genome.fa.s1111.2.7.7.80.10.50.1000.4.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: VEPZ01001111.1 Hibiscus syriacus cultivar Beakdansim tig00002193_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3891333

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

This is table  4  of  17  ( 1987 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)
880157--880408	68	3.7	68	89	2	373	31	22	14	31	1.94
880640--880777	55	2.5	55	88	3	188	31	19	14	34	1.92
887198--887240	20	2.2	20	87	4	61	34	9	6	48	1.62
892707--892750	17	2.6	17	88	0	70	38	0	15	45	1.47
899107--899157	24	2.0	26	88	7	79	54	3	5	35	1.43
900268--900353	42	2.1	42	93	2	147	37	11	22	29	1.89
900968--901072	23	4.3	24	67	17	74	39	6	5	48	1.53
902170--902222	22	2.4	23	78	15	67	18	22	0	58	1.39
902470--902526	30	1.9	30	86	10	82	70	5	14	10	1.32
902637--902674	16	2.4	16	86	8	51	13	18	0	68	1.21
907314--907353	18	2.2	18	86	8	55	2	15	2	80	0.93
910593--910644	21	2.6	21	90	6	81	44	5	15	34	1.70
911532--911591	30	2.0	31	86	3	86	53	10	8	28	1.63
913329--913362	14	2.4	14	90	0	50	8	8	20	61	1.52
913892--913971	18	4.6	17	70	25	53	5	15	5	75	1.15
913911--913962	27	1.9	27	88	0	77	3	15	3	76	1.07
913907--913969	27	2.3	27	73	13	65	3	15	3	77	1.02
914678--914726	19	2.4	21	86	6	66	46	6	14	32	1.69
915614--915673	30	2.0	31	86	3	86	53	10	8	28	1.63
926681--926711	14	2.1	15	94	5	55	22	0	25	51	1.48
928687--928723	1	37.0	1	94	0	65	97	2	0	0	0.18
929760--929805	20	2.2	21	84	3	58	50	15	4	30	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
935481--935542	10	6.4	10	82	15	69	1	12	9	75	1.11
935488--935527	11	3.6	11	93	6	64	2	15	7	75	1.14
935508--935566	16	3.6	16	82	17	68	1	5	8	84	0.82
935519--935565	11	4.1	11	86	10	67	2	2	6	89	0.63
935512--935563	24	2.2	24	82	0	59	1	5	7	84	0.84
935488--935565	10	7.5	10	78	13	52	1	8	7	82	0.91
935488--935566	21	4.5	17	81	10	72	1	8	8	81	0.95
935519--935565	24	2.0	24	91	4	78	2	2	6	89	0.63
942177--942224	10	4.8	10	82	10	62	0	2	10	87	0.62
942170--942224	21	2.8	20	86	13	78	0	3	12	83	0.77
942575--942611	15	2.4	16	90	4	58	70	5	10	13	1.32
943078--943114	15	2.4	16	90	4	58	70	5	10	13	1.32
943999--944051	11	4.7	11	77	13	63	84	7	7	0	0.76
944011--944058	11	4.4	11	86	0	60	79	10	10	0	0.95
946649--946684	9	4.0	9	100	0	72	22	11	11	55	1.66
948135--948171	15	2.4	16	90	4	58	13	10	5	70	1.32
949701--949752	17	3.1	17	86	2	70	38	15	5	40	1.71
953526--953639	35	3.3	35	94	0	201	21	14	12	51	1.74
953745--953819	17	4.4	17	88	5	98	37	13	9	40	1.77
955792--955830	16	2.6	14	81	14	51	41	17	2	38	1.64
958583--958638	25	2.2	25	100	0	112	44	30	10	14	1.79
963136--963315	96	1.9	96	84	2	245	42	18	11	28	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
964019--964315	147	2.0	147	98	0	576	33	14	13	38	1.85
966196--966251	27	2.1	27	89	0	85	35	10	14	39	1.81
968679--968727	12	4.3	12	75	15	59	51	6	16	26	1.68
968685--968725	21	1.9	22	95	5	75	43	4	19	31	1.72
969301--969712	81	5.1	81	85	1	511	34	11	20	32	1.89
972570--972611	18	2.3	18	91	0	66	30	2	11	54	1.49
974884--975064	96	1.9	96	83	8	237	40	14	21	23	1.90
976863--976928	24	2.8	24	81	2	71	24	18	22	34	1.96
979203--979263	9	7.0	8	80	15	68	80	13	6	0	0.90
979203--979279	17	4.3	17	88	6	91	76	15	7	0	1.00
979203--979279	36	2.1	35	86	9	102	76	15	7	0	1.00
979214--979279	9	7.4	9	81	10	64	75	15	9	0	1.03
988284--988330	20	2.4	19	86	10	60	21	31	36	10	1.88
988293--988330	20	1.9	20	94	0	67	23	34	31	10	1.89
988308--988389	35	2.4	35	85	4	114	23	31	25	19	1.98
988504--988545	21	2.0	21	95	0	75	23	21	28	26	1.99
988813--988882	34	2.1	32	86	5	95	32	14	31	21	1.93
991848--991905	20	2.9	20	84	5	73	20	31	29	18	1.97
991875--991958	34	2.4	35	81	13	111	19	33	23	23	1.97
992069--992110	21	2.0	21	95	0	75	23	21	28	26	1.99
992394--992463	34	2.1	32	86	5	95	32	14	31	21	1.93
995431--995490	20	3.0	20	87	4	86	20	35	28	16	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
995456--995540	34	2.5	35	94	1	145	20	35	24	20	1.96
995483--995539	15	3.5	15	72	25	53	19	36	22	21	1.95
995577--995618	21	2.0	22	90	4	68	21	33	23	21	1.97
997349--997507	65	2.5	65	88	7	227	28	16	22	32	1.96
997348--997549	65	3.1	63	79	12	214	26	16	23	32	1.96
1005822--1006029	65	3.2	65	83	9	239	25	19	24	30	1.98
1007393--1007879	60	8.1	60	85	1	627	36	12	21	28	1.91
1009943--1010022	21	3.8	21	77	0	79	26	15	18	40	1.90
1009989--1010094	21	5.0	21	74	8	79	26	12	23	37	1.90
1016271--1016326	20	2.9	19	81	7	60	30	16	28	25	1.96
1017151--1017213	21	3.0	21	90	0	90	23	11	28	36	1.89
1018698--1018770	24	3.1	24	82	4	85	21	21	23	32	1.98
1019647--1019698	26	2.0	27	84	3	70	19	3	21	55	1.58
1020575--1021553	83	11.8	83	83	1	1145	30	20	16	33	1.94
1020575--1021553	249	3.9	249	87	0	1287	30	20	16	33	1.94
1026283--1026823	47	11.1	47	73	14	368	46	12	20	21	1.82
1026412--1026638	74	3.2	71	81	9	257	45	13	20	20	1.84
1026457--1026524	27	2.5	27	92	0	109	47	13	20	19	1.82
1026511--1026562	20	2.6	20	100	0	104	40	9	30	19	1.83
1026484--1026611	67	1.9	67	88	0	193	44	12	22	20	1.85
1026343--1026724	188	2.1	179	83	5	460	45	12	21	20	1.84
1026485--1026771	113	2.5	114	87	1	414	44	13	21	20	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1027389--1027414	2	13.0	2	100	0	52	50	0	0	50	1.00
1031116--1031173	22	2.6	22	97	0	107	31	13	22	32	1.93
1031098--1031204	22	5.3	19	83	6	79	26	14	29	29	1.95
1031161--1031211	19	2.7	19	93	0	84	25	13	29	31	1.94
1031670--1031723	20	2.7	20	100	0	108	42	11	31	14	1.81
1031639--1031768	67	1.9	67	90	0	206	44	10	23	20	1.83
1031691--1031869	47	3.8	47	84	2	225	44	12	20	21	1.85
1032221--1032389	81	2.1	81	85	2	232	36	11	21	30	1.89
1034686--1034737	25	2.1	25	100	0	104	42	23	3	30	1.72
1037179--1037552	27	15.3	27	65	23	175	45	10	22	20	1.82
1037146--1037371	74	3.0	74	87	5	328	47	11	21	19	1.80
1037309--1037483	20	7.8	20	70	24	109	44	10	25	20	1.83
1037282--1037684	47	8.5	47	87	2	529	45	11	22	20	1.82
1037146--1037684	94	5.6	94	79	9	545	46	11	21	20	1.81
1037146--1037684	141	3.7	141	81	8	538	46	11	21	20	1.81
1038017--1038181	81	2.0	81	89	0	249	35	11	23	30	1.90
1039050--1039396	45	7.7	45	88	0	487	29	20	8	41	1.83
1039433--1039668	81	2.9	81	91	2	384	30	22	11	34	1.90
1039602--1040073	67	7.0	67	87	0	647	30	24	14	30	1.94
1046526--1046618	32	2.9	32	80	0	96	25	29	25	19	1.99
1047557--1047734	85	2.1	84	88	5	261	29	21	17	30	1.96
1054287--1054328	6	7.0	6	100	0	84	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1055698--1055834	3	45.7	3	88	2	204	35	0	0	64	0.94
1058720--1058810	29	3.2	29	68	20	82	51	7	14	26	1.69
1058632--1058872	57	4.3	56	82	2	254	48	6	17	27	1.72
1058630--1058866	55	4.2	56	81	5	230	49	6	16	27	1.70
1059872--1060240	199	1.8	197	80	9	435	33	9	21	35	1.85
1059831--1060288	201	2.3	195	76	10	444	34	8	20	36	1.84
1064182--1064260	19	4.1	18	72	22	63	63	8	0	27	1.24
1064245--1064274	14	2.1	14	93	0	51	56	6	0	36	1.26
1064229--1064295	32	2.0	34	85	8	93	59	8	0	31	1.28
1064812--1064848	2	18.5	2	100	0	74	51	0	0	48	1.00

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