	15.5	20	81	6	79	34	26	19	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1075086--1075475	40	9.7	40	87	2	439	35	25	18	20	1.95
1075124--1075475	20	17.6	19	85	5	398	34	25	18	21	1.96
1076158--1076204	24	2.0	24	87	8	69	25	14	21	38	1.92
1076379--1076403	12	2.1	12	100	0	50	72	0	28	0	0.86
1078686--1078959	19	15.4	19	81	15	354	46	17	21	13	1.83
1078714--1078981	109	2.5	105	91	6	459	46	16	22	14	1.83
1078714--1078981	52	5.0	52	93	4	455	46	16	22	14	1.83
1078988--1079070	20	4.6	19	81	15	113	14	24	18	43	1.87
1079177--1079213	14	2.6	14	91	0	65	45	21	0	32	1.52
1081109--1081237	19	7.3	19	75	17	125	45	28	17	8	1.77
1081145--1081237	33	2.8	32	91	4	150	46	27	18	7	1.76
1081109--1081237	52	2.5	52	74	14	140	45	28	17	8	1.77
1081233--1081367	19	7.6	19	75	16	128	11	19	23	45	1.82
1081255--1081311	14	3.7	14	77	20	60	10	21	22	45	1.82
1081238--1081330	33	2.8	33	95	0	168	10	20	21	47	1.80
1081411--1081789	92	4.1	93	98	0	735	46	18	12	22	1.83
1081411--1081789	185	2.0	185	98	1	733	46	18	12	22	1.83
1083494--1083583	14	5.7	14	74	23	81	42	23	25	8	1.83
1083486--1083600	33	3.5	33	95	0	212	45	20	24	9	1.81
1083493--1083605	19	6.8	18	72	23	88	43	22	24	9	1.83
1083601--1083671	33	2.2	33	92	0	115	9	21	25	43	1.83
1083612--1083693	33	2.5	33	87	2	110	10	24	21	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1083624--1083712	20	4.8	20	69	19	66	13	23	19	43	1.86
1083792--1083862	33	2.2	33	92	0	115	47	18	22	11	1.80
1084044--1084098	22	2.5	22	81	0	74	20	16	40	23	1.91
1084245--1084437	20	9.6	20	82	5	219	19	19	25	35	1.95
1084245--1084437	60	3.2	60	83	0	251	19	19	25	35	1.95
1085188--1085227	20	2.1	20	86	9	57	32	12	20	35	1.90
1086169--1086198	2	15.0	2	100	0	60	50	0	0	50	1.00
1086925--1086974	15	3.3	15	85	0	64	34	14	10	42	1.78
1087077--1087126	3	16.7	3	100	0	100	34	0	0	66	0.92
1087674--1087757	31	2.7	32	83	5	100	19	10	9	60	1.56
1087863--1087924	21	3.0	21	95	0	106	45	30	12	11	1.78
1097259--1097285	13	2.1	13	100	0	54	37	7	29	25	1.83
1102233--1102439	65	3.2	63	83	7	229	30	24	16	27	1.97
1102280--1102443	65	2.5	65	86	1	231	30	26	15	27	1.96
1108222--1108277	22	2.7	21	83	10	62	30	23	17	28	1.97
1109804--1109847	21	2.1	21	86	0	61	9	36	15	38	1.80
1110705--1110886	65	2.8	64	77	8	172	31	23	16	28	1.96
1110725--1110888	65	2.5	65	86	1	231	30	26	15	27	1.96
1124992--1125023	14	2.4	14	90	10	50	25	6	0	68	1.12
1130801--1130868	21	3.2	21	81	8	75	35	11	2	50	1.54
1130871--1130914	22	2.0	23	86	4	63	20	22	20	36	1.95
1132372--1132454	35	2.4	35	78	13	91	30	0	6	63	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1138611--1138665	23	2.4	23	78	6	67	61	14	16	7	1.54
1139152--1139199	21	2.3	21	96	0	87	37	16	22	22	1.94
1140389--1140417	2	14.5	2	100	0	58	51	0	0	48	1.00
1142692--1142774	39	2.1	39	82	4	96	34	3	10	50	1.55
1143092--1143135	23	1.9	23	81	9	54	6	31	9	52	1.59
1162367--1162463	33	2.9	34	85	3	133	55	4	3	37	1.35
1162365--1162470	34	3.2	33	82	8	133	54	4	2	37	1.36
1162848--1163199	125	2.8	126	98	0	679	32	20	25	21	1.98
1163267--1163307	8	5.2	8	82	5	57	36	29	0	34	1.58
1166293--1166331	13	3.2	12	85	14	53	43	0	0	56	0.99
1166290--1166330	11	3.6	11	84	15	57	43	0	0	56	0.99
1167941--1168072	61	2.2	61	81	9	146	34	10	14	40	1.80
1169219--1169263	23	1.9	24	81	4	56	42	8	2	46	1.47
1169264--1169437	43	4.0	43	89	3	233	40	4	2	52	1.34
1169474--1169739	46	6.7	38	74	16	172	48	2	3	46	1.31
1169598--1169672	23	3.3	23	61	0	60	49	1	5	44	1.33
1169611--1169683	23	3.2	23	60	0	56	47	2	2	46	1.31
1169587--1169760	89	1.9	89	91	4	285	49	1	3	45	1.29
1169623--1169695	23	3.2	23	60	0	56	43	2	2	50	1.30
1169634--1169706	23	3.2	23	60	0	56	50	1	5	42	1.34
1169587--1169760	46	3.8	46	93	3	291	49	1	3	45	1.29
1172341--1172399	29	2.0	29	96	0	109	50	13	11	23	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1176979--1177037	29	2.0	29	100	0	118	49	13	13	23	1.78
1179484--1179524	17	2.4	17	91	0	64	26	31	12	29	1.92
1216391--1216546	31	5.0	31	91	1	242	36	22	20	20	1.95
1217318--1217362	21	2.1	21	87	0	63	15	24	28	31	1.96
1220362--1220517	31	5.0	31	91	1	242	36	22	20	20	1.95
1221289--1221333	21	2.1	21	87	0	63	15	24	28	31	1.96
1233116--1233189	35	2.1	35	100	0	148	13	22	9	54	1.68
1238627--1238677	24	2.2	23	86	10	68	52	0	5	41	1.25
1240722--1240773	20	2.6	20	96	0	95	38	26	13	21	1.90
1240763--1240861	21	4.8	20	72	6	72	36	23	19	21	1.95

Tables:   1   2   3   4   5   6   7