genome.fa.s5946.2.7.7.80.10.50.1000.6.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: VEPZ01005946.1 Hibiscus syriacus cultivar Beakdansim tig00013960_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2465359

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  6  of  11  ( 1316 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)
1103201--1103265	19	3.7	19	72	19	68	10	23	23	43	1.85
1103223--1103279	14	3.7	14	75	20	60	8	24	24	42	1.83
1103206--1103287	33	2.5	33	95	0	155	9	23	20	46	1.80
1104946--1105218	91	3.0	92	96	2	500	22	12	19	45	1.83
1105264--1105391	19	7.3	19	73	19	116	45	28	17	8	1.78
1105300--1105391	32	2.8	31	88	8	130	45	28	18	7	1.76
1105387--1105520	19	7.6	19	75	16	119	11	19	23	45	1.82
1105409--1105465	14	3.7	14	77	20	60	10	21	22	45	1.82
1105392--1105483	33	2.8	33	93	1	159	10	20	21	46	1.81
1105409--1105502	51	1.9	47	85	8	125	9	20	24	45	1.80
1107409--1107444	14	2.6	14	95	0	63	33	0	22	44	1.53
1107540--1107644	19	5.8	19	85	10	157	47	16	20	15	1.82
1107548--1107663	52	2.2	52	100	0	232	44	18	23	13	1.85
1107659--1107866	33	6.2	33	77	15	214	13	21	19	45	1.84
1107653--1107852	19	11.7	19	71	22	158	15	21	19	45	1.86
1107653--1107821	51	3.3	52	91	4	279	14	21	18	44	1.85
1110103--1110127	12	2.1	12	100	0	50	0	28	0	72	0.86
1110300--1110347	24	2.0	24	88	8	71	37	20	14	27	1.92
1111012--1111161	40	3.8	40	88	1	194	17	16	24	41	1.89
1111012--1111161	20	7.5	20	84	3	158	17	16	24	41	1.89
1112881--1112914	17	2.0	17	94	0	59	41	8	17	32	1.80
1113772--1113820	18	2.7	18	90	0	71	32	32	16	18	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1117561--1117619	21	2.6	22	77	15	66	40	6	1	50	1.39
1119835--1119864	3	9.7	3	92	7	51	66	0	3	30	1.07
1120227--1120280	14	3.9	14	73	9	56	22	0	33	44	1.53
1124684--1124825	60	2.4	59	77	13	146	30	15	17	36	1.91
1130001--1130055	6	9.5	6	82	7	69	0	29	50	20	1.48
1130017--1130061	22	2.0	22	95	0	81	0	24	51	24	1.49
1131960--1132014	22	2.5	22	69	0	56	20	7	16	56	1.63
1133459--1133500	16	2.7	16	88	3	59	54	4	0	40	1.21
1134002--1134100	31	3.2	29	79	9	99	41	5	11	42	1.62
1134021--1134101	30	2.6	31	80	7	94	39	6	11	43	1.65
1134736--1134828	48	1.9	49	88	2	143	39	11	11	36	1.79
1141996--1142063	29	2.3	30	89	2	102	25	23	8	42	1.82
1147726--1148261	83	6.5	83	85	0	653	34	16	18	30	1.93
1149241--1149315	32	2.3	32	95	0	132	54	21	6	17	1.65
1150130--1150188	30	2.0	30	82	0	73	15	38	8	37	1.78
1151326--1151355	2	15.0	2	100	0	60	50	0	0	50	1.00
1152161--1152238	19	4.1	19	74	11	61	53	1	1	43	1.16
1152362--1152396	18	1.9	18	88	0	52	71	5	0	22	1.07
1154769--1154802	2	17.0	2	100	0	68	50	0	0	50	1.00
1155608--1155675	19	3.6	19	75	11	59	52	1	1	44	1.19
1155806--1155840	18	1.9	18	88	0	52	71	5	0	22	1.07
1157673--1157739	30	2.1	30	83	8	80	31	7	14	46	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1163750--1163785	19	1.9	18	88	5	54	75	0	2	22	0.94
1164948--1164999	25	2.2	24	82	6	61	44	5	19	30	1.74
1170779--1170863	23	3.3	26	76	20	88	47	2	0	50	1.14
1170790--1170851	25	2.6	23	87	10	81	46	3	0	50	1.17
1171031--1171094	31	2.0	32	82	8	78	45	4	12	37	1.63
1177136--1177204	2	34.5	2	100	0	138	49	0	0	50	1.00
1177368--1177427	31	1.9	31	90	6	95	26	48	18	6	1.72
1177399--1177447	20	2.5	20	100	0	98	24	51	16	8	1.71
1178090--1178133	21	2.1	21	91	0	70	29	0	15	54	1.42
1178110--1178163	28	1.9	28	96	0	99	29	0	12	57	1.36
1178317--1178410	51	1.9	49	83	12	122	40	1	8	50	1.40
1181236--1182181	60	16.2	59	91	5	1373	40	0	12	47	1.42
1181434--1181936	21	24.6	20	64	19	74	40	0	11	48	1.41
1181233--1182181	229	4.1	229	91	5	1485	40	0	12	47	1.42
1181624--1181705	25	3.3	25	66	8	69	39	0	13	47	1.43
1182044--1182128	10	8.7	10	72	27	58	41	0	14	44	1.45
1182149--1182196	14	3.6	14	81	16	66	35	0	16	47	1.47
1182149--1182197	25	2.0	25	95	0	89	36	0	16	46	1.47
1184507--1184610	30	3.4	30	83	11	115	48	10	1	39	1.49
1184788--1184827	21	1.9	21	94	0	71	55	15	0	30	1.41
1184855--1184909	18	3.4	18	65	31	52	52	9	0	38	1.33
1184929--1185000	38	2.0	37	86	13	105	48	9	0	41	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1185036--1185088	28	1.9	27	92	3	88	50	15	1	32	1.54
1185172--1185209	9	4.2	9	83	10	51	65	2	0	31	1.06
1185379--1185413	11	3.1	11	84	8	52	37	20	20	22	1.95
1185510--1185593	29	2.9	28	91	7	132	15	30	29	23	1.95
1185618--1185680	21	3.0	21	65	21	51	22	44	19	14	1.86
1185726--1185791	33	2.0	33	96	0	123	13	19	39	27	1.89
1185780--1185840	31	2.0	31	90	6	97	4	21	49	24	1.69
1185825--1185882	29	2.0	29	100	0	116	13	31	37	17	1.89
1195516--1195584	35	1.9	36	91	2	113	24	5	8	60	1.48
1195665--1195779	38	3.0	38	96	0	212	36	10	13	39	1.80
1198905--1198944	21	1.9	21	84	0	53	37	10	15	37	1.80
1201755--1201800	23	2.0	23	91	0	74	50	19	13	17	1.78
1201994--1202069	30	2.5	30	89	2	107	31	0	6	61	1.21
1201996--1202041	18	2.5	19	77	19	53	28	0	4	67	1.10
1203319--1203343	7	3.6	7	100	0	50	44	0	0	56	0.99
1205655--1206570	188	4.8	190	91	2	1398	24	18	20	37	1.94
1205655--1206570	190	4.8	189	91	2	1367	24	18	20	37	1.94
1207079--1207134	10	6.0	10	77	10	57	51	0	0	48	1.00
1207075--1207205	52	2.4	54	74	12	126	51	2	0	45	1.19
1207238--1207308	24	3.0	24	68	17	60	50	0	0	49	1.00
1207239--1207310	15	4.7	15	71	25	53	50	0	0	50	1.00
1210869--1210929	23	2.7	23	89	0	95	26	27	26	19	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1210945--1211265	103	3.1	103	96	0	579	37	22	12	27	1.90
1212195--1212219	2	12.5	2	100	0	50	48	0	0	52	1.00
1214063--1214120	30	1.9	30	100	0	116	41	3	8	46	1.51
1222417--1222492	32	2.4	32	86	0	107	36	9	13	40	1.76
1222434--1222482	16	3.1	16	72	21	57	36	8	12	42	1.72
1227151--1227189	17	2.4	17	95	4	71	43	0	5	51	1.24
1230067--1230115	23	2.1	23	100	0	98	24	20	22	32	1.98
1233867--1233974	3	36.0	3	100	0	216	66	0	33	0	0.92
1244518--1244545	14	2.0	14	100	0	56	28	0	7	64	1.20
1244734--1244762	2	14.5	2	100	0	58	48	0	0	51	1.00
1260642--1260680	20	2.0	20	89	0	60	33	10	23	33	1.88
1262892--1263103	4	51.0	4	70	12	106	23	3	6	66	1.30
1262877--1263012	23	6.2	22	72	13	77	21	2	6	69	1.22
1262940--1263072	61	2.2	62	86	2	180	24	4	6	65	1.34
1263017--1263122	49	2.2	46	83	11	126	29	3	2	64	1.25
1263039--1263103	26	2.4	27	87	2	87	26	1	3	69	1.12
1263017--1263117	23	4.5	22	76	13	82	28	3	2	64	1.26
1266854--1266912	14	4.3	14	78	4	66	38	1	0	59	1.08
1269866--1269974	29	3.7	29	77	16	123	23	30	32	13	1.94
1269907--1269955	16	3.1	16	100	0	98	24	38	24	12	1.90
1272505--1272537	13	2.3	15	90	10	52	63	15	9	12	1.51
1272823--1272877	28	2.0	28	81	0	65	32	18	16	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1273083--1273139	28	2.0	29	86	3	80	38	8	10	42	1.71
1277754--1277803	16	3.1	17	80	8	59	48	2	4	46	1.32
1277756--1277791	18	2.0	18	89	10	56	50	0	2	47	1.15
1283869--1284180	162	1.9	162	84	3	414	33	16	18	31	1.93
1283869--1284187	83	3.9	82	83	4	367	34	16	17	31	1.93
1287097--1287138	2	21.0	2	100	0	84	50	0	0	50	1.00
1288158--1288211	19	2.8	19	80	8	56	74	3	0	22	0.98
1288173--1288263	8	11.8	8	71	12	57	68	2	1	28	1.09
1288173--1288263	24	3.6	25	78	8	69	68	2	1	28	1.09
1293877--1293948	31	2.3	31	78	0	81	22	9	15	52	1.71

Tables:   1   2   3   4   5   6   7   8   9   10   11