genome.fa.s8341.2.7.7.80.10.50.1000.5.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: VEPZ01008341.1 Hibiscus syriacus cultivar Beakdansim tig00111067_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1248125

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 617 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)
986480--986518	20	2.0	20	94	0	69	51	28	2	17	1.59
997602--997669	20	3.4	20	73	15	68	30	14	16	38	1.89
1005123--1005148	11	2.4	11	100	0	52	7	38	46	7	1.61
1005666--1005705	21	1.9	21	89	0	62	37	5	5	52	1.45
1006122--1006256	57	2.4	57	82	6	166	12	12	16	58	1.63
1008240--1008331	45	2.0	45	100	0	184	15	40	22	21	1.91
1009799--1009853	25	2.2	25	100	0	110	21	30	14	32	1.93
1014707--1014739	15	2.1	16	88	5	50	21	3	0	75	0.93
1015482--1015515	12	3.1	11	88	12	52	61	0	0	38	0.96
1016946--1017112	41	4.1	41	79	7	171	34	19	13	32	1.90
1021172--1021219	20	2.4	20	92	0	78	35	18	10	35	1.85
1025487--1025541	25	2.1	25	80	12	58	38	18	3	40	1.68
1026457--1026504	20	2.4	20	92	0	78	35	18	10	35	1.85
1030719--1030773	27	2.1	25	80	12	58	40	16	3	40	1.66
1031841--1032104	131	2.0	132	97	0	503	21	17	18	42	1.89
1046350--1046622	137	2.0	136	96	0	501	41	15	15	28	1.87
1047539--1047598	28	2.1	28	90	0	93	21	13	23	41	1.88
1048388--1048433	22	2.1	22	95	0	83	45	17	6	30	1.73
1052920--1052969	19	2.6	19	83	0	73	30	10	32	28	1.89
1057784--1057826	19	2.3	19	87	0	59	37	16	30	16	1.91
1058364--1058404	18	2.3	18	91	0	64	31	17	34	17	1.93
1063001--1063478	235	2.0	238	86	2	660	31	15	18	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1063378--1063576	98	2.0	99	99	0	391	27	21	20	30	1.98
1063491--1064245	237	3.2	236	91	1	1172	30	15	19	33	1.93
1063912--1064018	42	2.6	42	80	4	128	25	20	23	30	1.98
1064153--1064245	42	2.2	42	81	5	109	23	21	22	32	1.98
1064152--1064913	231	3.2	235	83	5	879	34	15	16	33	1.90
1064619--1064725	42	2.6	42	78	1	117	26	22	20	30	1.98
1065058--1065105	3	15.7	3	86	4	69	35	0	0	64	0.94
1065501--1065594	36	2.6	36	86	3	125	39	12	14	32	1.85
1069426--1069478	11	4.9	10	74	17	52	79	5	15	0	0.91
1069426--1069478	22	2.4	22	85	14	74	79	5	15	0	0.91
1069426--1069499	22	3.4	22	78	12	73	77	5	14	2	1.07
1070977--1071076	37	2.8	36	89	3	146	25	24	13	38	1.91
1071092--1071178	37	2.4	37	84	1	104	25	20	13	40	1.89
1070990--1071381	102	3.9	101	92	2	624	28	21	12	37	1.89
1071194--1071280	37	2.4	37	82	5	97	24	21	12	41	1.88
1070990--1071448	204	2.2	203	87	1	659	28	21	12	37	1.90
1071295--1071381	36	2.4	36	84	0	102	25	22	12	39	1.90
1071323--1071481	67	2.4	67	87	4	223	31	22	11	34	1.90
1072055--1072396	109	3.2	108	85	4	421	31	26	20	20	1.97
1072396--1072636	98	2.4	102	83	7	307	34	24	19	21	1.96
1073093--1073189	36	2.6	36	83	6	115	39	15	14	30	1.87
1073854--1073897	16	2.8	16	80	13	54	34	4	0	61	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1073871--1073919	20	2.4	21	80	13	57	28	4	2	65	1.22
1076763--1076802	16	2.5	16	87	0	53	2	35	7	55	1.42
1077252--1077331	23	3.5	23	89	0	115	7	13	37	41	1.73
1077377--1077426	3	17.0	3	89	4	75	62	0	2	36	1.07
1079580--1079727	78	1.9	80	84	8	205	45	5	8	41	1.57
1081450--1081548	49	2.0	49	100	0	198	41	6	10	42	1.63
1086462--1086614	77	2.0	79	80	7	179	45	5	7	41	1.56
1087809--1087946	60	2.3	60	87	3	188	31	17	18	33	1.94
1087906--1088161	84	3.0	84	90	1	388	29	14	12	43	1.81
1090623--1090660	19	2.1	18	90	9	60	42	2	5	50	1.39
1090967--1091050	41	2.0	41	97	0	159	38	4	15	41	1.68
1091212--1091459	127	2.0	127	93	0	424	27	17	19	35	1.94
1100448--1100554	23	4.5	22	76	13	90	49	1	2	45	1.27
1100467--1100573	32	3.2	32	77	15	119	49	2	0	46	1.22
1100551--1100599	15	3.3	15	88	0	71	44	6	8	40	1.59
1100467--1100574	2	55.5	2	72	15	84	49	2	0	47	1.22
1101007--1101061	7	8.0	7	79	4	67	45	34	0	20	1.51
1101007--1101052	14	3.3	14	93	0	74	45	34	0	19	1.51
1101063--1101108	17	2.9	16	84	12	51	32	6	17	43	1.75
1101601--1101652	23	2.3	23	83	3	61	30	3	17	48	1.65
1101577--1101654	34	2.2	35	82	8	88	32	3	17	46	1.67
1101898--1101934	16	2.4	16	86	4	58	43	10	18	27	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1102635--1102780	60	2.5	60	86	3	197	29	18	19	32	1.95
1102731--1102898	84	2.0	84	91	2	275	30	16	11	41	1.84
1103081--1103194	60	1.9	60	85	0	156	38	14	14	33	1.85
1106805--1106834	13	2.3	13	94	0	51	30	10	6	53	1.60
1111952--1112059	54	2.0	54	100	0	216	38	12	9	38	1.76
1114120--1114508	39	10.7	36	77	10	192	35	15	18	30	1.92
1114120--1114312	66	2.9	66	82	3	253	37	12	18	31	1.89
1114297--1114621	39	8.3	39	92	0	497	33	17	19	29	1.95
1114323--1114387	22	3.2	22	64	20	59	32	16	16	33	1.92
1114515--1114615	20	5.2	20	62	9	64	32	15	19	31	1.94
1114773--1114802	13	2.3	13	100	0	60	26	10	13	50	1.73
1119724--1119776	20	2.8	18	78	16	54	45	0	3	50	1.19
1124192--1124258	3	23.3	3	85	8	95	37	0	0	62	0.95
1128670--1128708	20	2.0	20	100	0	78	46	20	20	12	1.83
1134141--1134193	27	1.9	27	88	3	79	20	15	18	45	1.85
1134783--1134848	19	3.5	19	85	0	87	36	16	27	19	1.93
1134783--1134859	19	4.1	19	82	0	82	31	16	31	20	1.95
1136145--1136174	12	2.5	12	94	0	51	33	0	0	66	0.92
1142185--1142221	15	2.5	15	86	0	56	27	8	2	62	1.37
1145716--1145740	3	8.3	3	100	0	50	68	0	0	32	0.90
1146051--1146102	21	2.5	21	100	0	104	30	7	5	55	1.52
1147275--1147331	18	3.1	18	75	12	62	66	0	5	28	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1148436--1148498	32	2.0	32	83	0	81	30	11	22	36	1.89
1149074--1149357	156	1.8	151	87	3	415	38	20	14	26	1.91
1149301--1149541	65	3.7	65	88	2	358	35	18	15	30	1.92
1149516--1149862	124	2.8	122	85	6	439	36	23	15	24	1.93
1150514--1150545	3	11.3	3	87	12	50	34	0	0	65	0.93
1154699--1154750	20	2.6	20	81	0	59	32	17	25	25	1.97
1155184--1155320	54	2.5	53	83	6	152	39	9	15	35	1.80
1155542--1155795	68	3.7	68	88	2	384	30	15	24	30	1.95
1155745--1156599	81	10.6	81	87	0	1170	36	11	23	29	1.90
1164777--1164842	30	2.2	30	86	0	87	10	30	24	34	1.89
1166761--1166791	16	2.0	16	93	6	55	38	9	12	38	1.77
1172168--1172243	36	2.1	36	82	5	89	28	17	10	43	1.82
1172270--1172359	37	2.5	37	85	1	119	31	15	7	45	1.74
1172487--1172579	35	2.6	36	79	16	113	29	19	11	39	1.87
1172487--1172600	36	3.2	35	78	13	108	28	19	13	39	1.89
1172573--1172731	75	2.1	77	85	4	216	32	18	7	42	1.78
1172576--1172694	38	3.2	36	69	16	98	31	19	8	41	1.81
1172589--1172754	75	2.2	75	83	6	199	32	18	7	40	1.79
1172850--1173279	52	8.1	52	78	6	402	31	9	19	39	1.83
1172830--1173187	104	3.4	104	96	0	644	32	9	18	38	1.83
1174265--1174516	105	2.4	105	95	1	452	36	19	21	22	1.95
1178737--1178815	38	2.1	39	90	2	124	55	2	5	36	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1181900--1181962	30	2.1	31	96	3	119	33	19	12	34	1.89
1184838--1184902	31	2.1	31	88	0	94	29	6	6	58	1.47
1184856--1184914	31	1.9	31	89	6	93	27	3	11	57	1.50
1185868--1185953	39	2.3	39	85	4	122	47	3	13	34	1.60
1188310--1188480	60	2.9	59	78	7	184	33	17	3	45	1.66
1188295--1188477	59	3.1	59	78	7	181	34	18	3	43	1.66
1188582--1188611	2	15.0	2	100	0	60	50	0	0	50	1.00
1188632--1188789	60	2.7	60	83	6	166	41	5	20	32	1.74
1194474--1194529	24	2.3	24	96	0	103	28	16	16	39	1.89
1196966--1196998	14	2.5	14	90	9	52	48	0	0	51	1.00

Tables:   1   2   3   4   5   6