genome.fa.s8033.2.7.7.80.10.50.1000.6.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: VEPZ01008033.1 Hibiscus syriacus cultivar Beakdansim tig00110515_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3048429

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  6  of  14  ( 1580 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)
936379--936425	17	3.0	16	80	20	55	42	0	2	55	1.12
940132--940291	45	3.3	49	80	13	183	45	0	3	50	1.24
940133--940265	15	8.5	15	81	11	151	46	0	2	50	1.19
940268--940310	22	2.0	22	100	0	86	39	0	9	51	1.34
940245--940396	32	5.4	32	70	28	137	36	0	9	52	1.40
940245--940413	54	3.1	54	97	0	311	36	0	10	52	1.41
940322--940363	22	1.9	22	95	0	75	35	0	11	52	1.38
940367--940414	22	2.4	18	73	23	51	33	0	14	52	1.42
940344--940493	80	1.9	80	98	0	291	31	0	15	52	1.47
940290--940771	134	3.6	133	86	9	636	34	0	13	52	1.43
940245--940584	188	1.8	188	97	0	644	35	0	12	52	1.42
940423--940616	32	6.7	32	77	21	239	34	0	13	52	1.41
940245--940822	220	2.7	217	76	12	650	34	0	12	52	1.42
940456--940498	22	2.0	22	100	0	86	34	0	13	51	1.42
940424--940999	54	10.6	54	76	12	552	34	0	12	52	1.40
940510--940552	22	2.0	22	100	0	86	34	0	13	51	1.42
940262--940664	188	2.1	185	86	7	555	33	0	13	52	1.45
940676--940718	22	2.0	22	100	0	86	34	0	13	51	1.42
940730--940794	22	3.0	22	95	0	112	38	0	9	52	1.34
940510--940874	80	4.5	78	81	15	354	34	0	12	52	1.42
940778--940853	31	2.4	31	88	2	116	32	0	10	56	1.33
940894--940944	14	3.5	14	70	19	50	37	0	5	56	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
940884--940967	30	2.7	32	90	7	145	35	0	11	52	1.38
943685--943815	15	8.5	15	76	15	133	46	0	3	49	1.22
943662--943813	43	3.4	42	71	16	133	46	0	3	48	1.25
943692--943772	28	2.8	29	92	3	128	53	1	0	45	1.08
943780--943815	14	2.5	14	90	4	54	41	0	2	55	1.14
943818--943860	22	2.0	22	100	0	86	39	0	9	51	1.34
943795--944434	54	11.8	54	71	17	339	34	0	12	52	1.40
943840--944466	32	19.7	32	68	26	224	34	0	12	52	1.41
943872--943913	22	1.9	22	95	0	75	35	0	11	52	1.38
943917--943964	22	2.4	18	73	23	51	33	0	14	52	1.42
943795--944434	134	4.7	138	73	15	519	34	0	12	52	1.40
944006--944048	22	2.0	22	100	0	86	34	0	13	51	1.42
943795--944434	242	2.6	233	85	8	756	34	0	12	52	1.40
944090--944290	22	8.0	24	75	22	148	34	0	13	52	1.41
944279--944332	14	3.6	14	72	18	54	37	0	3	59	1.15
944275--944466	18	12.1	15	64	26	67	34	0	10	54	1.36
944391--944443	14	3.5	14	72	18	52	37	0	5	56	1.23
943974--944498	54	9.6	54	74	14	459	34	0	12	53	1.38
943894--944488	242	2.4	240	87	5	788	34	0	12	52	1.41
943894--944498	166	3.7	164	84	11	699	34	0	12	53	1.41
947280--947412	15	8.5	15	79	11	142	45	0	3	49	1.25
947377--947412	14	2.5	14	90	4	54	41	0	2	55	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
947392--947543	32	5.4	32	71	28	146	36	0	9	52	1.40
947415--947457	22	2.0	22	95	0	77	37	0	9	53	1.33
947392--948031	54	11.8	54	71	17	330	34	0	12	52	1.40
947469--947511	22	2.0	22	95	0	77	37	0	11	51	1.39
947437--948031	134	4.4	138	73	15	515	34	0	12	52	1.41
947570--947709	32	4.7	32	82	16	201	33	0	13	52	1.41
947603--947645	22	2.0	22	100	0	86	34	0	13	51	1.42
947392--948031	242	2.6	233	85	8	747	34	0	12	52	1.40
947687--947887	22	8.0	24	75	22	148	34	0	13	52	1.41
947736--947951	32	7.7	32	72	24	168	36	0	11	52	1.37
947876--947929	14	3.6	14	72	18	54	37	0	3	59	1.15
947872--948063	18	12.1	15	64	26	67	34	0	10	54	1.36
947988--948040	14	3.5	14	72	18	52	37	0	5	56	1.23
947978--948063	32	2.7	32	94	3	147	36	0	11	52	1.38
947571--948095	54	9.6	54	74	14	459	34	0	12	53	1.38
947491--948085	242	2.4	240	87	5	788	34	0	12	52	1.41
947491--948095	166	3.7	164	84	11	699	34	0	12	52	1.41
957197--957233	19	1.9	19	94	0	65	32	29	16	21	1.95
957278--957331	21	2.6	21	78	0	63	25	20	20	33	1.97
957314--957372	21	2.8	22	77	12	70	42	18	18	20	1.90
960760--960891	59	2.2	59	76	10	135	31	23	17	28	1.97
961177--961249	24	3.0	24	95	0	128	42	9	12	35	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
962434--962498	30	2.2	29	83	10	78	36	15	4	43	1.67
966421--966450	15	2.0	15	100	0	60	40	20	20	20	1.92
971703--971734	2	16.0	2	93	0	55	50	3	0	46	1.17
978506--978747	81	3.0	81	93	0	394	34	9	22	32	1.87
978678--978807	59	2.2	59	87	6	185	38	10	23	26	1.88
978733--978921	82	2.3	82	88	0	281	36	10	24	28	1.89
978615--978891	140	2.0	140	87	1	403	35	11	24	28	1.90
983386--983719	81	4.1	81	83	1	373	36	10	22	30	1.88
983833--983924	46	2.0	46	86	0	130	46	11	19	21	1.82
987882--988041	11	14.8	11	70	19	106	38	0	5	55	1.23
987885--987996	28	4.2	27	74	17	83	38	0	5	56	1.22
987951--987996	13	3.4	13	81	6	56	34	0	4	60	1.16
987885--988014	66	2.0	63	83	10	163	37	0	6	55	1.27
987876--987998	2	64.5	2	68	18	66	39	0	4	55	1.27
987876--988044	66	2.6	64	77	17	161	38	0	5	55	1.27
987966--988038	40	1.9	36	86	10	101	36	0	5	57	1.22
989388--989452	13	5.0	13	80	0	67	27	20	18	33	1.96
989457--989673	85	2.6	85	78	2	222	30	18	18	31	1.95
989693--989731	2	19.5	2	100	0	78	48	0	0	51	1.00
991801--991917	39	3.0	39	82	15	136	1	38	9	50	1.45
991869--991964	26	3.7	26	65	14	63	0	37	7	55	1.28
993306--993618	30	10.4	30	95	0	563	32	23	19	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
994796--994895	45	2.2	44	84	3	128	25	20	21	34	1.97
998315--998387	30	2.4	30	93	0	119	31	24	19	24	1.98
998649--998705	4	14.2	4	92	0	96	49	21	0	29	1.50
999538--999614	20	3.7	20	79	14	75	24	24	23	27	2.00
999603--999724	64	1.9	63	83	1	154	23	22	18	35	1.96
1004960--1005012	16	3.4	16	80	10	65	16	13	7	62	1.53
1014314--1014368	28	2.0	27	86	10	76	20	1	1	76	0.97
1030856--1031038	61	3.0	61	91	3	296	29	8	25	36	1.85
1032330--1032420	37	2.4	38	83	5	114	43	4	7	43	1.53
1032460--1032489	2	15.0	2	100	0	60	50	0	0	50	1.00
1035624--1035691	35	1.9	35	93	0	118	30	10	20	38	1.86
1058760--1058800	21	2.0	20	85	4	55	39	19	12	29	1.88
1066987--1067033	18	2.6	18	89	0	76	25	8	27	38	1.85
1074379--1074557	49	3.7	49	88	1	261	37	15	21	25	1.93
1075379--1075416	20	1.9	20	89	10	60	55	15	5	23	1.61
1078655--1078689	14	2.5	14	100	0	70	65	5	22	5	1.36
1079102--1079146	21	2.1	22	88	12	67	66	0	2	31	1.04
1079125--1079153	15	1.9	15	100	0	58	68	0	0	31	0.89
1079088--1079152	22	2.8	24	77	20	66	66	1	1	30	1.10
1079526--1079553	2	14.0	2	100	0	56	50	0	0	50	1.00
1083511--1083795	49	5.8	49	87	1	347	28	19	14	37	1.91
1083511--1083783	97	2.8	98	85	2	352	28	19	13	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1090062--1090105	21	2.1	21	83	8	54	56	6	2	34	1.38
1090220--1090339	50	2.4	49	84	1	150	26	20	14	38	1.91
1092350--1092438	30	3.0	30	90	1	126	46	12	7	33	1.71
1095305--1095389	42	2.0	42	88	0	125	29	12	25	31	1.93
1104603--1104648	20	2.3	21	78	17	53	34	2	23	39	1.67
1105438--1105463	7	3.7	7	100	0	52	30	0	0	69	0.89
1124626--1124667	20	2.2	19	87	8	59	59	9	9	21	1.57
1125771--1125815	20	2.2	20	100	0	90	33	13	15	37	1.86
1125843--1125899	18	3.2	18	92	2	89	26	15	17	40	1.90
1144774--1144812	20	1.9	21	94	5	71	58	10	15	15	1.62

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14