genome.fa.s1838.2.7.7.80.10.50.1000.5.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: VEPZ01001838.1 Hibiscus syriacus cultivar Beakdansim tig00003721_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3924084

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  5  of  18  ( 2134 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)
891794--891886	20	4.5	21	78	4	100	17	24	18	39	1.91
891733--891867	41	3.3	41	82	4	139	19	21	21	37	1.94
891794--891886	41	2.3	41	100	0	186	17	24	18	39	1.91
895674--895714	21	1.9	22	85	14	59	36	14	19	29	1.92
896204--896318	57	2.0	57	100	0	230	34	27	6	30	1.83
901699--901753	26	2.1	26	83	6	67	30	3	7	58	1.43
905807--905868	24	2.6	24	86	0	88	53	22	11	12	1.71
905879--905979	40	2.4	40	80	11	114	38	16	11	32	1.86
906373--906438	28	2.3	28	76	7	71	30	6	1	62	1.29
913791--913840	3	16.7	3	76	15	50	64	0	2	34	1.05
913984--914845	134	6.5	133	83	6	982	30	14	22	32	1.94
914007--914845	268	3.2	267	85	4	1081	30	14	22	32	1.94
915403--915453	3	16.7	3	80	11	59	64	0	1	33	1.05
916217--916274	24	2.4	25	80	13	68	67	1	0	31	1.01
916307--916354	11	4.5	11	84	5	62	45	0	2	52	1.12
917167--917243	37	2.1	37	85	4	102	48	1	3	46	1.28
917913--917947	2	17.5	2	93	0	61	48	0	0	51	1.00
918911--919109	98	2.0	97	89	2	301	28	15	22	34	1.94
921130--921158	2	14.5	2	100	0	58	51	0	0	48	1.00
922348--922399	3	17.3	3	88	7	79	63	1	0	34	1.06
922623--923228	114	5.3	113	81	8	582	29	16	25	29	1.97
924372--924435	10	5.8	12	75	14	50	1	23	0	75	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
924407--924432	9	2.9	9	100	0	52	0	19	0	80	0.71
928779--928899	64	1.9	64	84	6	165	37	16	18	28	1.92
929360--929574	103	2.1	103	98	0	412	25	13	25	35	1.93
929593--929655	23	2.7	22	78	4	63	23	25	23	26	2.00
935691--935849	65	2.5	63	80	8	160	34	17	20	27	1.95
935734--935861	64	2.0	67	87	7	192	33	19	19	27	1.96
936298--936519	103	2.2	99	92	4	374	25	13	24	36	1.93
936526--936590	23	2.8	23	81	9	71	23	23	24	29	1.99
949846--949880	18	1.9	18	88	0	52	22	20	31	25	1.98
953552--953577	2	13.0	2	100	0	52	50	0	0	50	1.00
953652--953728	34	2.4	32	81	16	88	20	5	0	74	1.01
953702--953765	23	2.8	23	80	2	76	15	7	1	75	1.11
953766--953829	26	2.4	27	77	12	78	18	10	1	68	1.27
956875--956942	14	5.2	13	75	15	61	77	2	16	2	1.00
956864--956930	19	3.5	19	71	17	57	76	4	17	1	1.04
958646--958731	36	2.4	35	79	15	86	29	20	12	37	1.90
958670--958749	36	2.2	37	90	2	126	32	18	12	36	1.89
958764--958922	37	4.4	36	81	3	194	25	19	13	42	1.87
958764--958922	73	2.2	73	85	1	212	25	19	13	42	1.87
959627--959735	37	3.0	37	87	1	157	40	12	13	33	1.83
960301--960403	43	2.5	43	80	16	110	28	1	2	66	1.16
960338--960474	4	33.0	4	70	17	57	23	3	0	72	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
960366--960491	34	3.8	34	77	9	109	23	4	0	72	1.04
960349--960476	9	14.2	9	69	21	65	21	3	0	73	1.04
960907--960943	2	18.5	2	100	0	74	51	0	0	48	1.00
961594--961628	6	5.5	6	87	12	52	14	2	2	80	0.95
962127--962169	3	14.3	3	85	9	61	65	0	0	34	0.93
963111--963172	26	2.3	28	78	15	69	29	0	6	64	1.18
965321--965356	18	1.9	19	94	5	65	22	0	8	69	1.15
970421--970533	21	5.4	21	82	9	115	40	18	23	16	1.91
973128--973167	17	2.4	17	91	8	64	77	0	22	0	0.77
973128--973165	12	3.1	12	85	14	51	76	0	23	0	0.79
974449--974759	127	2.4	127	87	4	421	35	16	27	21	1.95
975490--975679	36	5.2	36	87	1	238	36	23	18	21	1.95
976061--976619	51	10.8	51	83	2	614	32	19	25	22	1.97
976060--976583	155	3.4	154	90	1	764	32	18	25	22	1.97
976617--977100	53	9.0	52	87	5	587	30	13	28	27	1.94
976621--977100	161	3.0	160	88	2	703	30	13	28	27	1.94
976621--977108	216	2.3	213	90	3	764	30	13	28	27	1.94
980834--981237	158	2.6	158	81	6	467	34	20	15	29	1.93
981316--981379	24	2.6	25	75	20	64	31	23	3	42	1.70
981919--982170	102	2.5	102	81	1	272	29	23	16	29	1.96
984466--984523	20	3.0	19	77	5	62	51	25	1	20	1.57
985037--985082	23	2.0	23	95	4	85	52	0	13	34	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
985722--985799	3	26.3	3	97	2	149	34	0	0	65	0.93
1000165--1000206	19	2.2	19	91	0	66	42	11	7	38	1.69
1003486--1003591	54	2.0	54	90	0	167	33	8	11	46	1.70
1003681--1003744	21	2.9	22	79	6	76	18	12	7	60	1.55
1005875--1005904	16	1.9	16	93	6	53	50	0	6	43	1.28
1005870--1005906	16	2.3	17	81	13	51	43	0	8	48	1.32
1006340--1006380	12	3.1	14	80	20	61	43	0	0	56	0.99
1007735--1007779	23	2.0	22	86	4	63	40	0	4	55	1.20
1013169--1013249	42	1.9	43	85	7	112	34	17	23	24	1.96
1014582--1014660	20	4.0	20	89	0	95	25	17	22	34	1.96
1014587--1014673	20	4.4	19	85	5	93	24	16	24	35	1.94
1014587--1014673	40	2.2	40	81	4	104	24	16	24	35	1.94
1014874--1015043	88	1.9	88	87	0	250	38	13	22	25	1.91
1015471--1015519	10	5.3	10	85	14	70	46	0	0	53	1.00
1017051--1017095	23	2.0	22	86	4	63	40	0	4	55	1.20
1018220--1018249	14	2.1	14	93	0	51	46	13	0	40	1.43
1018856--1018882	2	13.5	2	100	0	54	51	0	0	48	1.00
1019353--1019407	21	2.7	21	79	17	62	54	3	0	41	1.18
1019783--1019821	20	1.9	19	85	10	51	38	2	0	58	1.12
1033785--1033865	21	3.8	21	78	12	85	24	33	22	19	1.97
1037684--1037715	15	2.1	15	100	0	64	40	6	18	34	1.76
1042868--1042907	12	2.9	15	75	21	50	7	50	2	40	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1043953--1043998	13	3.5	13	82	5	65	28	4	6	60	1.40
1047618--1047714	47	2.1	47	92	0	158	53	13	6	26	1.63
1047949--1047982	17	2.1	16	88	5	50	61	0	0	38	0.96
1048564--1048642	39	2.0	39	85	0	104	32	24	16	26	1.96
1048996--1049088	34	2.7	34	89	0	132	20	15	20	44	1.87
1050989--1051023	12	2.8	13	91	8	56	48	0	40	11	1.39
1050981--1051055	21	3.5	22	76	8	66	46	6	41	5	1.53
1051022--1051058	12	3.1	12	92	0	56	45	10	43	0	1.39
1052906--1052974	33	2.1	33	83	5	86	31	1	36	30	1.67
1057389--1057457	33	2.1	33	83	5	86	31	1	36	30	1.67
1066307--1066359	27	2.0	27	88	7	81	66	0	5	28	1.15
1066777--1066820	21	2.1	21	91	0	70	22	25	22	29	1.99
1067141--1067216	35	2.2	35	90	4	118	39	23	2	34	1.69
1067613--1067860	130	1.9	130	92	0	415	35	14	12	36	1.85
1067627--1067891	130	2.0	129	81	4	309	39	13	13	34	1.83
1068190--1068252	28	2.3	27	78	8	63	46	1	3	49	1.27
1068333--1068366	16	2.0	18	88	11	54	64	5	2	26	1.30
1070699--1071147	111	3.9	113	86	5	582	26	16	23	33	1.96
1070698--1071144	225	1.9	229	86	6	636	26	16	23	33	1.96
1071168--1071363	65	3.0	65	93	0	340	29	11	22	36	1.90
1071633--1071753	32	3.8	32	83	4	129	33	23	13	29	1.92
1073023--1073057	2	17.5	2	87	0	52	51	5	0	42	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1074890--1074941	21	2.5	21	83	0	68	19	21	17	42	1.89
1075471--1075521	20	2.5	20	90	0	75	50	21	13	13	1.76
1075554--1075720	33	4.8	33	84	10	226	10	23	19	45	1.82
1075571--1075659	14	5.6	14	69	23	61	10	24	21	43	1.83
1075554--1075726	20	9.8	18	72	20	118	10	23	19	46	1.81
1077415--1077788	94	4.1	93	93	2	587	21	12	18	46	1.82
1077881--1077942	20	3.2	20	86	4	99	50	17	22	9	1.75
1077940--1077995	20	2.8	20	91	0	94	50	28	14	7	1.69
1078001--1078146	19	7.8	19	76	10	149	10	21	20	46	1.81
1078001--1078146	39	3.9	38	82	7	151	10	21	20	46	1.81

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18