genome.fa.s5349.2.7.7.80.10.50.1000.5.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: VEPZ01005349.1 Hibiscus syriacus cultivar Beakdansim tig00012136_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1796274

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 858 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)
964098--964201	46	2.2	47	91	1	165	20	20	25	33	1.97
965432--965477	22	2.1	23	88	8	69	13	19	28	39	1.89
966958--967213	92	3.0	82	79	6	251	21	19	11	48	1.80
967041--967240	46	4.3	46	82	2	204	22	19	10	48	1.78
967060--967241	92	2.0	92	86	0	256	21	19	9	48	1.77
973588--973716	46	2.9	45	85	7	156	21	21	11	44	1.84
977266--977331	3	23.0	3	76	11	59	63	0	3	33	1.10
977266--977331	14	4.9	14	72	20	52	63	0	3	33	1.10
983231--983272	2	21.0	2	100	0	84	50	0	0	50	1.00
984169--984221	12	4.4	12	73	0	52	16	11	16	54	1.70
984169--984226	24	2.4	24	85	0	80	15	12	15	56	1.67
986946--986975	2	15.0	2	100	0	60	50	0	0	50	1.00
987870--987930	24	2.5	24	83	0	77	13	18	19	49	1.79
987867--987937	36	2.0	36	88	0	106	11	19	18	50	1.76
987867--987937	12	5.9	12	74	0	52	11	19	18	50	1.76
990085--990235	29	5.3	29	76	7	123	41	20	6	31	1.78
990115--990264	29	5.3	27	76	9	113	40	21	8	29	1.83
990107--990260	84	1.8	84	84	5	213	41	20	7	29	1.81
990263--990322	26	2.4	25	77	2	66	21	23	38	16	1.93
996624--996774	29	5.4	28	73	12	112	39	22	6	31	1.80
996811--996862	13	4.3	13	76	16	58	15	23	44	17	1.86
997637--997678	20	2.1	20	100	0	84	30	14	23	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
999469--999540	32	2.2	32	95	0	135	47	20	16	15	1.83
1002149--1002287	29	5.0	28	75	11	106	38	20	6	33	1.79
1002345--1002380	13	2.8	13	86	0	54	16	22	44	16	1.86
1005012--1005083	32	2.2	32	97	0	135	48	22	15	13	1.80
1018046--1018076	7	4.4	7	91	0	53	29	29	25	16	1.96
1018073--1018115	5	8.8	5	89	5	61	0	16	58	25	1.38
1018072--1018124	24	2.2	24	82	0	61	3	20	52	22	1.62
1024656--1024693	5	7.8	5	88	5	60	0	18	57	23	1.40
1024655--1024693	19	2.1	19	95	0	69	0	20	56	23	1.42
1024655--1024685	9	3.3	9	91	8	53	0	22	58	19	1.40
1024656--1024693	14	2.6	15	87	8	60	0	18	57	23	1.40
1024661--1024721	19	3.2	19	78	0	50	11	22	44	21	1.84
1024692--1024778	19	4.5	19	82	7	97	27	27	26	18	1.98
1024722--1024783	20	3.2	20	73	15	58	32	24	25	17	1.97
1026884--1026920	3	12.3	3	94	0	65	29	0	2	67	1.04
1029682--1029815	28	4.6	28	70	22	80	62	2	2	31	1.25
1029761--1029803	18	2.5	17	85	7	61	67	2	4	25	1.22
1030860--1031739	106	8.3	106	91	0	1400	22	18	23	34	1.96
1033090--1033125	18	2.0	18	94	0	63	41	33	8	16	1.78
1033313--1033359	24	2.0	24	95	0	85	38	2	19	40	1.63
1033540--1033592	22	2.4	22	96	0	97	24	13	28	33	1.93
1034198--1034256	20	3.1	18	76	23	59	1	8	6	83	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1034205--1034241	10	3.7	10	88	0	56	0	8	5	86	0.70
1034216--1034255	14	2.9	13	82	10	53	0	10	5	85	0.75
1034205--1034261	9	6.1	9	81	6	60	0	10	7	82	0.84
1037634--1037701	27	2.5	27	77	15	68	70	0	2	26	1.01
1037952--1037995	18	2.6	17	85	7	63	68	2	4	25	1.20
1048753--1048782	12	2.5	12	94	0	51	43	0	0	56	0.99
1055431--1055465	18	1.9	18	88	0	52	22	51	17	8	1.72
1055471--1055585	29	4.0	29	87	2	151	33	5	13	46	1.66
1056299--1056330	2	16.0	2	100	0	64	50	0	0	50	1.00
1062892--1062980	36	2.5	36	85	1	117	19	50	15	14	1.78
1062905--1062980	18	4.3	18	91	1	109	19	52	14	13	1.74
1062984--1063132	29	5.0	29	82	13	128	26	4	18	50	1.66
1063044--1063111	34	2.0	34	97	0	127	23	2	22	51	1.61
1063284--1063335	20	2.6	20	100	0	104	19	25	15	40	1.90
1077050--1077381	81	4.1	81	86	0	423	30	21	10	37	1.87
1077798--1077839	22	1.9	22	100	0	84	33	14	9	42	1.78
1077798--1077846	22	2.2	22	92	0	80	32	14	10	42	1.79
1082703--1082735	15	2.1	16	88	5	50	66	0	0	33	0.92
1097493--1097567	31	2.4	31	86	0	96	32	32	21	14	1.93
1101997--1102083	3	29.0	3	78	15	74	27	2	3	66	1.20
1104730--1104780	21	2.4	22	75	15	52	25	1	0	72	0.95
1106420--1106463	21	2.1	20	84	16	54	13	13	13	59	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1106420--1106456	15	2.5	15	86	4	58	13	16	13	56	1.67
1114047--1114149	54	1.9	52	86	11	147	34	15	20	29	1.93
1114905--1115357	113	3.9	113	80	7	450	37	15	20	27	1.92
1115719--1115800	3	27.3	3	76	16	73	29	2	2	65	1.18
1115720--1115797	11	7.1	11	72	15	63	29	2	2	65	1.19
1120568--1120624	30	1.9	30	100	0	114	29	8	14	47	1.74
1123103--1123173	27	2.6	27	88	0	106	33	11	22	32	1.90
1126492--1126524	15	2.1	16	88	5	50	66	0	3	30	1.06
1126642--1126694	24	2.2	24	93	0	88	37	5	16	39	1.73
1127641--1127688	25	1.9	25	82	0	60	27	6	22	43	1.77
1130965--1131012	3	16.0	3	95	0	87	33	2	0	64	1.05
1132306--1132330	11	2.3	11	100	0	50	16	12	24	48	1.79
1135139--1135252	60	1.9	60	81	3	140	42	15	9	32	1.80
1149755--1149798	17	2.5	18	88	7	72	15	29	22	31	1.95
1157505--1157549	18	2.5	18	88	0	63	22	26	22	28	1.99
1160639--1160819	29	6.3	29	78	6	154	41	22	6	29	1.79
1170275--1170336	27	2.3	27	82	0	79	46	24	4	24	1.71
1171063--1171156	39	2.4	39	87	0	143	22	21	21	35	1.96
1171165--1171263	40	2.5	39	77	9	103	21	22	24	32	1.98
1173159--1173257	39	2.6	39	82	7	130	40	25	4	30	1.74
1180915--1180973	24	2.5	24	82	0	73	18	10	16	54	1.70
1182143--1182338	98	2.0	98	90	0	311	34	17	16	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1190617--1190771	84	1.8	85	83	6	208	32	3	12	51	1.56
1192856--1192944	28	3.2	28	69	12	92	43	21	11	23	1.84
1213579--1213624	17	3.0	15	81	12	58	67	4	6	21	1.32
1214803--1214876	39	1.9	38	89	5	114	28	5	22	43	1.75
1214791--1214877	37	2.3	37	84	4	120	29	5	24	40	1.78
1217318--1217375	26	2.2	26	100	0	116	24	39	15	20	1.91
1218069--1218148	2	40.0	2	100	0	160	50	0	0	50	1.00
1218805--1219571	55	14.1	54	82	7	447	25	23	17	33	1.96
1218823--1219411	163	3.6	161	78	11	492	26	23	16	33	1.96
1219204--1219570	105	3.4	105	83	6	463	21	24	19	34	1.97
1219156--1219576	159	2.6	160	87	1	558	22	24	18	34	1.96
1219182--1219573	54	7.3	54	85	4	481	22	24	18	33	1.96
1224125--1224207	27	3.1	27	91	3	125	21	7	24	46	1.76
1224909--1224936	14	2.0	14	100	0	56	50	14	7	28	1.69
1225142--1225199	25	2.3	25	93	0	98	48	12	13	25	1.77
1227939--1227976	19	2.0	19	89	0	58	23	0	18	57	1.40
1235628--1235673	22	2.0	23	91	4	76	45	23	10	19	1.82
1239086--1239125	19	2.1	19	85	0	53	50	2	2	45	1.28
1238849--1239693	416	2.0	413	84	7	1107	42	8	10	39	1.68
1240185--1240219	15	2.3	15	90	0	52	51	5	8	34	1.56
1240926--1240988	2	31.5	2	100	0	126	50	0	0	49	1.00
1241050--1241124	35	2.1	35	95	0	132	34	28	28	9	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1241206--1241301	24	4.1	23	77	5	102	40	19	12	27	1.88
1245275--1245328	26	2.0	27	82	3	65	57	9	5	27	1.52
1245902--1245992	24	3.8	24	79	2	94	38	18	16	26	1.92
1250243--1251772	508	3.0	507	97	0	2893	38	12	9	40	1.75
1252431--1252463	16	2.1	16	100	0	66	42	24	0	33	1.55
1254513--1254628	46	2.5	46	85	1	144	32	18	16	31	1.94
1258185--1258225	20	2.0	20	100	0	82	29	19	14	36	1.92
1258842--1258906	15	4.3	15	77	11	62	78	6	13	1	1.01
1258854--1258907	16	3.5	16	85	5	67	81	3	12	1	0.91
1260634--1260749	36	3.2	34	75	11	97	28	20	12	37	1.90

Tables:   1   2   3   4   5   6   7   8