genome.fa.s7804.2.7.7.80.10.50.1000.6.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: VEPZ01007804.1 Hibiscus syriacus cultivar Beakdansim tig00110122_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1697051

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 1034 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)
895447--895510	32	2.0	33	82	14	80	35	1	3	59	1.23
895878--895914	19	1.9	19	88	0	56	16	2	0	81	0.81
896006--896031	12	2.2	12	100	0	52	15	7	0	76	0.99
896018--896093	18	4.5	17	74	18	61	14	9	1	75	1.11
896058--896130	28	2.7	26	73	19	69	16	8	4	71	1.26
899518--899781	95	2.7	96	85	4	318	32	17	16	32	1.93
900892--901409	84	6.2	83	78	3	520	32	24	17	24	1.97
900934--901348	83	5.0	80	78	5	211	31	24	18	25	1.97
900972--901409	165	2.6	169	80	6	480	32	24	17	25	1.97
901989--902038	22	2.3	23	79	10	59	46	0	2	52	1.12
903328--903432	3	36.7	3	69	24	59	29	1	0	67	1.07
903334--903407	28	2.7	27	95	2	130	29	2	1	66	1.14
903953--903989	18	2.1	17	90	5	56	8	0	2	89	0.58
903962--904005	11	4.0	11	87	0	61	11	4	0	84	0.77
903958--903995	18	2.1	18	85	9	51	10	2	0	86	0.66
903974--904056	29	2.9	27	72	15	69	15	7	4	72	1.24
904624--904709	31	2.8	31	92	0	145	32	13	6	46	1.71
905915--905948	17	2.0	17	94	0	59	20	29	14	35	1.93
905874--905990	59	2.0	58	90	5	182	28	23	17	30	1.97
905932--906019	42	2.1	41	85	10	117	34	22	15	27	1.95
906474--906547	24	3.3	24	67	21	79	64	5	5	24	1.36
906477--906561	42	2.0	42	100	0	170	62	4	7	25	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
907848--907915	21	3.2	21	61	19	50	16	32	23	27	1.96
907847--907933	43	2.0	43	100	0	174	17	32	22	27	1.96
909249--909288	20	2.1	19	90	4	62	35	22	0	42	1.54
909414--909746	111	3.0	111	94	1	587	36	7	11	45	1.68
911242--911278	18	2.1	18	94	0	65	32	27	13	27	1.94
911614--911657	18	2.4	18	84	0	61	31	20	36	11	1.88
911620--911672	24	2.2	24	89	0	79	33	18	33	13	1.90
911619--911659	21	2.0	21	90	0	64	29	19	36	14	1.92
911881--911965	35	2.5	33	78	14	91	25	8	10	55	1.62
926995--927020	13	2.0	13	100	0	52	46	23	7	23	1.78
930654--931333	81	8.4	81	91	0	1054	27	20	12	39	1.88
930654--931333	244	2.8	242	91	1	1056	27	20	12	39	1.88
931622--931770	54	2.7	55	78	13	160	38	18	9	34	1.83
931622--931791	59	3.0	57	80	10	172	36	19	10	34	1.85
932149--932354	95	2.2	95	81	6	249	24	21	16	36	1.94
947755--947780	13	2.0	13	100	0	52	46	30	0	23	1.53
952789--952834	22	2.2	22	88	7	69	36	19	17	26	1.94
954188--954227	2	20.0	2	100	0	80	50	0	0	50	1.00
954247--954307	31	1.9	32	87	9	90	37	1	1	59	1.17
954320--954349	15	2.1	14	93	6	51	10	6	0	83	0.81
954320--954369	26	1.9	26	84	8	66	14	6	4	76	1.13
956765--956797	16	2.2	16	89	10	52	30	18	15	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
965011--965215	110	1.9	110	87	2	304	39	23	16	20	1.92
966701--966728	2	14.0	2	100	0	56	50	0	0	50	1.00
966745--966812	16	4.4	16	72	22	65	38	1	1	58	1.16
966745--966821	20	3.8	20	74	17	68	36	2	1	59	1.19
966700--966811	43	2.6	45	78	14	119	37	3	0	58	1.22
966816--966881	14	4.6	14	86	7	89	15	7	3	74	1.17
966816--966863	7	6.9	7	92	0	78	14	8	0	77	0.99
969533--969564	7	4.6	7	100	0	64	25	0	12	62	1.30
977742--978074	176	1.9	177	83	5	431	34	9	22	33	1.87
978975--979210	119	2.0	119	98	0	454	35	11	16	36	1.85
982063--982117	20	2.7	20	91	5	83	36	16	20	27	1.93
983860--983896	11	3.2	12	92	7	51	54	2	0	43	1.14
983869--983896	11	2.5	11	100	0	56	53	0	0	46	1.00
984054--984278	35	6.4	35	93	0	378	20	20	18	40	1.92
999830--1000220	54	7.3	54	88	3	592	32	13	16	38	1.87
1000225--1000249	12	2.1	12	100	0	50	44	16	8	32	1.76
1000936--1001063	54	2.4	54	81	0	139	28	18	18	34	1.95
1007349--1007419	35	2.0	36	94	2	126	16	30	28	23	1.97
1009738--1010237	54	9.3	54	88	2	718	32	13	15	38	1.86
1016737--1016992	127	2.0	128	99	0	505	33	21	14	31	1.92
1017627--1017703	15	5.1	15	74	12	68	61	12	1	24	1.40
1018874--1018961	28	3.1	28	90	0	140	44	10	14	30	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1019071--1019095	2	12.5	2	100	0	50	48	0	0	52	1.00
1022250--1022301	17	3.2	17	75	10	54	32	3	13	50	1.60
1023297--1023512	107	2.0	107	99	0	423	34	15	11	37	1.84
1024912--1024969	14	4.0	14	84	6	64	31	1	1	65	1.13
1025961--1025985	6	4.2	6	100	0	50	84	0	0	16	0.63
1027589--1027646	17	3.2	17	73	17	62	37	5	0	56	1.21
1027714--1027749	14	2.5	15	90	9	65	58	0	0	41	0.98
1031681--1031762	22	3.5	24	74	19	75	43	3	7	45	1.49
1031783--1031839	26	2.2	25	87	3	78	47	1	1	49	1.22
1033068--1033123	24	2.3	24	84	0	67	30	3	0	66	1.09
1034141--1034169	14	2.0	15	93	6	51	13	17	13	55	1.70
1037261--1037290	5	6.0	5	100	0	60	20	0	0	80	0.72
1039143--1039172	15	2.0	15	100	0	60	20	33	6	40	1.78
1042488--1042525	20	1.9	20	88	0	58	34	5	18	42	1.73
1047772--1047797	13	2.0	13	100	0	52	23	23	7	46	1.78
1063016--1063064	20	2.3	23	86	10	68	75	2	6	16	1.09
1063187--1063342	35	4.4	35	78	12	149	41	8	5	44	1.58
1063188--1063343	36	4.3	36	77	13	151	42	7	5	44	1.57
1063188--1063344	72	2.2	72	83	5	192	42	7	5	44	1.57
1078149--1078305	77	2.0	78	98	1	307	24	16	22	36	1.94
1080024--1080076	22	2.4	22	81	12	63	73	3	7	15	1.20
1080887--1080933	20	2.3	20	96	3	85	19	31	19	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1081387--1081448	5	12.0	5	83	11	56	79	1	1	17	0.90
1081387--1081440	6	9.3	6	86	9	69	81	1	1	14	0.86
1087282--1087310	15	1.9	15	100	0	58	34	17	13	34	1.89
1087483--1087544	31	2.0	30	93	3	106	35	12	17	33	1.88
1087702--1087763	31	2.0	31	93	3	108	37	12	17	32	1.88
1098056--1098136	41	2.0	42	85	2	110	32	22	19	25	1.98
1098051--1098540	239	2.0	240	90	3	779	34	19	15	31	1.92
1104386--1104437	16	3.2	16	78	21	54	71	3	1	23	1.13
1106523--1106589	3	23.0	3	84	6	66	61	0	0	38	0.96
1106523--1106589	18	3.8	18	80	5	75	61	0	0	38	0.96
1113542--1113569	3	9.3	3	100	0	56	67	0	0	32	0.91
1113818--1113864	21	2.2	21	80	0	58	31	12	19	36	1.89
1115699--1117927	557	4.0	557	99	0	4314	37	16	14	31	1.89
1118408--1118432	3	8.3	3	100	0	50	68	0	0	32	0.90
1118774--1118830	24	2.4	24	84	0	78	12	8	22	56	1.63
1119088--1119119	2	16.0	2	100	0	64	50	0	0	50	1.00
1120384--1120413	13	2.3	13	94	0	51	70	0	0	30	0.88
1120658--1120705	5	8.8	5	88	11	60	79	0	2	18	0.84
1120702--1120815	57	2.0	57	100	0	228	59	1	8	29	1.38
1120793--1120844	2	26.5	2	96	3	97	50	0	0	50	1.00
1122028--1122094	6	10.8	6	81	10	55	74	0	5	19	1.02
1122038--1122091	12	4.4	12	86	9	65	70	0	7	22	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1122045--1122091	3	15.7	3	78	8	51	70	0	6	23	1.10
1122068--1122092	13	1.9	13	100	0	50	72	0	0	28	0.86
1122100--1122423	37	9.1	35	79	17	314	44	5	4	45	1.45
1122100--1122423	101	3.0	104	82	11	349	44	5	4	45	1.45
1122242--1122308	27	2.5	27	88	7	93	49	5	2	41	1.42
1122142--1122406	138	1.9	136	87	6	392	46	5	3	44	1.43
1123106--1123993	167	5.3	166	86	1	1177	25	18	24	31	1.97
1123106--1124010	251	3.6	250	82	3	1066	24	18	24	32	1.97
1123106--1124010	84	10.8	84	80	1	985	24	18	24	32	1.97
1125179--1125379	99	2.0	99	90	1	314	31	17	15	35	1.91

Tables:   1   2   3   4   5   6   7   8   9