genome.fa.s8703.2.7.7.80.10.50.1000.5.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: VEPZ01008703.1 Hibiscus syriacus cultivar Beakdansim tig00111742_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1275178

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 639 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)
954933--954957	2	12.5	2	100	0	50	52	0	0	48	1.00
958544--958583	21	1.9	21	89	0	62	60	2	2	35	1.24
958984--959056	38	1.9	38	88	0	110	19	6	17	56	1.63
964364--964492	44	2.9	44	87	0	168	27	20	19	33	1.96
968736--968771	2	18.0	2	100	0	72	50	0	0	50	1.00
976636--976786	76	1.9	77	81	9	180	45	5	7	41	1.54
990668--990718	3	17.7	3	82	8	61	64	1	1	31	1.15
990682--990725	20	2.2	20	83	0	52	61	4	4	29	1.36
992251--992298	2	24.0	2	100	0	96	50	0	0	50	1.00
993961--994048	46	1.9	46	86	4	124	18	12	9	60	1.58
997371--997481	24	4.6	24	79	4	116	19	10	14	54	1.69
997373--997479	48	2.2	48	85	3	135	19	10	14	55	1.68
997373--997431	12	4.9	12	72	15	59	18	8	16	55	1.66
1001509--1001603	24	4.0	24	75	5	93	25	8	17	48	1.75
1001511--1001604	48	2.0	48	86	0	134	24	8	17	50	1.73
1001773--1001797	13	1.9	13	100	0	50	52	0	0	48	1.00
1013164--1013391	54	4.2	54	83	1	276	29	8	18	43	1.80
1014854--1015212	117	3.1	116	83	5	409	38	15	18	27	1.91
1017815--1017846	13	2.4	14	89	10	57	68	6	6	18	1.32
1022207--1022238	3	10.7	3	93	0	55	34	3	0	62	1.11
1026914--1027011	42	2.3	42	81	6	101	42	5	3	48	1.40
1031203--1031319	18	6.5	18	79	2	119	24	23	17	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1031203--1031316	36	3.2	36	83	2	131	23	24	17	34	1.96
1031206--1031319	54	2.1	54	83	0	138	23	24	17	34	1.96
1033896--1033925	14	2.1	14	100	0	60	23	6	30	40	1.80
1040224--1040284	32	1.9	32	89	0	95	27	29	21	21	1.98
1042673--1042764	48	1.9	48	81	0	112	20	13	15	51	1.76
1042670--1042749	24	3.3	24	80	0	88	22	15	16	46	1.84
1044061--1044085	13	1.9	13	100	0	50	88	4	8	0	0.64
1044694--1044738	23	2.0	23	95	0	81	53	8	15	22	1.69
1046428--1046543	24	4.9	24	84	9	157	41	18	16	24	1.90
1051314--1051434	24	5.0	24	80	7	129	41	19	13	26	1.88
1051328--1051447	24	5.0	25	76	15	119	41	19	14	25	1.88
1062544--1062623	41	2.0	41	94	0	142	30	20	26	23	1.98
1065882--1065911	2	15.0	2	92	0	51	53	0	0	46	1.00
1066127--1066179	27	2.0	26	82	17	65	64	1	3	30	1.22
1066298--1066327	2	15.0	2	92	0	51	46	0	0	53	1.00
1066099--1066343	129	1.9	130	79	9	277	46	7	6	39	1.57
1067729--1067791	3	20.7	3	79	9	65	58	0	1	39	1.07
1067716--1067759	18	2.4	18	84	3	52	52	0	0	47	1.00
1067918--1068201	45	6.3	45	89	1	433	31	20	24	23	1.98
1067918--1068191	92	3.0	92	92	1	453	30	21	25	23	1.99
1067918--1068201	137	2.1	135	90	1	451	31	20	24	23	1.98
1068135--1068329	76	2.6	76	88	2	297	32	22	21	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1068965--1069021	22	2.6	22	97	0	105	36	14	15	33	1.88
1070370--1070538	75	2.3	75	85	0	221	33	22	15	28	1.94
1073715--1073841	6	20.8	6	81	9	107	56	0	1	40	1.14
1073715--1073841	9	13.9	9	76	9	107	56	0	1	40	1.14
1073726--1073828	49	2.2	49	89	5	158	54	0	1	43	1.11
1073717--1073841	55	2.3	55	90	5	207	56	0	1	41	1.15
1078803--1079054	128	2.0	128	95	0	450	33	20	16	29	1.94
1079295--1079332	15	2.5	15	95	0	67	26	21	13	39	1.89
1081927--1081998	33	2.1	34	82	7	94	45	1	1	51	1.18
1082025--1082095	30	2.4	30	95	0	133	49	0	2	47	1.16
1084311--1084366	19	2.8	20	75	20	64	19	1	12	66	1.33
1085016--1085073	30	2.0	29	82	3	71	34	5	25	34	1.78
1087371--1087418	23	2.1	23	100	0	96	43	12	12	31	1.80
1087375--1087430	23	2.4	23	88	5	69	48	8	12	30	1.72
1087426--1087461	18	2.0	18	100	0	72	50	5	16	27	1.68
1089018--1089270	59	4.3	59	89	0	380	46	16	6	31	1.72
1093288--1093457	59	2.9	59	90	0	268	44	14	7	32	1.74
1097508--1097636	59	2.2	59	88	0	195	44	18	6	31	1.74
1097659--1097701	18	2.4	18	88	0	59	16	20	44	18	1.87
1101704--1101873	59	2.9	59	92	0	277	47	14	6	31	1.70
1104236--1104302	27	2.5	27	100	0	134	32	4	20	41	1.73
1104467--1104504	13	2.6	14	88	12	51	34	2	2	60	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1107894--1107959	24	2.8	24	86	2	80	36	3	42	18	1.66
1126727--1126789	9	6.8	9	85	3	72	4	22	0	73	1.02
1126728--1126765	10	3.9	10	96	3	69	0	26	0	73	0.83
1126769--1126808	20	2.0	19	85	9	53	10	15	2	72	1.21
1130936--1130971	17	2.1	17	100	0	72	41	11	8	38	1.71
1139826--1139886	20	3.0	21	83	9	72	18	16	6	59	1.58
1139856--1139896	20	2.0	20	86	9	57	17	19	12	51	1.76
1142051--1142359	133	2.3	133	81	1	395	32	17	18	31	1.94
1144584--1144614	13	2.4	13	100	0	62	16	6	0	77	0.97
1147256--1147462	4	51.2	4	67	21	76	71	1	4	22	1.15
1147256--1147429	21	7.9	21	70	16	68	70	1	5	21	1.17
1147246--1147312	26	2.4	30	74	18	72	68	0	10	20	1.18
1147340--1147449	24	4.4	25	74	18	111	72	1	0	24	1.00
1147289--1147429	57	2.5	56	76	15	137	70	2	5	21	1.18
1147342--1147432	33	3.0	31	73	16	82	74	2	1	21	0.99
1147340--1147460	36	3.2	36	73	15	102	73	2	0	23	1.00
1148074--1148180	37	2.9	38	84	2	137	32	11	14	41	1.82
1148946--1149060	34	3.4	34	89	1	178	35	7	17	39	1.79
1149044--1149604	73	8.0	72	76	11	332	41	13	19	26	1.88
1149113--1149612	36	14.1	36	78	10	496	41	13	19	26	1.88
1149148--1149411	138	1.9	138	89	4	408	40	14	18	26	1.89
1149113--1149612	211	2.4	210	92	2	831	41	13	19	26	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1149518--1149580	21	3.3	21	62	25	57	42	12	19	25	1.86
1149497--1149637	36	3.9	36	84	8	153	38	13	20	27	1.90
1150411--1150450	20	2.0	20	100	0	80	30	10	10	50	1.69
1151331--1151422	14	6.9	13	68	12	62	3	17	3	76	1.06
1154481--1154692	4	51.8	4	70	17	73	71	1	4	22	1.11
1154481--1154530	23	2.3	21	86	10	66	74	0	2	24	0.93
1154570--1154694	22	5.5	23	76	18	109	73	1	0	24	0.97
1154570--1154714	25	6.1	25	73	19	107	72	2	1	24	1.03
1154567--1154688	9	13.2	9	75	14	65	73	1	0	23	0.97
1154566--1154704	55	2.4	57	82	8	158	74	2	0	23	0.98
1154568--1154714	27	5.0	27	73	16	107	72	2	1	23	1.03
1154567--1154747	92	2.0	92	82	6	224	71	2	2	23	1.11
1155319--1155430	37	3.0	37	88	0	161	32	12	13	41	1.82
1159702--1159785	15	5.6	15	79	9	82	38	2	3	55	1.30
1166441--1166480	20	2.0	20	95	0	71	10	22	5	62	1.46
1171034--1171140	43	2.5	43	81	4	108	27	18	17	36	1.94
1171058--1171173	44	2.7	44	79	1	117	25	19	19	34	1.96
1171189--1171305	39	3.0	39	81	2	128	17	25	20	35	1.95
1177068--1177224	44	3.6	44	81	5	165	22	26	19	32	1.97
1180203--1180252	17	2.9	17	81	0	64	36	14	6	44	1.69
1181959--1181996	19	2.0	19	100	0	76	52	10	21	15	1.72
1181961--1182002	19	2.2	19	91	0	66	57	9	21	11	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1187088--1187130	17	2.5	17	88	0	59	41	11	4	41	1.62
1190291--1190340	17	2.9	17	87	0	73	42	10	6	42	1.63
1193775--1193817	17	2.3	18	80	19	52	34	11	11	41	1.78
1193789--1193838	17	2.9	17	85	5	66	40	14	6	40	1.70
1196233--1196277	21	2.3	18	82	14	54	66	4	20	8	1.36
1200807--1200856	17	2.9	17	87	0	73	38	14	6	42	1.70
1202827--1202898	35	2.1	35	94	0	126	38	23	20	16	1.92
1203311--1203355	21	2.1	21	84	8	56	48	0	24	26	1.51
1205932--1205965	16	2.0	17	88	11	52	70	2	0	26	1.01
1210934--1210991	24	2.4	24	76	0	62	29	22	24	24	1.99

Tables:   1   2   3   4   5   6