genome.fa.s9350.2.7.7.80.10.50.1000.4.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: VEPZ01009350.1 Hibiscus syriacus cultivar Beakdansim tig00113145_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2139524

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 1079 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)
871729--871794	27	2.4	27	80	5	71	74	6	16	3	1.15
871739--871789	14	3.6	14	84	10	59	76	5	15	1	1.07
872926--873008	36	2.3	36	87	4	114	33	16	13	36	1.88
873379--873709	131	2.5	132	81	8	354	25	32	18	24	1.97
874630--874689	32	2.0	31	80	9	70	43	3	0	53	1.17
883763--883854	8	12.4	8	81	16	69	79	0	11	8	0.94
883779--883943	30	5.3	30	76	14	138	77	0	15	7	0.97
883763--883931	7	24.1	7	74	20	74	77	0	15	7	0.97
883763--883928	6	26.8	6	76	16	103	77	0	15	7	0.97
883878--883923	25	1.9	24	86	8	67	76	0	21	2	0.90
883872--883934	29	2.3	27	83	10	74	77	0	20	1	0.85
885171--885615	135	3.3	134	84	2	511	32	21	14	30	1.94
885171--885636	133	3.5	133	83	2	538	32	21	14	31	1.94
885849--885910	3	20.7	3	87	9	83	29	0	0	70	0.87
887214--887567	132	2.7	130	81	5	412	33	11	16	38	1.84
888165--888218	27	2.0	27	96	0	99	35	11	33	20	1.88
892408--892605	101	1.9	103	82	9	244	44	17	13	24	1.85
896327--896467	71	2.0	68	89	6	212	28	6	4	60	1.42
896694--897110	181	2.3	182	85	2	545	43	12	15	28	1.84
899328--899393	21	3.1	21	88	0	96	42	9	30	18	1.81
899426--899491	33	2.0	33	87	0	96	27	1	48	22	1.59
901278--901327	19	2.6	19	96	0	91	34	2	10	54	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
901560--902323	200	3.8	200	94	0	1332	36	15	18	30	1.91
903793--903856	6	10.7	6	86	0	65	39	6	32	21	1.79
903810--903857	3	16.0	3	82	0	60	37	4	33	25	1.75
903793--903856	12	5.3	12	90	0	83	39	6	32	21	1.79
905067--905472	183	2.2	182	93	2	697	34	14	16	33	1.89
905346--905592	120	2.1	120	92	0	413	32	13	15	38	1.87
905167--906059	302	3.0	303	96	0	1626	34	14	16	35	1.88
905648--905894	120	2.1	120	92	0	413	32	13	15	38	1.87
908820--908892	23	3.2	23	88	0	110	34	6	21	36	1.81
909298--909370	23	3.2	23	92	0	119	34	5	21	38	1.77
908608--910249	478	3.4	478	95	1	2885	42	7	10	39	1.68
909781--909848	23	3.0	23	93	0	118	33	5	22	38	1.78
910323--910370	23	2.1	23	92	0	78	35	16	10	37	1.83
910681--910731	27	1.9	26	84	11	68	25	3	13	56	1.54
910786--910817	17	2.0	17	88	11	50	46	0	0	53	1.00
917821--917846	5	5.2	5	100	0	52	19	0	0	80	0.71
919870--919916	23	2.0	23	91	0	76	38	8	27	25	1.85
922845--922896	21	2.5	21	81	3	61	23	19	11	46	1.82
923493--923574	43	1.9	42	82	2	101	26	26	20	25	1.99
923574--923630	28	2.0	28	82	0	78	26	24	14	35	1.93
923621--923679	29	2.0	30	83	9	77	13	20	23	42	1.88
935208--935247	21	1.9	21	89	0	62	10	25	40	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
935230--935277	23	2.2	23	92	7	82	20	22	37	18	1.94
935230--935289	23	2.9	21	85	9	61	20	25	31	23	1.98
948062--948188	34	3.8	34	75	15	138	44	10	14	30	1.79
948448--948516	23	3.2	22	74	20	58	18	5	4	71	1.24
948470--948524	25	2.3	24	81	12	60	20	5	3	70	1.22
948512--948610	44	2.3	43	76	13	105	28	2	2	67	1.12
948569--948643	32	2.4	32	88	2	116	25	2	0	72	0.98
948592--948705	9	12.4	9	68	14	54	16	5	0	77	1.00
948607--948665	22	2.8	20	72	20	50	20	3	1	74	1.05
948569--948682	31	3.3	35	79	14	96	20	4	0	74	1.04
948629--948703	13	5.8	13	77	12	66	13	5	1	80	0.95
948588--948704	13	8.9	13	68	23	50	17	5	0	76	1.01
951795--951867	11	6.5	11	73	14	60	80	4	13	1	0.92
951795--951857	23	2.7	22	84	15	83	80	4	14	0	0.86
951795--951856	24	2.7	23	85	12	74	80	4	14	0	0.87
952470--952513	22	2.0	22	90	0	70	38	20	6	34	1.79
953421--953564	36	4.0	36	89	0	234	27	20	13	39	1.89
953422--953701	72	4.0	71	74	10	288	27	19	13	40	1.88
953477--953664	101	1.9	102	87	2	281	28	18	12	40	1.86
953578--953700	36	3.4	36	83	7	151	25	20	13	40	1.89
953441--953749	137	2.3	137	85	4	426	28	19	11	40	1.87
953659--953816	67	2.4	67	84	5	187	32	22	8	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
954437--955095	105	6.3	105	91	2	963	33	26	18	22	1.96
955645--955771	34	3.8	34	75	15	138	44	10	14	30	1.79
956044--956087	22	2.0	22	82	13	54	20	6	2	70	1.21
956053--956117	33	2.0	33	82	8	80	23	3	3	70	1.15
956079--956207	40	3.3	37	74	13	116	29	1	1	67	1.09
956079--956220	37	3.6	38	73	19	121	28	2	1	67	1.10
956165--956276	9	12.4	9	72	9	68	18	4	0	75	1.02
956140--956222	33	2.4	34	80	6	87	26	2	0	71	0.99
956141--956279	40	3.8	36	70	16	99	22	4	0	72	1.06
956141--956224	4	20.8	4	74	11	55	26	2	0	71	0.98
956203--956328	46	2.5	49	78	13	125	17	7	2	73	1.17
956291--956352	30	2.1	30	82	11	74	20	6	3	69	1.25
956363--956392	15	2.0	15	100	0	60	20	20	0	60	1.37
959152--959199	24	2.0	24	92	8	80	25	0	12	62	1.30
961015--961883	81	10.7	81	87	1	1152	34	11	22	30	1.90
961033--961885	406	2.1	404	85	3	1169	34	11	22	30	1.90
961980--962014	2	17.5	2	100	0	70	51	0	0	48	1.00
967382--967420	17	2.4	17	87	12	55	2	15	5	76	1.06
968649--968675	6	4.5	6	100	0	54	85	0	0	14	0.61
971178--971216	19	2.1	19	95	0	69	20	38	15	25	1.92
971164--971324	65	2.5	65	84	3	200	31	26	16	26	1.96
977386--977426	21	2.1	20	86	13	59	7	34	17	41	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
978226--978263	20	1.9	20	84	10	51	44	2	7	44	1.47
978495--978533	19	2.1	19	95	0	69	20	38	15	25	1.92
978432--978640	65	3.2	63	79	9	183	30	26	16	26	1.97
980693--980736	23	2.0	22	86	4	61	63	4	15	15	1.46
981202--981589	163	2.4	162	89	3	591	35	11	21	31	1.90
981202--981589	81	4.8	81	90	3	609	35	11	21	31	1.90
981742--981804	2	31.5	2	100	0	126	50	0	0	49	1.00
996063--996114	15	3.5	15	84	10	70	25	30	23	21	1.99
1000461--1000510	15	3.4	15	71	15	50	36	26	14	24	1.93
1004991--1005197	75	2.7	76	85	2	274	23	31	23	20	1.98
1010996--1011035	21	1.9	21	89	0	62	25	40	25	10	1.86
1012950--1012997	17	2.9	17	80	17	57	14	0	27	58	1.37
1013575--1013784	77	2.8	77	89	1	307	24	32	23	20	1.98
1015145--1015189	24	2.0	23	82	8	56	22	8	4	64	1.40
1015357--1015728	43	8.7	43	74	8	233	28	18	6	46	1.74
1015482--1015712	85	2.7	83	79	8	234	27	20	8	43	1.81
1016478--1016519	20	2.1	20	100	0	84	50	9	16	23	1.75
1019296--1019394	29	3.5	28	80	2	90	40	10	11	38	1.74
1025190--1025227	19	2.0	19	90	10	60	50	0	0	50	1.00
1026148--1026188	15	2.7	15	96	0	73	21	19	9	48	1.77
1026888--1027109	52	4.0	60	80	12	201	36	13	22	27	1.91
1026956--1027211	52	5.0	52	80	6	288	37	13	23	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1032894--1033264	52	7.0	52	87	4	481	35	12	25	27	1.91
1032836--1033264	156	2.7	159	85	5	558	35	11	24	27	1.91
1033151--1033264	59	1.9	59	85	0	156	36	10	22	29	1.88
1034901--1035022	23	5.3	23	82	4	131	36	25	22	16	1.94
1042035--1042094	23	2.6	23	78	0	75	33	28	18	20	1.96
1045453--1045556	30	3.4	29	73	12	93	35	12	17	34	1.87
1045458--1045574	62	1.9	62	89	0	180	35	14	17	32	1.91
1045460--1045575	30	3.8	30	73	8	90	36	14	18	31	1.91
1049575--1049626	22	2.3	23	83	12	72	34	19	17	28	1.94
1054434--1054472	15	2.6	16	84	8	55	66	17	0	15	1.25

Tables:   1   2   3   4   5   6   7   8   9