genome.fa.s7850.2.7.7.80.10.50.1000.7.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: VEPZ01007850.1 Hibiscus syriacus cultivar Beakdansim tig00110209_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1775394

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1055 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)
1127894--1127931	10	3.8	10	83	10	51	57	0	0	42	0.98
1129822--1129867	24	2.0	22	83	8	56	56	2	6	34	1.37
1130159--1130220	29	2.2	28	85	2	79	30	6	6	56	1.50
1130160--1130220	28	2.1	29	84	3	79	31	6	6	55	1.51
1132455--1132509	28	2.0	28	88	0	83	41	18	23	16	1.89
1136598--1136639	17	2.4	18	88	11	61	45	0	0	54	0.99
1136671--1136751	21	3.9	21	95	0	144	32	29	23	14	1.95
1136951--1137043	42	2.2	42	92	0	159	23	40	15	20	1.90
1137799--1137823	13	1.9	13	100	0	50	24	0	12	64	1.27
1142093--1142380	43	6.7	43	82	3	328	19	22	22	35	1.96
1142111--1142368	87	3.0	87	87	3	360	18	23	22	35	1.96
1148242--1148289	22	2.2	22	92	0	78	37	12	14	35	1.84
1149043--1149215	90	1.9	89	92	1	292	41	13	19	26	1.87
1149762--1150088	89	3.7	89	87	1	465	41	14	21	22	1.89
1149798--1150043	44	5.5	44	69	10	176	42	15	20	21	1.88
1149762--1150088	179	1.8	179	85	1	467	41	14	21	22	1.89
1150514--1150619	21	5.0	21	87	0	131	35	26	18	18	1.95
1154060--1154131	29	2.4	30	86	6	94	36	23	23	16	1.94
1154170--1154212	14	3.1	14	80	6	52	23	13	48	13	1.79
1156131--1156155	10	2.5	10	100	0	50	20	0	8	72	1.10
1160934--1160958	7	3.6	7	100	0	50	56	0	44	0	0.99
1173634--1173678	18	2.5	18	100	0	90	24	31	28	15	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1187519--1187665	72	2.1	69	86	6	197	34	5	18	42	1.73
1187546--1187664	35	3.3	36	89	5	179	33	5	17	43	1.71
1192129--1192189	21	3.2	21	65	29	64	31	4	21	42	1.74
1192121--1192239	35	3.3	37	88	8	174	31	5	19	43	1.72
1203336--1203390	20	2.8	20	85	0	74	18	25	12	43	1.85
1203948--1203996	23	2.2	23	81	3	55	53	4	4	38	1.39
1204386--1204447	32	1.9	32	93	0	106	25	35	19	19	1.95
1211017--1211042	13	2.0	13	100	0	52	69	0	0	30	0.89
1214529--1214562	12	2.6	13	90	9	52	64	5	0	29	1.17
1214739--1214786	20	2.5	19	89	3	69	45	10	6	37	1.64
1214678--1214768	2	44.5	2	74	16	71	47	3	3	46	1.35
1214841--1214878	11	3.5	11	85	10	51	44	0	7	47	1.32
1215077--1215281	2	98.5	2	74	11	137	46	4	4	43	1.44
1215024--1215160	66	2.1	67	94	1	240	47	4	8	40	1.53
1215122--1215166	11	4.1	11	77	11	56	53	8	0	37	1.32
1215216--1215295	10	7.9	11	95	2	57	47	3	0	48	1.19
1217427--1217508	31	2.6	31	94	0	137	30	26	20	21	1.98
1217427--1217522	31	3.1	31	89	3	113	34	25	20	19	1.96
1218409--1218466	20	2.6	22	86	10	75	25	22	22	29	1.99
1221502--1221612	30	3.7	30	81	2	98	35	28	18	17	1.94
1221555--1221651	31	3.1	31	88	2	124	36	24	18	20	1.95
1222602--1222659	20	2.6	22	86	10	75	25	22	22	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1222647--1222787	64	2.2	63	81	7	160	24	24	17	32	1.97
1224861--1224926	22	3.0	22	97	0	123	27	18	21	33	1.96
1231963--1232012	14	3.9	14	77	20	54	12	14	14	60	1.60
1231967--1232037	24	3.0	24	87	0	97	12	11	15	60	1.59
1232289--1232489	60	3.3	60	81	8	237	42	22	12	21	1.87
1232481--1232578	19	5.1	19	87	4	135	34	22	11	31	1.89
1232468--1232578	39	2.8	39	85	6	145	35	22	10	31	1.89
1232249--1232580	20	16.7	20	75	11	202	39	24	12	23	1.89
1232717--1232755	16	2.5	15	84	8	51	28	5	0	66	1.12
1233350--1233383	12	2.8	12	90	0	50	55	29	0	14	1.40
1233509--1233562	24	2.2	24	90	0	81	20	16	22	40	1.91
1236363--1236448	37	2.3	37	100	0	172	47	18	2	31	1.61
1237818--1237892	21	3.6	21	78	10	73	25	21	33	20	1.97
1237842--1237915	21	3.5	21	87	5	96	27	18	32	21	1.97
1238193--1238242	21	2.4	21	82	0	64	30	28	20	22	1.98
1240038--1240069	14	2.3	14	94	0	55	50	21	21	6	1.71
1240458--1240515	22	2.7	21	86	5	55	24	13	43	18	1.87
1240465--1240522	22	2.6	22	91	0	89	18	17	43	20	1.89
1240893--1240985	21	4.5	21	78	4	100	39	18	24	17	1.91
1240893--1240985	41	2.3	41	100	0	186	39	18	24	17	1.91
1240912--1241046	41	3.3	41	83	6	141	37	21	22	18	1.94
1240974--1241067	20	4.7	20	79	7	82	31	24	19	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1241558--1241638	19	4.5	19	73	16	73	46	24	17	11	1.80
1241634--1241817	20	10.1	19	75	15	156	11	21	22	44	1.85
1241644--1241721	19	4.0	20	91	5	117	11	19	21	47	1.81
1241634--1241817	33	5.1	38	77	12	156	11	21	22	44	1.85
1243819--1243911	42	2.2	42	82	0	114	21	38	16	23	1.92
1245298--1245334	14	2.6	14	88	12	58	29	0	21	48	1.50
1245513--1245663	19	8.7	19	64	21	80	15	22	20	41	1.89
1245517--1245643	33	3.9	32	87	8	193	14	22	19	42	1.88
1245510--1245642	66	2.0	66	97	0	248	16	22	19	41	1.90
1247930--1247954	12	2.1	12	100	0	50	0	28	0	72	0.86
1249239--1249296	20	2.9	20	94	0	98	37	22	22	17	1.93
1249319--1249392	19	4.5	16	83	16	66	13	20	18	47	1.82
1249315--1249382	19	3.8	19	87	12	101	13	22	17	47	1.82
1251392--1251447	20	2.9	19	86	5	85	35	23	25	16	1.94
1251390--1251490	19	5.6	19	73	14	79	41	22	21	13	1.89
1251447--1251504	14	3.9	14	77	16	62	48	24	17	10	1.78
1251431--1251509	32	2.4	33	93	2	133	46	22	18	11	1.81
1251538--1251595	14	3.9	14	81	16	71	10	17	22	50	1.76
1251521--1251611	32	2.8	33	91	3	148	12	17	20	49	1.78
1251596--1251640	20	2.3	19	85	7	63	17	20	20	42	1.90
1252128--1252172	18	2.5	18	88	0	72	13	15	44	26	1.83
1253776--1253819	22	2.0	22	100	0	88	18	13	45	22	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1254007--1254117	20	5.7	20	82	6	120	22	18	26	32	1.97
1254106--1254198	20	4.5	21	75	4	91	18	23	18	39	1.92
1254106--1254198	41	2.3	41	98	0	177	18	23	18	39	1.92
1254408--1254719	40	7.8	40	69	18	161	21	15	23	39	1.91
1254529--1254678	60	2.5	60	78	14	157	20	15	21	43	1.88
1254464--1254654	80	2.4	80	78	11	214	19	15	23	41	1.89
1254408--1254654	20	12.3	20	77	11	172	20	15	23	40	1.90
1254904--1254933	10	3.0	10	90	0	51	10	16	20	53	1.71
1254914--1254968	24	2.5	21	88	8	74	14	12	16	56	1.68
1257417--1257471	3	18.7	3	96	3	103	32	0	0	67	0.91
1263072--1263101	13	2.3	13	94	0	51	43	10	6	40	1.64
1263158--1263186	14	2.0	15	93	6	51	48	6	6	37	1.57
1263196--1263243	21	2.3	21	88	0	69	41	6	6	45	1.54
1263161--1263562	157	2.6	153	79	10	371	42	4	5	47	1.47
1263283--1263375	36	2.6	36	85	0	132	41	4	7	46	1.52
1263368--1263490	45	2.8	44	76	12	133	45	4	3	46	1.40
1263380--1263562	15	11.7	15	67	21	74	44	4	3	48	1.39
1263396--1263433	6	6.3	6	82	11	51	50	0	2	47	1.15
1263368--1263437	24	2.9	24	72	20	65	47	2	2	47	1.32
1263499--1263555	14	3.9	14	73	13	51	45	1	1	50	1.22
1263522--1263644	6	21.2	6	72	20	50	47	3	0	48	1.23
1263455--1263567	31	3.5	31	78	13	129	43	3	2	50	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1263553--1263652	50	2.0	52	86	7	143	48	3	3	46	1.33
1263585--1263639	23	2.4	23	80	14	62	45	1	1	50	1.22
1263594--1263667	29	2.5	29	86	6	96	45	1	5	47	1.34
1263512--1263666	79	1.9	79	84	3	204	45	2	3	48	1.32
1264372--1264454	6	14.0	6	74	2	69	45	43	4	6	1.49
1264372--1264454	12	7.0	12	79	5	80	45	43	4	6	1.49
1264771--1264815	19	2.2	21	84	7	58	17	2	13	66	1.34
1265093--1265482	38	10.6	36	74	18	254	44	3	6	45	1.46
1265239--1265265	2	13.5	2	100	0	54	51	0	0	48	1.00
1265252--1265482	37	6.5	36	79	10	217	44	3	5	47	1.41

Tables:   1   2   3   4   5   6   7   8   9