genome.fa.s8164.2.7.7.80.10.50.1000.5.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: VEPZ01008164.1 Hibiscus syriacus cultivar Beakdansim tig00110744_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2577652

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

This is table  5  of  11  ( 1239 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)
882879--883137	44	5.8	44	90	2	358	37	7	23	31	1.83
886222--886309	2	47.0	2	70	13	53	51	0	0	48	1.00
886954--886987	17	2.0	18	88	11	54	32	8	11	47	1.71
887280--887342	31	2.0	31	87	0	90	22	17	22	38	1.93
889721--889839	53	2.2	53	100	0	238	31	22	19	26	1.98
897130--897208	28	3.0	28	79	15	71	18	5	22	53	1.64
898608--898760	61	2.5	61	86	2	191	22	33	26	16	1.96
901080--901698	216	2.9	213	89	4	906	25	12	25	36	1.91
902228--902272	18	2.6	17	86	6	56	28	24	6	40	1.80
902306--902330	12	2.1	12	100	0	50	32	16	8	44	1.76
903439--903887	229	2.0	227	93	1	774	45	7	7	39	1.60
903937--903995	20	3.0	19	76	14	57	52	15	13	18	1.74
904118--904164	20	2.4	19	89	10	76	55	10	17	17	1.69
904122--904169	20	2.6	18	84	15	62	56	10	14	18	1.66
906363--907303	395	2.4	396	98	1	1822	36	16	15	31	1.90
906363--907303	197	4.8	199	98	1	1826	36	16	15	31	1.90
908824--909513	181	3.8	182	95	2	1217	36	14	16	32	1.89
909511--909553	22	1.9	23	85	4	61	30	11	11	46	1.76
912676--912739	23	2.8	23	87	0	92	35	6	18	39	1.76
912676--912748	23	3.2	23	82	7	85	34	5	19	41	1.74
912893--912959	30	2.2	30	82	10	75	52	4	0	43	1.21
913104--913167	23	2.8	23	87	0	92	35	6	20	37	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
913104--913176	23	3.2	23	82	7	85	34	5	20	39	1.76
913441--913491	25	2.0	25	92	0	84	33	7	19	39	1.81
913737--913773	18	2.1	18	89	0	56	32	5	10	51	1.60
913729--913775	24	2.0	24	86	0	67	34	4	14	46	1.64
914032--914157	39	3.2	39	97	0	234	48	20	13	17	1.81
914560--914623	23	2.8	23	87	0	92	35	6	20	37	1.78
914560--914632	23	3.2	23	82	7	85	34	5	20	39	1.76
915410--915444	13	2.8	13	91	4	54	28	48	17	5	1.69
917798--917884	46	1.9	45	81	6	104	18	10	10	60	1.56
929821--929849	14	2.1	14	100	0	58	44	6	20	27	1.77
938862--938899	19	2.0	19	100	0	76	21	15	26	36	1.93
940824--940897	24	3.2	24	84	3	89	31	14	22	31	1.94
940851--940908	24	2.6	22	82	12	73	29	15	25	29	1.96
947664--947732	24	2.9	25	80	8	63	27	23	24	24	2.00
947683--947732	23	2.1	24	88	3	75	34	22	24	20	1.97
949684--949839	64	2.4	63	84	5	179	28	19	22	30	1.98
952479--952558	23	3.6	22	77	13	92	26	22	25	26	2.00
952458--952577	23	5.7	20	72	16	64	25	20	26	26	1.99
952477--952577	44	2.3	43	86	5	141	25	20	25	27	1.99
966011--966052	22	1.9	22	85	9	59	21	0	19	59	1.38
970510--970632	60	2.0	60	88	0	183	34	21	3	40	1.70
996315--996355	3	13.7	3	100	0	82	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
997235--997503	135	2.0	135	95	0	484	35	24	15	24	1.94
998469--998502	13	2.5	14	90	4	52	11	5	2	79	1.02
999344--999519	96	1.9	94	86	4	255	25	18	26	28	1.98
1007216--1007306	45	2.0	45	91	0	146	37	12	21	28	1.90
1010254--1010355	35	2.9	35	81	4	100	33	7	10	48	1.67
1010305--1010355	17	2.9	18	68	8	52	35	5	9	49	1.60
1014296--1014364	27	2.4	29	77	15	81	62	1	1	34	1.13
1014583--1015610	515	2.0	514	98	0	2002	41	11	13	33	1.80
1020782--1020861	24	3.5	21	75	18	63	76	1	5	17	1.03
1020778--1020916	46	2.9	47	76	17	108	69	1	3	25	1.12
1020783--1020859	22	3.5	22	72	22	63	76	1	5	16	1.03
1020778--1020916	48	2.8	49	78	14	124	69	1	3	25	1.12
1020833--1020955	40	3.0	40	76	15	119	64	2	3	30	1.22
1020865--1020953	38	2.3	39	81	12	105	61	3	3	31	1.28
1021084--1021122	14	2.7	15	88	4	53	71	0	0	28	0.86
1021509--1021618	37	3.0	37	90	0	175	34	14	11	39	1.83
1022224--1022339	34	3.4	34	90	3	189	31	8	18	41	1.80
1022321--1022681	37	10.2	37	76	14	316	38	13	19	28	1.90
1022392--1022681	73	4.1	73	77	9	328	39	14	18	27	1.90
1022421--1022681	138	1.9	138	87	1	389	39	13	18	27	1.89
1022463--1022653	102	1.9	103	83	3	251	39	12	19	28	1.88
1023299--1023387	32	2.8	32	80	0	97	32	25	13	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1024455--1024517	14	4.7	13	74	20	58	3	17	1	77	0.97
1027520--1027656	20	6.7	20	69	11	71	72	1	8	16	1.16
1027486--1027549	26	2.4	27	80	12	87	68	0	10	20	1.19
1027578--1027660	9	8.8	9	75	15	69	78	1	3	16	0.96
1027579--1027757	4	44.5	4	66	21	54	73	1	2	22	1.06
1027578--1027703	25	5.2	26	72	18	83	75	0	3	20	0.99
1027648--1027732	34	2.5	34	80	14	88	68	1	2	28	1.09
1027629--1027771	42	3.3	42	78	11	137	68	2	1	27	1.12
1027657--1027767	35	3.1	36	71	14	95	67	2	1	27	1.14
1029005--1029042	16	2.3	17	86	4	60	57	0	0	42	0.98
1029302--1029346	22	2.0	22	91	8	74	40	0	0	60	0.97
1029347--1029409	3	22.0	3	80	18	64	71	1	0	26	0.95
1030802--1030869	3	22.0	3	79	11	75	61	1	0	36	1.05
1030841--1030875	18	1.9	18	94	0	61	60	0	0	40	0.97
1031002--1031948	76	12.4	76	94	1	1538	35	20	20	23	1.96
1031002--1031948	230	4.1	229	93	1	1578	35	20	20	23	1.96
1031002--1031948	306	3.1	305	94	1	1619	35	20	20	23	1.96
1032608--1032687	22	3.6	22	74	0	88	40	13	12	33	1.83
1035227--1035448	114	2.0	113	92	0	372	30	20	15	33	1.94
1042321--1042357	15	2.6	15	87	8	51	70	2	5	21	1.20
1042370--1042432	28	2.2	29	80	8	76	60	1	7	30	1.35
1042899--1042936	16	2.3	17	86	4	60	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1043237--1043299	3	22.0	3	80	18	64	71	1	0	26	0.95
1044694--1044761	3	22.0	3	82	5	82	60	1	0	38	1.06
1044732--1044767	18	2.0	18	94	0	63	58	0	0	41	0.98
1048141--1048173	2	16.5	2	100	0	66	48	0	0	51	1.00
1049792--1049919	31	4.1	31	76	9	134	32	20	18	28	1.96
1049795--1049916	63	2.0	62	86	4	174	31	19	19	29	1.97
1050825--1050986	64	2.5	64	76	5	166	24	24	17	33	1.97
1054041--1054078	2	19.0	2	100	0	76	50	0	0	50	1.00
1054422--1054543	31	3.9	32	72	16	103	31	18	18	31	1.95
1056713--1056773	22	2.8	22	70	7	61	44	19	9	26	1.82
1074913--1075059	77	1.9	80	83	7	194	43	3	10	42	1.55
1082891--1082925	18	2.1	17	89	10	54	51	17	5	25	1.67
1086574--1086633	30	2.0	30	87	3	86	38	11	6	43	1.68
1094084--1094286	94	2.2	94	83	3	257	33	15	25	26	1.95
1094607--1094734	59	2.2	59	88	2	186	33	14	19	32	1.91
1094971--1095366	68	5.8	68	92	1	623	30	15	24	29	1.96
1095326--1095560	81	2.9	80	83	3	285	37	11	23	27	1.90
1095324--1095608	80	3.5	80	81	4	324	36	11	23	28	1.90
1099694--1099904	95	2.2	95	88	1	307	32	16	26	25	1.96
1099769--1099822	22	2.6	20	80	11	63	27	14	29	27	1.95
1100219--1100365	59	2.5	59	89	2	224	34	11	19	34	1.88
1100583--1101064	68	7.1	68	87	0	640	30	14	24	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1101006--1101314	81	3.8	81	87	0	447	36	12	23	26	1.91
1101283--1101343	29	2.1	29	84	0	77	47	9	21	21	1.79
1108044--1108094	12	4.5	11	76	16	50	5	31	0	62	1.19
1111135--1111204	20	3.5	20	80	1	79	38	21	5	34	1.77
1113910--1113975	20	3.3	20	82	2	80	37	19	6	36	1.77
1115311--1115341	15	2.1	15	93	0	53	35	19	3	41	1.67
1120023--1120117	32	3.0	32	87	0	136	33	15	21	29	1.94
1122591--1122638	20	2.3	20	78	3	51	37	10	20	31	1.87
1122628--1122733	20	5.2	20	83	6	124	31	26	16	26	1.96
1122628--1122733	41	2.6	40	83	4	124	31	26	16	26	1.96

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