genome.fa.s7950.2.7.7.80.10.50.1000.5.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: VEPZ01007950.1 Hibiscus syriacus cultivar Beakdansim tig00110372_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1941792

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  5  of  10  ( 1138 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)
858761--858852	32	2.9	31	79	7	96	32	16	18	32	1.93
860843--860895	22	2.5	22	96	3	99	41	9	22	26	1.84
865336--865380	21	2.1	21	87	0	63	31	28	24	15	1.96
865762--865811	26	1.9	26	84	8	66	34	4	22	40	1.72
866167--866322	31	5.0	31	88	1	224	21	20	21	36	1.95
866169--866322	62	2.5	62	91	4	249	21	20	21	36	1.95
867181--867234	22	2.5	22	96	0	99	42	9	22	25	1.83
870033--870073	21	2.0	21	85	9	57	24	7	19	48	1.74
870888--870961	23	3.2	23	88	0	94	20	28	22	28	1.99
875643--875722	27	3.0	27	100	0	160	37	11	22	28	1.89
886221--886254	16	2.1	16	94	0	59	32	26	8	32	1.87
888836--888916	31	2.6	31	94	3	137	19	7	24	48	1.75
897522--897587	27	2.5	26	80	4	78	28	10	4	56	1.53
898522--898558	15	2.3	16	90	9	58	16	5	5	72	1.21
905604--905643	2	20.0	2	100	0	80	50	0	0	50	1.00
912850--913290	220	2.0	221	98	1	850	43	9	12	34	1.75
915486--915534	18	2.7	18	96	0	89	18	24	30	26	1.98
920746--920820	10	7.7	10	72	21	70	58	21	10	9	1.59
920750--920814	16	4.1	16	91	0	112	58	23	10	7	1.57
924914--924968	24	2.3	24	90	0	83	56	18	9	16	1.66
930729--930799	18	3.9	18	98	0	133	15	22	35	26	1.94
939425--939475	18	2.8	18	87	0	84	17	23	31	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
942132--942207	32	2.4	32	84	4	91	42	15	14	27	1.86
947443--947546	31	3.5	31	80	17	123	28	12	8	50	1.70
947462--947521	26	2.3	26	97	2	113	26	11	6	55	1.60
949577--949650	31	2.4	31	88	0	103	51	9	14	24	1.72
950048--950111	25	2.6	24	80	4	83	57	6	1	34	1.33
950097--950122	11	2.4	11	100	0	52	50	7	0	42	1.31
950107--950157	17	3.1	17	73	21	63	58	5	1	33	1.33
950135--950366	128	1.8	126	89	7	371	43	14	10	31	1.80
951289--951343	17	3.2	16	80	7	56	32	1	0	65	1.03
951296--951376	34	2.4	34	84	14	96	37	1	2	59	1.19
953567--953631	17	3.8	17	81	4	85	33	0	6	60	1.22
956048--956085	2	19.0	2	100	0	76	50	0	0	50	1.00
956449--956577	63	2.0	64	94	4	226	19	5	19	55	1.62
956591--956801	104	2.0	104	92	1	350	22	11	18	46	1.81
957286--957339	21	2.6	21	82	2	65	59	1	0	38	1.08
959591--959633	2	21.5	2	100	0	86	51	0	0	48	1.00
961857--961896	19	2.0	20	95	4	73	60	5	5	30	1.40
961870--961919	14	3.4	14	78	15	57	62	2	8	28	1.35
985944--986065	42	2.8	42	90	7	183	51	0	0	47	1.06
986588--986631	23	1.9	23	100	0	88	43	0	0	56	0.99
993386--993425	21	1.9	21	100	0	80	47	20	17	15	1.83
993385--993432	21	2.3	20	89	10	78	43	20	20	14	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1000193--1000256	7	9.1	7	76	10	60	81	1	15	1	0.85
1000194--1000253	31	2.0	31	80	9	70	80	1	16	1	0.89
1000193--1000256	19	3.1	21	81	16	73	81	1	15	1	0.85
1000201--1000256	24	2.4	23	77	22	71	80	1	16	1	0.88
1001378--1001565	102	1.8	102	86	0	268	37	21	18	22	1.94
1003442--1003512	28	2.5	27	77	18	65	22	8	2	66	1.32
1003686--1003731	2	23.5	2	95	4	85	50	0	0	50	1.00
1003770--1003820	18	3.1	16	78	13	50	17	7	1	72	1.18
1003922--1003947	3	8.7	3	100	0	52	30	0	0	69	0.89
1005529--1005565	2	18.5	2	100	0	74	51	0	0	48	1.00
1005874--1006131	124	2.1	123	87	6	380	42	20	7	29	1.79
1007111--1007155	3	15.0	3	81	9	56	62	2	0	35	1.08
1007113--1007163	9	5.8	8	82	15	57	60	1	1	35	1.19
1007394--1007716	90	3.6	90	90	0	511	34	22	18	25	1.96
1007761--1008363	43	13.2	43	74	16	455	30	26	13	29	1.93
1007809--1008356	98	5.9	95	72	19	354	31	26	12	29	1.93
1007718--1008325	141	4.3	140	91	1	923	30	26	13	29	1.94
1008382--1008463	40	2.0	41	84	11	107	42	13	14	29	1.84
1008453--1008749	36	8.3	36	87	3	422	36	12	23	27	1.91
1008453--1008749	141	2.1	143	89	1	454	36	12	23	27	1.91
1008595--1008653	15	3.7	15	76	12	64	32	11	27	28	1.92
1008646--1008744	21	5.3	20	62	26	56	36	13	25	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1009005--1009103	34	2.9	34	87	3	119	33	8	21	37	1.83
1009206--1009336	32	4.1	32	87	2	172	30	22	15	32	1.94
1009206--1009336	65	2.0	64	85	1	172	30	22	15	32	1.94
1010364--1010419	27	2.1	27	83	6	69	3	17	3	75	1.10
1010349--1010438	22	4.3	21	74	14	87	3	15	5	75	1.12
1010614--1010638	2	12.5	2	100	0	50	52	0	0	48	1.00
1015503--1015532	13	2.3	13	100	0	60	36	20	20	23	1.95
1016597--1016824	124	1.8	123	92	2	386	41	21	7	28	1.81
1016791--1016857	33	2.0	33	97	0	125	44	20	0	34	1.52
1017855--1017895	9	4.1	10	84	15	50	65	0	0	34	0.93
1017854--1017906	12	4.5	11	81	13	61	62	0	1	35	1.06
1024664--1024771	39	2.8	38	85	13	148	48	0	17	34	1.48
1025360--1025433	10	7.6	10	68	22	50	58	20	10	10	1.62
1025366--1025435	32	2.2	32	89	0	104	57	20	11	11	1.64
1025364--1025428	16	4.1	16	85	0	94	56	21	12	9	1.63
1025788--1025846	24	2.5	24	94	5	102	59	22	10	8	1.56
1025801--1025853	14	4.1	14	76	18	69	52	26	13	7	1.66
1029902--1029944	18	2.4	18	88	0	59	58	0	37	4	1.19
1032577--1032666	32	2.8	32	78	8	103	32	18	16	32	1.94
1035405--1035441	2	19.0	2	94	5	67	48	0	0	51	1.00
1036748--1036854	30	3.5	31	78	7	119	33	17	18	29	1.94
1036744--1036853	32	3.5	32	78	11	113	32	19	19	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1043955--1043993	20	2.0	20	84	0	51	23	7	23	46	1.78
1044195--1044233	19	2.0	20	90	5	62	20	25	33	20	1.97
1049987--1050040	21	2.6	21	96	0	99	14	24	44	16	1.85
1052141--1052199	28	2.1	28	84	9	75	49	1	10	38	1.47
1053593--1053656	25	2.5	24	83	14	76	56	0	4	39	1.20
1053615--1053664	25	2.0	25	84	7	66	58	0	6	36	1.23
1054005--1054080	31	2.5	31	93	0	125	48	14	7	28	1.72
1055002--1055258	86	3.0	86	98	0	496	38	8	18	33	1.82
1057308--1057366	22	2.7	22	86	2	75	54	0	1	44	1.10
1062594--1062764	85	2.0	86	98	1	335	28	17	12	40	1.87
1066026--1066118	30	3.1	30	61	14	73	40	22	18	18	1.91
1066026--1066147	61	2.0	61	100	0	244	39	19	21	19	1.93
1068998--1069069	15	4.7	15	78	11	74	79	8	11	1	1.00
1068998--1069070	31	2.3	32	81	11	89	78	8	12	1	1.03
1069662--1069715	22	2.5	22	93	3	92	38	27	9	24	1.86
1070114--1070150	18	2.0	19	89	5	58	21	5	29	43	1.75
1070617--1071150	106	5.0	105	91	2	752	34	25	17	22	1.95
1071081--1071223	73	2.0	72	87	8	211	33	24	18	23	1.97
1074441--1074469	13	2.2	13	100	0	58	62	0	0	37	0.96
1074733--1075266	111	4.8	111	88	3	772	29	15	24	31	1.95
1075267--1075434	79	2.1	79	82	4	205	28	17	23	29	1.97
1075404--1075497	34	2.8	34	95	0	161	28	18	22	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1084393--1084433	3	13.7	3	90	10	66	65	0	0	34	0.93
1084513--1084543	16	1.9	16	93	0	53	61	0	0	38	0.96
1089048--1089097	26	1.9	26	84	8	66	72	0	4	24	1.02
1089084--1089135	15	3.5	15	73	17	54	71	0	5	23	1.07
1089175--1089217	18	2.4	18	88	0	59	69	0	9	20	1.15
1089804--1089859	28	2.0	28	86	3	78	50	21	5	23	1.69
1091108--1091154	17	2.7	18	83	6	69	53	6	0	40	1.27
1101863--1101922	21	2.9	21	72	5	59	70	1	5	23	1.16
1101879--1101965	35	2.4	36	83	9	99	70	1	5	22	1.16
1102002--1102039	18	2.1	18	90	0	58	65	0	7	26	1.19

Tables:   1   2   3   4   5   6   7   8   9   10