genome.fa.s7173.2.7.7.80.10.50.1000.7.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: VEPZ01007173.1 Hibiscus syriacus cultivar Beakdansim tig00018827_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1357898

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 987 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)
1088457--1088540	21	4.0	21	73	13	64	32	21	19	27	1.97
1088957--1089000	18	2.3	20	81	14	58	18	2	11	68	1.30
1092168--1092196	12	2.3	13	94	5	51	20	41	24	13	1.89
1092205--1092392	29	6.6	28	82	4	189	32	2	18	46	1.61
1092206--1092392	84	2.2	86	83	3	225	32	2	18	47	1.60
1099269--1099332	19	3.4	19	83	12	87	18	23	31	26	1.98
1099389--1099558	29	6.0	28	79	9	159	34	0	15	50	1.49
1101718--1101805	41	2.1	42	85	2	115	31	19	19	29	1.96
1106042--1106084	6	7.2	6	84	7	52	48	18	13	18	1.80
1121657--1122029	184	2.0	182	88	5	556	43	2	8	46	1.45
1122270--1122306	17	2.3	17	90	9	60	13	29	32	24	1.93
1122345--1122400	15	3.6	15	72	25	53	17	25	33	23	1.96
1122332--1122401	32	2.2	32	89	0	104	20	25	31	22	1.98
1122531--1122566	16	2.3	15	90	4	54	52	5	0	41	1.24
1124038--1124094	20	2.8	20	79	10	80	40	21	26	12	1.88
1124058--1124205	33	4.7	33	79	12	175	45	20	22	10	1.81
1124091--1124209	59	2.0	59	100	0	238	47	20	21	10	1.79
1124446--1124679	119	2.0	114	95	4	423	31	29	15	23	1.95
1125360--1125415	20	2.8	20	75	20	71	42	21	23	12	1.86
1125400--1125455	14	3.6	14	74	21	58	42	21	25	10	1.85
1125413--1125477	19	3.7	19	72	19	68	44	18	23	13	1.85
1125400--1125472	33	2.2	33	95	0	128	45	19	23	12	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1125504--1125594	20	4.6	20	82	9	114	12	17	19	50	1.77
1126161--1126218	21	2.5	23	83	10	75	51	0	6	41	1.28
1126483--1126572	39	2.3	39	79	11	112	44	1	17	36	1.57
1126978--1127043	31	2.2	29	89	5	96	54	6	6	33	1.50
1127258--1127315	21	2.7	21	78	2	62	37	12	6	43	1.69
1127312--1127399	45	2.0	45	90	0	140	47	6	5	39	1.54
1129892--1130414	150	3.5	149	91	3	849	29	21	25	24	1.99
1130519--1130572	27	2.0	27	100	0	108	22	0	25	51	1.48
1132396--1132511	20	5.8	20	71	15	87	37	23	18	20	1.94
1132387--1132509	40	3.0	40	85	3	167	39	22	17	20	1.93
1132836--1132920	33	2.5	34	88	3	127	45	18	22	12	1.83
1133064--1133100	14	2.6	14	86	0	56	48	21	0	29	1.50
1135044--1135112	20	3.5	20	91	0	102	36	23	20	20	1.95
1135155--1135232	33	2.5	31	80	4	84	12	21	19	46	1.83
1135320--1135699	94	4.1	94	96	1	674	47	18	12	21	1.82
1137398--1137472	20	3.8	20	79	10	82	42	21	24	12	1.86
1137508--1137618	20	5.8	20	78	13	101	10	19	19	49	1.77
1138150--1138361	20	10.6	20	73	8	162	20	17	24	37	1.93
1138152--1138361	41	5.2	41	86	3	284	20	17	24	38	1.93
1138409--1138464	19	2.8	20	83	5	69	17	19	17	44	1.87
1139196--1139265	21	3.2	20	75	18	61	60	1	4	34	1.25
1139225--1139272	24	2.0	24	84	15	64	58	4	4	33	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1141186--1141251	3	22.0	3	96	0	123	31	0	1	66	1.01
1141691--1141909	113	1.9	114	85	0	305	27	18	20	33	1.96
1142959--1143034	30	2.6	28	87	8	107	14	9	1	75	1.11
1145265--1145325	19	3.0	20	80	13	63	59	3	4	32	1.35
1146530--1146608	40	2.0	40	87	5	115	29	18	16	35	1.93
1147665--1147689	11	2.3	11	100	0	50	0	16	0	84	0.63
1147645--1147756	38	3.0	38	90	2	181	11	10	0	76	1.06
1147645--1147756	9	11.9	9	71	18	61	11	10	0	76	1.06
1152152--1152370	94	2.3	94	87	0	303	33	14	24	27	1.94
1152714--1152855	55	2.6	55	84	4	173	32	12	21	33	1.91
1153082--1153268	67	2.8	66	86	3	239	31	13	23	31	1.94
1153814--1153869	22	2.7	20	84	10	76	32	16	26	25	1.96
1153744--1153962	94	2.3	95	90	0	332	33	15	25	26	1.95
1154307--1154482	55	3.2	55	80	3	176	38	9	18	34	1.83
1158423--1158585	55	3.0	55	76	8	152	38	9	17	34	1.83
1158787--1158963	68	2.6	67	81	3	203	29	13	24	32	1.94
1158914--1159538	81	7.7	81	86	1	824	35	11	23	29	1.90
1162103--1162310	104	2.0	104	100	0	416	25	21	11	41	1.87
1166296--1166340	15	3.0	14	87	6	54	75	2	8	13	1.13
1170642--1170690	21	2.3	21	92	0	80	26	14	14	44	1.83
1170642--1170697	21	2.7	21	88	2	69	26	16	14	42	1.86
1172955--1173099	75	1.9	75	87	5	213	54	9	2	33	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1177283--1177349	20	3.3	20	79	4	89	40	17	22	19	1.92
1177280--1177375	41	2.3	41	96	0	174	39	16	23	19	1.92
1177283--1177375	20	4.6	20	75	4	87	38	17	24	19	1.92
1177361--1177439	41	1.9	42	84	2	106	39	21	16	22	1.92
1177361--1177411	20	2.5	20	77	3	57	45	19	15	19	1.86
1177406--1177459	21	2.7	20	91	2	81	27	27	18	25	1.98
1177363--1177479	21	5.7	20	74	9	67	35	23	17	23	1.95
1177949--1177986	20	1.9	20	88	0	58	13	15	21	50	1.78
1179293--1179336	17	2.5	18	81	3	54	27	40	15	15	1.88
1179839--1179934	19	5.6	18	69	25	75	46	22	18	11	1.81
1179839--1179929	32	2.8	33	93	3	157	48	23	17	10	1.79
1179855--1179912	14	3.9	14	77	16	62	50	25	15	8	1.73
1181696--1181731	14	2.6	14	90	0	54	30	0	22	47	1.52
1181901--1181957	20	2.8	20	94	0	96	21	22	17	38	1.93
1183009--1183067	24	2.5	24	82	0	73	28	16	18	35	1.93
1185568--1185624	14	3.7	14	72	20	51	42	21	26	10	1.85
1185550--1185643	33	2.8	33	96	0	170	43	20	24	11	1.85
1185530--1185647	19	6.7	19	71	19	85	42	21	23	12	1.87
1185643--1185685	20	2.2	20	87	4	61	16	18	23	41	1.89
1185671--1185704	14	2.4	14	85	0	50	8	23	20	47	1.78
1185826--1185862	14	2.6	14	91	0	65	45	24	0	29	1.53
1186291--1186384	20	4.7	20	80	2	89	23	18	24	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1186373--1186448	21	3.7	21	78	3	91	17	25	18	39	1.91
1186312--1186446	41	3.3	41	81	4	130	20	21	20	37	1.94
1186373--1186465	20	4.6	20	77	4	87	18	23	18	39	1.92
1186373--1186468	41	2.3	41	96	0	174	18	22	17	40	1.91
1190240--1190283	21	2.1	21	95	0	79	34	15	9	40	1.79
1194668--1194711	21	2.1	21	87	8	63	25	2	0	72	0.96
1194775--1195080	36	8.5	35	74	18	149	44	3	7	44	1.49
1194845--1195071	36	6.1	39	79	14	221	44	2	7	44	1.45
1195102--1195191	5	17.8	5	75	16	71	23	2	2	72	1.07
1195113--1195172	14	4.4	13	74	24	52	20	0	3	76	0.92
1195104--1195161	28	2.1	28	84	12	75	22	0	3	74	0.97
1195102--1195169	24	2.8	23	80	17	75	22	0	2	75	0.94
1198937--1198993	15	3.5	15	72	25	53	19	24	36	19	1.94
1198936--1199021	34	2.4	36	92	3	149	18	26	36	18	1.94
1198952--1199014	15	3.4	19	68	28	55	19	25	38	17	1.93
1198986--1199026	21	2.0	21	90	9	66	17	29	36	17	1.92
1202158--1202200	21	2.0	22	90	4	70	25	30	20	23	1.99
1202312--1202397	34	2.5	35	90	1	147	18	25	36	19	1.95
1202312--1202401	15	5.1	19	69	28	74	17	25	36	20	1.94
1204873--1205073	95	2.1	95	91	2	323	35	17	15	30	1.92
1206241--1207278	86	12.1	86	86	0	1321	35	22	18	24	1.95
1206241--1207278	171	6.1	171	86	1	1344	35	22	18	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1207735--1207767	2	16.5	2	100	0	66	48	0	0	51	1.00
1207764--1207817	27	2.0	26	82	3	63	40	0	12	46	1.42
1207777--1207817	13	3.1	14	79	10	50	39	0	14	46	1.45
1207825--1207960	65	2.1	67	82	9	165	41	4	9	44	1.57
1207806--1207996	102	1.9	101	81	9	237	43	4	8	43	1.54
1207890--1208116	36	6.3	36	83	11	256	45	2	7	45	1.43
1207981--1208029	24	2.0	25	84	11	66	57	0	2	40	1.10
1209069--1209141	2	36.5	2	100	0	146	50	0	0	49	1.00
1215711--1215775	19	3.5	18	76	14	53	75	1	3	20	1.02
1215710--1215775	15	3.8	17	75	15	64	74	1	3	21	1.04

Tables:   1   2   3   4   5   6   7   8   9