genome.fa.s8512.2.7.7.80.10.50.1000.5.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: VEPZ01008512.1 Hibiscus syriacus cultivar Beakdansim tig00111372_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1759229

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 1011 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)
880036--880146	24	4.6	24	75	6	100	20	14	16	48	1.80
880079--880130	17	2.8	18	72	21	54	15	15	19	50	1.79
880312--880340	2	14.5	2	100	0	58	48	0	0	51	1.00
880924--881251	74	4.4	74	88	1	478	33	13	13	39	1.84
880924--881251	147	2.2	148	91	1	523	33	13	13	39	1.84
881960--882002	21	2.0	21	81	0	50	30	30	25	13	1.94
881982--882135	69	2.2	69	88	5	224	26	27	27	18	1.98
882470--882529	30	2.0	31	90	3	95	36	6	23	33	1.81
882749--882815	22	3.0	22	100	0	134	19	26	26	26	1.99
888859--888901	21	2.0	21	81	0	50	30	30	25	13	1.94
888881--889033	68	2.2	69	87	6	215	26	27	27	18	1.98
889368--889427	30	2.0	31	90	3	95	36	6	23	33	1.81
889647--889713	22	3.0	22	100	0	134	19	26	26	26	1.99
890317--890434	62	1.9	62	98	0	227	38	11	14	35	1.83
890380--890523	72	2.0	74	88	4	220	36	13	11	38	1.81
893883--893931	24	2.0	24	84	0	62	48	14	14	22	1.79
893900--894016	24	4.8	24	82	8	139	41	17	17	23	1.90
897426--897465	2	20.0	2	100	0	80	50	0	0	50	1.00
904058--904097	21	1.9	21	90	10	64	52	0	10	37	1.35
909817--909855	19	2.1	19	90	0	60	28	15	35	20	1.93
909755--909918	65	2.5	65	78	14	171	26	17	26	29	1.98
911935--912133	97	2.0	98	99	0	391	44	10	6	39	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
912573--912605	15	2.2	15	100	0	66	36	42	0	21	1.53
916214--916253	21	1.9	21	85	10	55	35	10	2	52	1.48
918228--918278	19	2.7	19	85	8	70	25	15	35	23	1.94
918185--918329	65	2.2	64	82	11	163	26	17	26	29	1.97
918593--918623	15	2.1	15	93	0	53	48	3	25	22	1.66
919078--919113	18	1.9	18	88	5	54	47	25	27	0	1.52
920936--920966	2	15.5	2	100	0	62	48	0	0	51	1.00
921142--921188	5	8.8	5	84	11	58	4	2	14	78	0.99
927326--927401	32	2.4	33	76	12	79	32	15	10	40	1.82
928896--928959	27	2.4	27	94	0	110	26	34	7	31	1.85
929646--929759	60	1.9	60	83	3	149	38	20	12	28	1.89
930184--930212	2	14.5	2	100	0	58	51	0	0	48	1.00
930317--930363	22	2.1	23	88	4	69	59	2	2	36	1.21
930317--930386	22	3.1	21	78	11	68	57	1	2	38	1.23
930315--930385	23	3.1	22	76	9	63	57	1	2	38	1.22
935773--936496	138	5.3	137	85	6	884	24	17	23	34	1.96
935741--936496	275	2.8	273	87	2	1061	23	18	24	33	1.96
935741--936496	413	1.8	409	85	4	1074	23	18	24	33	1.96
936498--936544	20	2.4	21	82	13	64	31	0	23	44	1.54
937328--937398	21	3.4	21	80	0	70	18	23	33	23	1.96
938041--938076	17	2.1	17	90	10	56	52	5	0	41	1.24
939204--939250	25	1.9	24	87	12	69	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
939235--939292	23	2.4	25	74	5	66	55	0	0	44	0.99
939268--939301	13	2.5	13	85	4	50	55	0	0	44	0.99
939246--939324	35	2.2	37	82	8	92	56	2	0	40	1.12
942257--942329	22	3.3	22	100	0	146	26	20	19	34	1.96
942568--942630	24	2.6	24	74	0	72	46	14	12	26	1.80
944850--944920	23	3.1	22	79	16	65	18	4	1	76	1.03
944857--944911	12	4.6	12	80	13	60	20	5	0	74	1.01
944992--945027	16	2.2	16	90	9	56	19	0	5	75	1.00
945054--945140	5	17.8	5	80	9	63	14	2	6	75	1.10
945081--945128	16	3.1	16	91	5	73	20	4	0	75	0.97
945142--945202	23	2.5	24	82	12	63	16	1	11	70	1.24
947992--948042	23	2.2	23	82	6	59	56	1	1	39	1.22
949555--949741	32	5.9	32	79	8	179	32	19	16	31	1.94
950060--950140	8	10.4	8	86	5	85	51	41	0	6	1.27
950072--950142	2	35.5	2	91	0	115	52	45	0	2	1.15
950338--950374	16	2.3	16	90	0	56	35	16	0	48	1.46
950116--950780	330	2.0	330	96	0	1231	31	22	3	42	1.70
950674--950704	16	1.9	16	100	0	62	35	19	0	45	1.51
956714--957460	137	5.4	137	84	5	920	23	17	24	34	1.96
956744--957460	276	2.6	275	87	3	1002	23	17	24	33	1.96
957466--957508	19	2.2	20	88	8	63	30	0	23	46	1.52
958338--958388	21	2.4	21	80	0	57	17	23	33	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
958367--958469	42	2.5	42	85	3	118	25	20	30	24	1.99
960170--960216	25	1.9	24	87	12	69	61	0	0	38	0.96
960687--960751	30	2.2	30	97	2	123	23	3	29	44	1.68
963224--963274	22	2.3	22	100	0	102	25	19	19	35	1.95
963512--963574	24	2.6	24	74	0	72	46	14	12	26	1.80
967712--967773	13	4.8	13	78	21	76	27	0	1	70	0.96
967716--967751	16	2.3	15	90	4	54	27	0	2	69	1.02
967712--967773	18	3.3	19	80	11	65	27	0	1	70	0.96
967716--967772	23	2.4	24	85	5	80	28	0	1	70	0.98
968029--968075	13	3.5	13	82	5	67	74	0	0	25	0.82
968025--968079	19	3.2	18	82	12	71	72	0	0	27	0.85
968028--968088	27	2.3	26	82	5	77	72	1	0	26	0.94
968028--968072	14	3.3	14	84	6	65	75	0	0	24	0.80
968044--968088	22	2.0	22	82	0	54	71	2	0	26	0.98
982123--982173	22	2.3	23	80	9	63	15	15	7	60	1.56
983557--983587	14	2.2	14	100	0	62	80	0	19	0	0.71
983567--983656	18	5.2	18	74	8	62	78	2	13	5	1.01
983582--983672	21	4.2	20	77	13	74	78	2	10	8	1.06
985591--985761	54	3.2	53	81	5	184	28	9	18	44	1.80
986494--987126	139	4.6	139	86	4	884	35	18	21	24	1.96
986494--987126	276	2.3	276	88	3	900	35	18	21	24	1.96
987045--987604	240	2.4	239	88	4	809	33	18	21	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
988398--988457	3	19.0	3	86	6	59	40	0	0	60	0.97
988395--988432	18	2.1	19	95	5	69	42	0	0	57	0.98
988398--988469	24	3.0	23	82	11	92	43	0	0	56	0.99
988400--988455	18	2.9	18	84	7	67	41	0	0	58	0.98
989821--989850	3	10.0	3	100	0	60	33	0	0	66	0.92
990587--990627	20	2.0	21	85	4	57	24	9	0	65	1.22
997555--997780	114	2.0	114	91	0	362	33	15	20	30	1.94
999574--999735	52	3.1	52	94	1	270	40	16	20	22	1.91
1000103--1000157	22	2.5	22	90	0	92	34	12	14	38	1.84
1000836--1001595	76	10.0	76	95	0	1351	22	21	21	35	1.96
1001555--1001624	29	2.4	29	95	0	131	17	18	27	37	1.93
1001478--1001700	106	2.1	105	93	0	383	21	20	21	35	1.96
1001250--1001927	334	2.0	333	93	1	1180	22	21	21	34	1.97
1001174--1001999	410	2.0	409	93	1	1431	22	21	21	34	1.97
1001587--1002160	76	7.6	77	95	1	957	22	21	22	33	1.97
1001402--1001771	182	2.0	181	95	0	668	22	21	21	35	1.96
1001326--1001851	258	2.0	257	94	0	946	22	20	21	34	1.97
1002318--1002359	3	14.0	3	89	0	66	38	0	0	61	0.96
1002326--1002404	18	4.3	18	76	16	72	44	0	0	55	0.99
1002360--1002388	2	14.5	2	100	0	58	48	0	0	51	1.00
1002353--1002404	14	3.3	15	76	12	52	46	0	0	53	1.00
1003736--1003765	3	10.0	3	92	0	51	33	3	0	63	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1007454--1007555	33	3.1	34	87	6	140	39	22	25	12	1.90
1008781--1008806	5	5.2	5	100	0	52	42	0	0	57	0.98
1009713--1009751	21	1.9	20	94	5	69	28	15	10	46	1.78
1010373--1010414	15	3.1	14	83	16	54	52	7	2	38	1.42
1011607--1011642	18	2.1	17	89	5	54	52	5	2	38	1.39
1013067--1013130	3	21.7	3	93	3	112	64	0	0	35	0.94
1013389--1013560	91	1.9	91	90	2	274	24	20	14	40	1.90
1014676--1014720	22	2.0	22	87	8	65	8	11	0	80	0.92
1027011--1027046	18	2.1	17	89	5	54	52	5	2	38	1.39
1029132--1029165	18	1.9	18	88	5	52	32	14	0	52	1.42

Tables:   1   2   3   4   5   6   7   8   9