genome.fa.s8078.2.7.7.80.10.50.1000.5.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: VEPZ01008078.1 Hibiscus syriacus cultivar Beakdansim tig00110580_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1434613

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 813 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)
845968--846013	20	2.3	20	85	7	58	39	26	19	15	1.91
846007--846056	19	2.6	19	93	0	91	44	20	22	14	1.86
846063--846186	20	6.7	19	79	13	71	13	22	23	40	1.90
846067--846127	32	1.9	32	100	0	122	13	19	22	44	1.85
846099--846186	20	4.4	20	88	1	124	14	23	25	36	1.93
846063--846186	40	3.3	39	83	9	127	13	22	23	40	1.90
846113--846212	20	5.1	19	85	6	83	21	20	25	34	1.97
846113--846206	40	2.4	40	83	5	111	18	21	25	35	1.95
846554--846614	21	3.0	20	73	7	68	24	42	11	21	1.86
846551--846641	41	2.2	42	84	2	121	24	41	13	20	1.88
848048--848086	14	2.8	14	84	0	51	35	0	17	46	1.49
848213--848266	14	3.5	14	75	22	54	46	20	22	11	1.82
848226--848271	14	2.8	17	75	25	53	45	19	21	13	1.84
848287--848325	20	2.0	20	100	0	78	12	25	25	35	1.92
848871--849005	20	6.7	20	80	5	110	24	18	25	31	1.97
848932--849026	41	2.3	41	81	3	111	22	18	23	35	1.96
848994--849045	20	2.5	21	87	3	70	21	23	17	38	1.93
849035--849087	21	2.5	22	81	6	74	33	18	26	20	1.96
851501--851648	60	2.5	60	85	2	199	39	7	20	31	1.81
852099--852152	10	5.5	10	75	20	60	46	0	0	53	1.00
852080--852156	29	2.7	29	84	8	95	50	0	0	49	1.00
852082--852154	37	2.0	37	86	5	103	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)
854195--854283	22	4.1	22	87	7	112	21	39	25	13	1.90
854180--854284	20	4.9	22	83	11	112	22	34	27	15	1.94
857407--857515	20	5.1	20	82	12	119	18	41	26	13	1.88
857424--857476	26	2.1	26	89	3	81	18	49	20	11	1.78
857407--857496	46	2.0	46	88	4	137	18	42	25	13	1.87
859496--859563	35	1.9	35	90	0	109	38	0	17	44	1.49
878788--878881	45	2.1	45	100	0	188	48	20	20	10	1.78
881793--881866	20	3.7	20	80	3	85	29	25	25	18	1.98
881887--882028	21	6.7	21	90	4	207	23	17	36	21	1.95
881910--881976	13	5.9	13	67	31	55	23	19	37	19	1.94
890453--890496	17	2.6	17	85	7	63	56	29	0	13	1.38
890448--890498	9	6.2	8	78	17	52	58	27	0	13	1.36
892435--892474	21	1.9	21	89	0	62	10	25	40	25	1.86
892455--892517	20	2.9	21	79	9	65	15	25	34	23	1.95
895870--895947	21	3.7	21	87	0	111	28	20	25	25	1.99
920892--920925	9	3.9	9	92	7	61	64	0	0	35	0.94
920888--920925	17	2.3	17	95	4	69	65	0	0	34	0.93
920971--921009	10	3.9	10	89	0	60	41	0	28	30	1.57
924622--924655	2	17.0	2	100	0	68	50	0	0	50	1.00
926847--926882	18	2.0	18	88	0	54	27	27	19	25	1.99
927371--927442	26	3.0	24	68	27	62	26	6	4	62	1.39
931093--931222	51	2.5	51	86	2	163	25	27	32	14	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
939117--939166	22	2.3	22	96	0	91	28	24	24	24	2.00
944127--944194	3	22.3	3	96	3	127	35	0	0	64	0.94
949734--949765	15	2.1	15	94	0	55	28	18	6	46	1.73
957105--957202	7	13.4	7	77	14	83	81	0	18	0	0.69
957102--957203	10	10.0	10	77	7	107	81	0	18	0	0.69
957103--957195	31	2.9	32	85	9	127	80	0	19	0	0.71
957102--957195	44	2.2	42	88	7	136	80	0	19	0	0.70
958209--958380	92	1.9	92	91	2	283	32	15	18	33	1.92
959191--959822	112	5.7	109	86	4	773	38	14	17	29	1.89
959189--959822	225	2.8	223	89	2	929	38	14	17	29	1.89
960084--960147	3	21.3	3	100	0	128	34	0	0	65	0.93
963142--963178	14	2.6	14	100	0	74	5	48	16	29	1.68
963733--963777	20	2.1	22	92	8	76	48	2	13	35	1.54
964764--964824	28	2.1	29	84	3	79	34	4	1	59	1.29
965531--965555	3	8.3	3	100	0	50	32	0	0	68	0.90
967257--967297	20	2.0	20	95	0	73	26	17	17	39	1.91
967315--967353	20	2.0	20	94	0	69	33	10	23	33	1.88
967316--967361	20	2.3	20	88	0	65	32	13	21	32	1.92
967354--967394	20	2.0	20	95	0	73	24	14	19	41	1.89
967238--967430	97	2.0	97	93	0	332	30	13	19	36	1.91
967252--967470	97	2.3	95	84	4	260	29	14	18	37	1.90
967431--967470	20	2.0	20	95	0	71	25	12	20	42	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
968941--968973	2	16.5	2	100	0	66	48	0	0	51	1.00
971715--971747	2	16.5	2	100	0	66	48	0	0	51	1.00
975950--975975	13	2.0	13	100	0	52	38	7	15	38	1.76
984514--984578	17	3.6	17	69	15	58	20	21	30	27	1.98
984485--984580	38	2.5	38	93	0	156	25	20	27	27	1.99
985888--986345	99	4.5	100	78	11	459	31	2	10	55	1.49
986805--986888	42	2.0	42	97	0	159	33	5	30	29	1.81
993716--993797	23	3.7	23	85	8	107	25	32	25	15	1.96
996125--996150	8	3.2	8	100	0	52	26	0	11	61	1.30
996374--996430	24	2.5	23	89	10	91	17	43	22	15	1.87
998057--998415	120	3.0	120	93	0	603	30	14	12	42	1.83
999265--999342	31	2.5	31	89	0	111	10	7	38	43	1.67
999833--999915	41	2.0	42	95	2	150	20	14	16	48	1.81
1000513--1000726	33	6.3	33	70	14	132	41	31	8	18	1.81
1000602--1000792	32	5.9	31	78	12	147	40	27	8	24	1.83
1003636--1003698	22	2.8	23	80	7	67	26	0	4	68	1.10
1003652--1003698	19	2.5	19	85	0	58	31	0	2	65	1.04
1003646--1003698	3	19.0	3	77	14	51	30	0	3	66	1.10
1005159--1005192	18	1.9	17	88	5	50	64	5	0	29	1.17
1005455--1005525	36	1.9	37	81	13	85	45	23	14	16	1.84
1013145--1013202	29	2.0	29	100	0	116	44	6	24	24	1.77
1016477--1016512	2	18.0	2	100	0	72	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1030629--1030676	26	1.9	24	83	8	60	54	0	6	39	1.26
1036975--1037121	73	2.0	73	100	0	294	38	28	8	24	1.85
1039987--1040032	16	2.7	17	83	9	58	43	6	19	30	1.76
1040453--1040507	22	2.5	22	100	0	110	56	0	0	43	0.99
1040625--1040706	37	2.2	38	89	6	132	36	37	10	14	1.82
1040871--1040937	28	2.4	28	87	2	91	43	34	7	14	1.74
1040871--1040927	28	2.0	28	93	0	96	45	31	7	15	1.73
1041105--1041184	38	2.1	38	88	2	117	40	37	10	12	1.77
1040624--1041391	248	3.2	244	86	7	1088	38	26	10	23	1.88
1044468--1044512	23	2.0	23	82	8	56	57	15	2	24	1.49
1061481--1061526	22	2.0	24	83	12	60	43	17	2	36	1.61
1061980--1062045	23	2.9	23	90	0	96	28	24	25	21	1.99
1071282--1071555	82	3.4	81	81	4	318	29	18	17	33	1.95
1071342--1071468	41	3.1	40	71	11	114	32	18	17	32	1.94
1071412--1071555	41	3.5	41	71	3	119	31	19	16	31	1.94
1073506--1073630	23	5.3	23	75	4	101	32	22	20	24	1.98
1073511--1073630	47	2.6	47	90	1	188	31	22	21	24	1.98
1073637--1073957	103	3.1	103	96	0	588	37	23	13	26	1.91
1076482--1076911	42	10.1	43	80	4	444	23	22	20	33	1.97
1076482--1076911	85	5.1	83	81	3	446	23	22	20	33	1.97
1076518--1076895	43	8.9	43	81	4	329	23	23	20	33	1.97
1078499--1078567	23	3.0	23	86	0	93	27	24	24	23	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1081820--1081971	76	2.0	76	96	0	277	39	13	15	30	1.87
1087166--1087215	26	1.9	26	91	0	82	54	18	2	26	1.54
1091847--1092177	165	2.0	164	93	6	573	47	14	10	26	1.78
1094095--1094196	22	4.7	22	89	5	129	17	26	31	24	1.97
1098008--1098047	21	1.9	21	85	10	55	35	7	2	55	1.42
1107484--1107531	17	2.8	17	81	15	62	68	14	6	10	1.37
1107494--1107540	14	3.1	14	80	14	58	70	12	6	10	1.33
1107494--1107557	32	2.0	31	88	8	94	65	17	6	10	1.43
1120902--1120941	20	2.0	20	90	5	62	42	2	0	55	1.13
1122152--1122184	16	1.9	18	88	11	52	36	3	0	60	1.12

Tables:   1   2   3   4   5   6   7