genome.fa.s8785.2.7.7.80.10.50.1000.5.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: VEPZ01008785.1 Hibiscus syriacus cultivar Beakdansim tig00111917_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1341157

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 675 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)
916097--916136	3	13.7	3	84	5	55	62	0	2	35	1.09
918295--918656	179	2.0	179	100	0	724	34	12	33	19	1.90
924805--925014	104	2.0	104	95	0	375	33	17	15	33	1.91
925410--925464	15	3.6	15	75	20	60	41	12	0	45	1.42
926968--927354	194	2.0	193	99	0	765	37	20	18	23	1.94
928774--928824	16	3.3	15	86	5	57	45	1	3	49	1.32
932075--932224	64	2.3	63	85	5	194	24	20	25	30	1.99
932105--932261	64	2.5	63	82	6	174	27	17	24	30	1.97
938236--938275	21	1.9	21	94	0	71	30	7	5	57	1.48
941640--941693	22	2.4	23	81	9	67	18	9	3	68	1.32
952449--952586	65	2.1	66	78	9	158	31	17	20	31	1.95
958315--958349	16	2.2	16	90	5	54	60	5	0	34	1.21
959247--959294	15	3.1	15	81	3	51	70	4	0	25	1.04
960318--960342	13	1.9	13	100	0	50	60	8	8	24	1.52
961110--961148	21	1.9	20	84	5	51	7	5	25	61	1.44
961525--961570	3	15.0	3	95	4	83	67	0	0	32	0.91
961694--962917	256	4.8	256	87	2	1682	33	16	14	34	1.90
962688--962790	42	2.5	42	82	4	129	32	22	21	24	1.98
965000--965084	3	29.7	3	76	15	74	2	25	0	71	0.98
964999--965060	13	4.1	15	76	19	67	0	27	0	72	0.85
965013--965084	25	2.7	26	77	16	76	2	25	0	72	0.98
968500--968532	15	2.1	16	88	5	50	78	3	0	18	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
970461--970498	3	12.7	3	100	0	76	31	0	0	68	0.90
971506--971549	20	2.3	19	85	11	63	22	29	11	36	1.89
971511--971548	20	1.9	20	94	0	67	21	28	13	36	1.91
971772--972005	106	2.2	106	88	2	362	25	17	21	35	1.95
972018--972044	14	1.9	14	100	0	54	22	18	22	37	1.95
979904--979945	18	2.3	18	87	0	57	71	2	14	11	1.24
980006--980061	2	30.0	2	82	13	75	55	0	0	44	0.99
980142--980217	41	1.9	38	86	7	107	48	6	27	17	1.71
980333--980363	2	15.5	2	100	0	62	51	0	0	48	1.00
980403--980567	85	2.0	84	82	10	203	57	1	6	34	1.34
980603--980629	2	13.5	2	100	0	54	51	0	0	48	1.00
980633--980668	18	2.1	18	89	5	56	66	2	5	25	1.27
982259--982334	29	2.5	30	81	12	84	31	0	3	64	1.12
985156--985255	42	2.4	42	89	0	155	23	31	23	23	1.99
988031--988064	14	2.4	14	85	0	50	29	11	2	55	1.50
991088--991151	32	2.0	32	96	0	119	45	12	17	25	1.83
996000--996051	21	2.5	21	81	3	61	38	19	25	17	1.93
996040--996133	20	4.7	20	81	7	109	34	24	19	22	1.97
996724--996888	19	9.1	19	74	15	143	12	23	20	43	1.85
996724--996888	33	4.6	38	82	9	143	12	23	20	43	1.85
996778--996863	33	2.6	33	96	1	154	11	26	23	38	1.89
1000654--1000804	19	8.7	19	63	21	71	15	21	20	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1000658--1000784	33	3.9	32	85	8	184	14	22	19	43	1.88
1000651--1000783	66	2.0	66	95	0	239	16	21	19	42	1.89
1003271--1003324	24	2.2	24	90	0	81	42	18	14	24	1.88
1004068--1004118	20	2.5	20	96	0	93	31	19	29	19	1.97
1004331--1004380	19	2.5	20	96	3	93	32	28	24	16	1.96
1004406--1004470	19	3.7	19	86	13	95	13	21	18	46	1.84
1004476--1004514	20	2.0	20	94	0	69	12	10	30	46	1.75
1004597--1004633	14	2.6	14	86	0	56	48	21	0	29	1.50
1006499--1006566	20	3.5	20	78	9	68	39	22	22	16	1.92
1006555--1006612	14	3.9	13	76	24	53	46	22	18	12	1.82
1006539--1006617	32	2.4	33	91	2	124	45	21	20	12	1.84
1006624--1006719	19	5.7	18	70	20	82	12	19	21	45	1.83
1006646--1006700	14	3.6	14	73	17	56	10	16	25	47	1.79
1006629--1006719	32	2.8	32	91	3	146	12	18	21	47	1.81
1006704--1006758	20	2.8	19	83	8	65	16	23	23	36	1.94
1007240--1007284	18	2.5	18	88	0	72	13	15	44	26	1.83
1008605--1008646	20	2.1	20	86	0	57	50	21	16	11	1.77
1008614--1008662	20	2.5	20	89	0	71	36	26	18	18	1.94
1008924--1008967	22	2.0	22	95	0	79	18	15	45	20	1.85
1009149--1009200	20	2.6	20	90	0	77	23	21	30	25	1.99
1009209--1009262	20	2.7	20	97	0	99	25	18	24	31	1.97
1009128--1009265	61	2.3	61	84	0	186	23	17	24	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1009128--1009283	61	2.6	61	81	2	152	22	19	24	33	1.97
1014725--1014805	38	2.2	38	90	2	128	11	11	39	38	1.76
1014539--1014953	222	1.9	218	91	3	679	25	12	26	36	1.91
1014435--1015016	222	2.6	220	80	10	656	23	11	27	37	1.89
1014974--1015059	38	2.3	38	92	6	140	11	11	38	38	1.78
1016325--1016387	29	2.3	28	79	15	69	49	3	0	47	1.17
1019724--1019818	46	2.1	46	91	0	154	33	13	12	40	1.83
1022104--1022154	21	2.4	21	96	0	93	31	15	23	29	1.95
1022782--1022827	21	2.2	21	84	0	56	23	10	28	36	1.89
1022828--1022905	23	3.5	23	81	11	99	20	23	26	29	1.99
1028663--1028722	20	2.9	22	76	18	74	31	10	26	31	1.89
1028692--1028741	20	2.5	20	83	6	57	34	12	26	28	1.92
1029345--1029446	21	4.8	21	71	15	57	23	16	25	34	1.95
1032936--1033000	21	3.0	21	74	14	69	26	20	24	29	1.99
1032937--1033037	45	2.3	44	84	8	125	27	19	24	27	1.99
1038807--1038848	20	2.1	20	95	0	75	14	19	42	23	1.87
1038835--1039023	65	2.9	64	83	9	208	29	16	22	31	1.96
1038879--1039043	65	2.5	64	83	4	197	29	16	23	30	1.96
1040583--1040616	16	2.1	16	100	0	68	11	26	32	29	1.92
1042877--1043296	54	7.8	54	87	2	578	35	21	17	25	1.96
1042883--1042965	27	3.1	27	68	25	75	33	24	18	24	1.96
1043272--1043379	56	1.9	56	96	0	198	39	12	15	31	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1043487--1043575	45	2.0	45	82	4	108	47	12	16	23	1.81
1046116--1046148	17	1.9	17	93	0	57	18	3	0	78	0.87
1048015--1048073	31	1.9	31	92	0	100	40	6	10	42	1.65
1048393--1048437	23	2.0	23	82	4	56	44	8	6	40	1.62
1048526--1048587	18	3.2	20	78	19	62	61	0	1	37	1.06
1048582--1048736	63	2.5	63	87	4	226	56	1	0	41	1.10
1048698--1048748	12	4.3	12	76	18	54	66	1	0	31	1.03
1060273--1060298	2	13.0	2	100	0	52	50	0	0	50	1.00
1061493--1061562	28	2.5	28	90	0	113	20	27	22	30	1.98
1064611--1064665	13	4.2	13	73	0	56	49	18	3	29	1.64
1064619--1064668	26	1.9	26	87	0	73	48	20	4	28	1.67
1065370--1065425	14	4.3	14	76	17	66	10	12	23	53	1.69
1065377--1065446	24	2.9	24	87	4	97	12	10	18	58	1.62
1066170--1066244	10	7.7	10	69	21	61	9	12	21	57	1.62
1066176--1066240	16	4.1	16	95	0	121	7	12	23	56	1.61
1074127--1074299	89	2.0	88	94	1	301	37	10	6	45	1.66
1081290--1081336	13	3.6	13	82	0	58	17	2	12	68	1.31
1084917--1084941	13	1.9	13	100	0	50	36	0	48	16	1.46
1085773--1085919	77	1.9	78	82	1	188	36	17	10	35	1.84
1085768--1086390	259	2.4	261	82	5	719	35	16	10	38	1.82
1088286--1088330	18	2.5	18	85	0	63	26	28	22	22	1.99
1095040--1095091	15	3.2	17	72	22	58	36	21	0	42	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1102397--1102515	36	3.3	35	73	9	132	28	19	15	36	1.93
1104211--1104337	48	2.8	46	87	7	177	31	22	7	38	1.82
1118975--1119057	29	2.8	30	76	7	80	34	15	6	43	1.72
1120460--1120600	72	2.0	72	88	2	212	27	19	14	38	1.91
1120472--1120600	35	3.6	36	71	13	113	28	19	13	37	1.90
1122925--1122997	35	2.1	34	82	2	83	31	4	1	63	1.22
1127815--1127860	22	2.1	22	87	0	65	50	8	2	39	1.46
1132880--1133006	35	3.6	35	71	7	105	30	18	15	34	1.93
1137269--1137406	71	2.0	70	89	4	215	27	20	19	32	1.97
1137269--1137404	35	3.9	35	76	10	152	27	19	19	33	1.96

Tables:   1   2   3   4   5   6