genome.fa.s8506.2.7.7.80.10.50.1000.5.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: VEPZ01008506.1 Hibiscus syriacus cultivar Beakdansim tig00111358_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1253200

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 681 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)
905964--906020	21	2.8	21	97	2	107	28	8	14	49	1.72
906301--906350	24	2.1	24	82	17	61	54	2	0	44	1.11
906424--906462	20	1.9	21	84	5	53	25	0	17	56	1.41
906837--906887	26	2.0	26	84	0	66	37	15	7	39	1.77
906860--906947	40	2.3	37	92	5	140	40	13	4	40	1.65
906931--907019	2	44.5	2	82	8	110	47	5	1	46	1.33
911138--911183	20	2.3	20	88	3	67	34	0	26	39	1.57
911232--911301	31	2.3	31	97	0	131	37	5	27	30	1.80
912601--912657	21	2.7	21	97	0	105	19	10	24	45	1.81
918548--918587	21	1.9	21	89	0	62	25	40	25	10	1.86
921878--921930	20	2.6	20	78	3	61	58	5	5	30	1.44
921878--921925	21	2.3	21	82	3	53	56	6	6	31	1.49
922447--922645	29	7.0	28	78	10	129	32	2	16	49	1.59
922447--922562	59	2.0	59	83	6	146	31	1	14	51	1.52
922523--922691	29	6.2	27	79	12	93	34	3	15	46	1.64
928595--928665	20	3.7	20	88	3	101	35	1	25	38	1.65
933956--933983	2	14.0	2	100	0	56	50	0	0	50	1.00
934646--934783	68	2.0	68	97	0	258	39	5	36	18	1.74
934948--934995	19	2.6	19	83	9	55	31	8	2	58	1.39
935680--935751	29	2.5	29	93	2	119	41	5	19	33	1.75
936677--936725	3	16.7	3	82	4	64	32	4	0	63	1.13
936882--936975	25	3.8	25	100	0	188	31	20	15	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
950396--950430	16	2.2	16	90	10	54	77	0	14	8	0.99
950374--950429	16	3.9	14	77	13	51	82	0	12	5	0.83
951384--951643	141	1.8	141	88	3	398	28	28	18	24	1.98
951899--951947	3	16.7	3	82	4	64	32	4	0	63	1.13
952104--952222	25	4.8	25	100	0	238	31	20	15	31	1.94
954922--954958	15	2.6	14	88	12	58	54	0	0	45	1.00
954963--955002	14	2.9	14	88	7	55	37	0	2	60	1.11
955084--955151	30	2.4	30	80	14	81	48	0	4	47	1.22
955404--955452	14	3.4	14	72	5	53	40	4	6	48	1.47
955407--955483	29	2.6	30	89	2	111	41	6	6	45	1.56
956133--956181	22	2.3	22	80	13	59	61	4	8	26	1.42
956972--957059	26	3.2	25	73	20	70	45	1	5	47	1.33
956986--957082	30	3.2	29	81	9	106	47	1	6	45	1.34
958069--958109	21	2.0	21	85	0	55	65	2	31	0	1.05
962152--962247	21	4.6	21	74	0	75	20	13	22	42	1.87
986644--986824	21	8.8	19	76	12	128	22	19	22	35	1.96
986644--986823	42	4.3	40	85	5	195	22	19	22	36	1.95
986630--986795	63	2.6	61	80	9	192	21	19	22	36	1.95
987703--987981	42	6.7	42	84	7	272	35	23	19	21	1.96
987770--987964	63	3.1	62	93	2	311	33	25	20	21	1.97
987700--987964	21	12.8	19	73	15	179	33	24	19	22	1.97
987977--988029	21	2.5	21	93	0	88	16	20	32	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
992504--992763	132	2.0	132	83	5	330	32	17	17	31	1.94
992891--993048	41	3.8	41	71	11	122	35	21	13	29	1.92
992803--993074	86	3.2	86	82	7	320	34	21	13	30	1.92
993333--993453	26	4.7	26	75	15	83	46	0	6	46	1.35
993386--993475	30	3.0	30	80	15	107	46	2	5	45	1.38
993378--993475	26	3.5	25	75	22	72	47	2	6	43	1.39
995121--995163	22	2.0	22	90	0	68	46	2	2	48	1.27
997601--997682	32	2.6	32	86	0	110	35	17	14	32	1.90
997975--998013	19	2.1	19	85	9	53	23	5	5	66	1.32
998008--998051	22	2.0	22	86	8	63	27	0	6	65	1.17
1005085--1005141	20	2.9	20	92	2	98	22	14	31	31	1.93
1006075--1006112	18	2.1	19	95	5	69	21	0	10	68	1.19
1008201--1008243	21	2.0	21	90	0	68	32	27	23	16	1.96
1009910--1010127	103	2.1	103	94	0	382	26	12	23	37	1.91
1010137--1010211	23	3.3	23	87	3	100	24	20	24	32	1.98
1015158--1015209	23	2.3	23	80	6	63	25	21	23	30	1.99
1019373--1019450	39	2.0	39	89	0	120	33	11	19	35	1.88
1021235--1021333	48	2.1	49	84	7	132	40	0	6	53	1.26
1040906--1041188	45	6.3	45	86	0	377	22	19	14	42	1.88
1042320--1042423	44	2.4	44	85	10	142	39	8	24	27	1.84
1042322--1042423	45	2.3	43	85	11	136	40	8	24	26	1.84
1053126--1053156	2	15.5	2	100	0	62	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)
1053356--1053431	40	1.9	40	91	0	125	46	15	5	32	1.69
1056866--1056898	2	16.5	2	100	0	66	51	0	0	48	1.00
1057545--1057698	40	3.8	40	87	2	193	40	20	18	20	1.92
1057545--1057698	20	7.7	20	82	2	175	40	20	18	20	1.92
1057665--1057731	20	3.3	20	87	4	82	32	26	17	22	1.96
1058575--1058628	24	2.2	24	93	0	90	20	18	20	40	1.91
1061042--1061130	20	4.4	20	88	2	135	35	25	21	16	1.94
1061042--1061130	40	2.2	40	96	4	162	35	25	21	16	1.94
1061113--1061197	33	2.5	33	86	1	116	42	16	24	16	1.88
1061164--1061201	20	2.0	19	85	10	51	42	18	26	13	1.87
1061234--1061287	14	3.5	14	73	22	54	12	22	20	44	1.85
1061212--1061307	33	2.8	33	87	6	131	13	22	20	42	1.87
1061413--1061449	14	2.6	14	86	0	56	48	21	0	29	1.50
1062834--1062920	21	4.1	21	74	0	75	24	18	35	21	1.95
1063400--1063486	20	4.3	20	92	0	138	39	24	18	18	1.92
1064291--1064451	64	2.5	65	80	6	150	31	20	18	29	1.96
1064759--1064794	12	3.0	12	87	0	54	30	8	25	36	1.85
1064939--1064996	15	3.9	15	100	0	116	13	25	32	27	1.94
1071641--1071675	12	2.8	13	91	8	56	31	2	25	40	1.70
1072521--1072676	34	4.4	34	70	13	127	16	18	21	44	1.87
1072543--1072699	20	8.5	20	73	18	117	17	17	21	43	1.88
1074557--1074646	20	4.6	20	84	1	92	46	23	15	14	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1074985--1075050	22	3.0	22	90	0	105	21	15	39	24	1.91
1075266--1075332	20	3.3	20	77	4	80	20	20	20	37	1.95
1075329--1075374	21	2.2	21	92	0	74	39	17	26	17	1.91
1081432--1081494	30	2.1	30	85	5	83	36	11	1	50	1.47
1081461--1081648	24	7.5	23	70	19	110	42	6	2	48	1.41
1081376--1081642	129	2.1	130	98	1	520	44	5	2	46	1.43
1081439--1081656	24	8.5	24	68	21	104	41	7	2	49	1.43
1081612--1081702	32	2.9	31	74	7	87	41	5	0	52	1.24
1081706--1081881	30	5.9	30	79	4	171	51	1	8	38	1.43
1081868--1081920	18	2.9	18	68	2	52	39	0	15	45	1.46
1082356--1082401	16	2.9	16	100	0	92	45	19	15	19	1.85
1084899--1084929	16	1.9	16	93	0	53	25	6	12	54	1.62
1086018--1086066	19	2.6	19	86	0	62	42	2	4	51	1.32
1086194--1086351	21	7.8	20	70	7	77	38	24	17	19	1.92
1086318--1086511	20	9.6	20	80	5	212	35	25	20	19	1.95
1086318--1086511	60	3.2	60	82	0	244	35	25	20	19	1.95
1086894--1086964	33	2.2	33	92	0	115	11	22	18	47	1.80
1087044--1087133	21	4.4	21	81	5	114	45	18	22	13	1.84
1087158--1087241	19	4.7	19	75	14	88	9	21	25	44	1.82
1087158--1087257	52	1.9	52	95	0	182	9	22	24	45	1.81
1088768--1088792	12	2.1	12	100	0	50	0	28	0	72	0.86
1089696--1089925	20	11.5	20	84	1	228	20	18	24	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1089696--1089925	40	5.8	40	85	6	252	20	18	24	36	1.94
1089912--1089994	21	4.0	21	73	6	78	25	16	24	33	1.96
1089892--1089990	42	2.4	43	77	11	100	21	18	23	37	1.94
1090501--1090537	2	18.5	2	94	0	65	0	48	0	51	1.00
1096347--1096396	26	2.0	25	92	4	82	56	12	4	28	1.54
1101592--1101634	14	2.9	15	83	16	54	51	0	0	48	1.00
1101592--1101634	15	2.8	15	79	13	52	51	0	0	48	1.00
1103198--1103249	3	17.0	3	96	4	95	65	0	0	34	0.93
1103375--1104270	45	19.8	45	93	1	1486	34	18	22	23	1.96
1103375--1104270	91	9.9	91	93	1	1523	34	18	22	23	1.96

Tables:   1   2   3   4   5   6