genome.fa.s8523.2.7.7.80.10.50.1000.4.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: VEPZ01008523.1 Hibiscus syriacus cultivar Beakdansim tig00111392_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4657139

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  4  of  18  ( 2060 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)
798422--798513	41	2.2	41	86	0	130	56	20	10	11	1.65
799537--799576	17	2.4	17	91	0	62	0	47	0	52	1.00
818545--818617	28	2.5	30	77	6	87	32	16	8	42	1.78
818644--818683	19	2.1	19	85	0	53	15	22	37	25	1.93
834523--834559	20	1.9	19	89	10	58	45	10	24	18	1.81
835427--835494	21	3.2	21	62	22	52	42	11	4	41	1.61
835428--835513	42	2.0	42	100	0	172	44	11	4	39	1.62
836715--836766	21	2.6	21	82	11	56	42	3	0	53	1.19
837272--837297	12	2.2	12	100	0	52	34	15	34	15	1.89
839277--839374	31	3.2	31	91	0	133	38	18	22	20	1.93
840185--840221	19	1.9	19	88	0	56	54	10	5	29	1.57
840806--840872	31	2.2	31	83	5	82	25	23	13	37	1.92
840822--840881	31	1.9	31	89	0	93	23	23	15	38	1.92
845285--845417	58	2.2	60	83	7	157	33	18	15	33	1.92
855513--855863	171	2.1	166	82	8	411	37	17	17	27	1.93
856370--856411	16	2.6	16	96	0	75	16	11	38	33	1.86
861527--861578	15	3.2	17	72	22	58	36	21	0	42	1.53
866395--866435	21	2.0	21	85	9	57	48	19	0	31	1.49
869534--869590	28	2.0	28	93	0	96	31	12	19	36	1.89
870798--870828	2	15.5	2	100	0	62	51	0	0	48	1.00
896815--896856	19	2.2	20	87	12	61	54	0	0	45	0.99
896807--896859	22	2.3	24	84	15	69	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
896988--897051	4	15.5	4	83	6	83	46	21	1	29	1.61
902118--902142	7	3.6	7	100	0	50	28	24	16	32	1.96
902606--902660	20	2.8	20	100	0	110	25	34	16	23	1.95
905096--905152	20	2.8	20	92	5	89	38	7	24	29	1.82
907875--907931	29	2.0	28	83	10	71	54	15	10	19	1.70
908966--909031	29	2.3	29	94	0	114	28	6	28	36	1.81
909011--909051	17	2.3	19	83	8	50	34	4	24	36	1.77
912434--912485	23	2.3	23	86	0	68	44	13	17	25	1.85
912445--912513	23	3.0	23	93	2	111	39	11	18	30	1.87
913198--913253	28	2.0	28	82	0	67	44	14	8	32	1.76
924409--924550	60	2.4	59	84	5	178	33	15	16	35	1.90
924772--924885	60	1.9	60	85	0	156	37	18	16	27	1.92
929885--929916	15	2.1	15	100	0	64	37	0	6	56	1.25
930148--930179	17	2.0	17	88	11	50	43	0	0	56	0.99
930167--930199	16	2.2	16	89	10	52	30	0	6	63	1.18
933899--933968	31	2.3	31	84	0	86	24	21	15	38	1.92
933909--933975	31	2.2	31	91	0	107	20	23	16	38	1.92
935864--935940	31	2.5	31	89	0	109	38	14	22	24	1.91
936146--936185	20	1.9	21	85	10	55	45	10	0	45	1.37
943488--943539	25	2.1	25	89	3	79	50	11	7	30	1.67
957476--957503	2	14.0	2	100	0	56	50	0	0	50	1.00
957558--957605	24	2.0	25	91	4	80	39	16	4	39	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
959189--959335	60	2.5	60	82	6	181	32	17	19	30	1.95
961210--961345	60	2.2	61	82	2	157	35	16	16	31	1.91
970868--970892	11	2.3	11	100	0	50	44	0	16	40	1.47
971591--971633	19	2.3	19	100	0	86	51	20	4	23	1.66
974676--974732	29	1.9	30	85	3	80	54	19	10	15	1.70
974879--974933	28	2.0	28	100	0	110	36	30	0	32	1.58
977785--977963	21	8.6	21	84	6	238	30	25	21	22	1.99
977785--977963	83	2.1	83	91	5	290	30	25	21	22	1.99
977972--978088	41	2.9	41	84	5	112	22	17	24	35	1.96
977972--978085	21	5.6	21	71	14	85	21	18	25	34	1.96
977978--978110	42	3.2	42	84	9	168	21	17	24	36	1.94
978037--978102	21	3.2	20	72	16	64	19	18	22	39	1.92
978037--978114	19	3.9	19	73	12	66	23	17	21	37	1.94
978207--978245	5	7.6	5	91	2	60	20	53	25	0	1.45
978894--979002	21	5.3	21	80	4	132	32	28	18	21	1.96
978869--979002	42	3.2	41	84	8	166	34	26	17	21	1.96
979017--979125	21	5.2	21	78	10	116	23	21	22	32	1.98
978977--979101	62	2.0	62	90	3	198	25	24	19	31	1.98
978991--979118	62	2.1	62	96	0	238	25	21	21	32	1.97
979278--979347	31	2.4	29	82	13	90	40	0	2	57	1.14
980123--980507	205	1.9	207	86	2	551	32	6	12	48	1.67
980493--980527	2	17.5	2	100	0	70	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
986795--986854	27	2.1	27	87	6	84	31	21	6	40	1.79
992551--992580	5	6.0	5	100	0	60	20	0	40	40	1.52
994620--994793	60	2.9	60	77	6	158	29	24	6	39	1.80
994948--995090	59	2.4	60	82	1	171	44	6	18	30	1.76
995314--995355	2	21.0	2	100	0	84	50	0	0	50	1.00
995691--995715	2	12.5	2	100	0	50	0	52	0	48	1.00
998278--998767	228	2.1	228	95	0	883	44	8	7	40	1.63
999046--999092	20	2.4	19	89	10	76	55	10	17	17	1.69
998834--999306	181	2.6	182	89	1	689	42	14	16	26	1.87
999236--999278	20	2.3	19	88	11	63	51	11	16	20	1.75
1001501--1001565	21	3.1	21	79	0	76	38	13	30	16	1.88
1001599--1001664	33	2.0	33	90	0	105	28	0	48	22	1.51
1004505--1004574	25	2.8	25	82	0	95	35	10	12	41	1.77
1004858--1004903	22	2.1	22	84	8	58	41	10	8	39	1.71
1004921--1004993	23	3.2	23	88	0	101	34	4	21	39	1.73
1005421--1005457	18	2.1	18	89	0	56	32	5	10	51	1.60
1005413--1005459	24	2.0	24	86	0	67	34	4	14	46	1.64
1005732--1005797	34	1.9	34	96	0	123	48	18	16	16	1.82
1006226--1006293	23	3.0	23	88	0	100	33	4	22	39	1.74
1006438--1006504	30	2.2	29	82	10	73	53	2	0	43	1.16
1008707--1009228	260	2.0	261	95	0	947	33	17	12	36	1.88
1009841--1009985	59	2.4	60	78	12	147	32	22	2	42	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1010824--1011013	96	2.0	96	94	0	335	47	12	11	28	1.76
1025316--1025390	29	2.6	29	84	0	96	18	38	26	16	1.91
1025346--1025404	29	2.0	29	86	0	82	23	32	35	8	1.85
1025619--1025703	29	2.9	29	83	0	107	12	29	40	17	1.87
1026502--1026548	18	2.7	17	81	12	51	38	2	0	59	1.09
1030056--1030096	18	2.3	18	91	4	66	29	4	2	63	1.28
1030170--1030379	111	1.9	111	96	0	393	37	5	10	46	1.63
1032468--1032552	35	2.5	33	76	14	82	25	7	10	56	1.58
1038959--1039052	20	4.3	20	72	18	64	48	0	26	24	1.51
1038953--1039105	23	6.7	23	72	15	120	50	0	24	23	1.53
1040993--1041068	25	3.1	25	82	3	91	26	18	21	34	1.96
1052145--1052182	19	2.0	19	100	0	76	31	26	21	21	1.98
1056172--1056209	17	2.1	19	80	14	53	63	0	0	36	0.95
1056709--1056870	60	2.7	60	84	3	202	32	21	5	40	1.76
1057400--1057472	31	2.4	31	100	0	146	27	31	9	31	1.89
1059480--1059521	21	2.0	22	90	4	68	54	0	0	45	0.99
1063968--1064018	16	3.2	17	71	23	56	45	0	19	35	1.51
1064225--1064291	33	2.0	33	82	5	82	62	1	5	29	1.28
1072355--1072412	27	2.1	27	83	0	71	29	18	15	36	1.92
1073077--1073253	46	3.8	46	71	0	138	32	18	17	31	1.94
1073776--1073809	15	2.2	16	89	5	52	8	67	14	8	1.41
1082996--1083046	22	2.3	22	100	0	102	17	0	17	64	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1084991--1085034	22	2.0	21	82	4	52	43	18	6	31	1.76
1089056--1089116	2	32.0	2	85	9	74	52	0	1	45	1.10
1101211--1101235	12	2.1	12	100	0	50	92	0	8	0	0.40
1101436--1101473	17	2.2	18	85	4	51	68	0	2	28	1.03
1102719--1102773	27	2.1	26	86	3	74	23	7	21	47	1.76
1102715--1102769	13	4.2	13	76	4	56	23	5	21	49	1.70
1107635--1107673	12	3.5	11	86	6	53	15	0	15	69	1.20
1107695--1107743	23	2.1	23	84	0	62	38	22	0	38	1.54
1108273--1108331	26	2.3	26	100	0	118	38	5	3	52	1.40
1109064--1109113	25	2.0	25	100	0	100	20	28	12	40	1.87

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18