genome.fa.s8128.2.7.7.80.10.50.1000.4.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: VEPZ01008128.1 Hibiscus syriacus cultivar Beakdansim tig00110683_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4987688

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  4  of  20  ( 2387 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)
851923--852073	43	3.5	43	77	7	144	27	15	23	33	1.95
852507--852567	21	2.9	21	75	0	59	1	31	18	49	1.57
861542--861621	40	2.0	40	87	0	115	31	17	17	33	1.93
861602--861680	41	1.9	41	89	0	122	32	22	20	24	1.97
862964--863009	22	2.1	22	87	0	65	39	13	4	43	1.63
863519--863741	83	2.7	83	76	8	204	32	21	15	30	1.94
863436--863735	165	1.8	164	80	7	365	32	21	15	31	1.94
865467--865495	14	2.1	14	100	0	58	13	13	17	55	1.70
874363--874419	27	2.1	27	96	0	105	24	15	10	49	1.76
875109--875150	20	2.1	20	90	0	66	28	26	14	30	1.95
875868--875948	41	2.0	39	81	13	94	45	2	0	51	1.14
876180--876219	3	14.0	3	89	10	66	32	0	0	67	0.91
876180--876219	14	2.9	14	96	0	71	32	0	0	67	0.91
876180--876219	17	2.4	17	95	0	71	32	0	0	67	0.91
876180--876219	11	3.5	12	90	10	66	32	0	0	67	0.91
879808--879864	18	3.0	18	80	14	78	28	12	10	49	1.73
879808--879864	21	3.0	20	82	12	75	28	12	10	49	1.73
880507--880541	3	11.7	3	87	0	52	68	31	0	0	0.90
881185--881237	18	3.0	18	81	13	65	39	0	5	54	1.24
881280--881317	21	2.0	20	85	15	53	34	2	5	57	1.35
882261--882352	46	1.9	50	84	8	129	38	10	20	30	1.87
887956--887993	20	2.0	20	84	5	51	36	13	5	44	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
888856--888889	17	1.9	18	88	5	52	44	0	0	55	0.99
889350--889384	3	11.7	3	87	0	52	68	31	0	0	0.90
889583--889620	21	2.0	20	85	15	53	34	2	5	57	1.35
890301--890361	21	3.0	21	90	4	97	29	14	26	29	1.95
890301--890360	20	3.0	20	92	2	93	30	13	26	30	1.94
903549--903596	24	2.0	24	91	0	78	22	31	22	22	1.99
903533--903619	22	3.9	22	80	5	93	22	31	25	20	1.98
905176--905231	18	3.1	18	80	14	62	46	19	30	3	1.67
911753--911793	2	20.5	2	100	0	82	51	0	0	48	1.00
912837--912882	21	2.2	21	84	0	56	4	23	0	71	1.03
913697--913729	10	3.4	10	87	4	50	63	3	0	33	1.10
913697--913742	23	2.0	23	82	0	56	63	6	2	28	1.31
915567--915656	29	2.9	30	69	19	85	41	5	5	47	1.50
915571--915611	21	1.9	22	85	5	57	43	2	4	48	1.37
915494--915656	63	2.5	63	81	13	188	42	7	4	44	1.55
916509--916544	15	2.4	15	95	0	63	25	22	25	27	2.00
919171--919211	21	1.9	22	85	5	57	43	2	4	48	1.37
921553--921858	43	7.1	43	82	5	334	33	16	26	24	1.96
921553--921858	86	3.6	85	87	1	389	33	16	26	24	1.96
924624--924754	41	3.2	41	71	9	113	33	16	18	31	1.93
924899--925282	43	8.9	43	79	9	340	24	18	5	50	1.69
924912--925282	171	2.2	172	82	9	443	25	18	6	50	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
932516--932651	62	2.2	62	95	0	245	36	4	41	17	1.70
936426--936644	30	7.3	30	94	1	377	31	22	21	24	1.98
936423--936644	89	2.5	90	95	0	401	31	22	21	24	1.98
936618--936711	31	3.1	30	75	4	89	30	23	18	27	1.97
941015--941256	30	8.1	30	96	0	448	33	23	20	23	1.97
943343--943379	19	2.0	19	89	5	58	29	13	24	32	1.93
949187--949263	25	3.1	25	83	7	95	32	2	3	61	1.28
955928--956029	11	9.5	10	72	20	73	81	2	11	3	0.94
955928--956038	21	5.0	21	76	11	89	81	2	11	4	0.95
955915--956017	31	3.3	32	80	15	117	79	2	11	5	1.01
958016--958204	55	3.5	55	77	9	219	30	10	15	43	1.79
958205--958398	52	3.7	52	83	3	208	39	7	14	38	1.76
958637--958804	85	2.0	85	89	2	257	24	23	17	33	1.96
958866--958972	42	2.6	42	82	4	128	27	19	22	30	1.98
960802--960873	25	2.9	24	83	4	81	29	4	8	58	1.46
960838--960887	23	2.0	26	85	11	70	36	6	4	54	1.44
961493--962027	271	2.0	271	94	0	944	34	8	12	44	1.74
973723--973786	22	2.7	23	81	11	85	43	4	0	51	1.22
973749--973781	17	1.9	17	88	11	50	45	3	0	51	1.16
974496--974602	31	3.4	31	87	3	135	50	9	9	30	1.66
975407--975434	5	5.6	5	100	0	56	64	17	0	17	1.30
976479--976538	31	1.9	31	89	0	93	40	10	18	31	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
977229--977287	18	3.3	18	95	0	109	18	5	27	49	1.68
979339--979390	19	2.7	19	85	5	61	50	5	13	30	1.65
979359--979400	19	2.3	19	95	4	77	47	0	16	35	1.47
979542--979606	18	3.4	18	72	12	67	29	6	16	47	1.71
979544--979626	39	2.1	39	97	0	157	26	6	18	49	1.70
989117--989144	14	2.0	14	100	0	56	28	21	21	28	1.99
991834--991882	19	2.6	19	100	0	98	22	24	30	22	1.99
995644--995701	25	2.3	26	85	8	75	55	1	22	20	1.53
995644--995701	13	4.5	13	76	4	64	55	1	22	20	1.53
999512--999570	23	2.3	28	72	27	83	33	16	13	35	1.88
999520--999572	23	2.3	23	100	0	106	39	16	13	30	1.87
1003824--1003857	14	2.4	14	90	9	52	55	0	0	44	0.99
1003824--1003870	24	2.0	24	84	16	62	53	4	0	42	1.20
1021050--1021117	20	3.3	20	68	8	64	26	19	30	23	1.98
1021028--1021097	22	3.3	22	66	8	63	30	17	31	21	1.96
1021027--1021125	42	2.4	42	98	0	189	30	18	29	22	1.97
1030862--1030948	30	3.0	31	77	15	87	43	8	13	34	1.74
1033094--1033251	45	3.4	45	91	2	244	39	8	20	31	1.82
1033094--1033260	92	1.8	91	89	6	266	40	7	20	31	1.81
1034714--1034753	21	2.0	21	85	9	57	35	7	17	40	1.78
1035369--1035566	106	1.9	106	84	6	267	35	8	14	41	1.76
1037649--1037694	22	2.2	21	88	7	67	36	10	21	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1041599--1042057	224	2.0	225	82	2	555	42	12	12	32	1.80
1041930--1042203	106	2.5	108	79	4	302	39	12	11	36	1.79
1042681--1042754	23	3.2	23	74	0	67	35	12	13	39	1.82
1042729--1042870	76	1.9	76	92	1	241	33	17	9	38	1.83
1042729--1042892	76	2.2	75	86	3	231	35	15	10	37	1.83
1042880--1042951	23	3.1	23	89	0	108	33	11	15	40	1.82
1042634--1043091	197	2.3	196	87	2	652	34	15	11	38	1.83
1042804--1043026	121	1.8	122	87	0	331	32	15	13	38	1.87
1042926--1043088	75	2.2	75	87	0	236	34	15	11	38	1.84
1043337--1043401	28	2.3	28	94	0	112	27	32	18	21	1.97
1043451--1043562	45	2.5	45	84	7	138	28	17	23	30	1.97
1049190--1049292	23	4.7	23	74	16	85	28	25	21	25	1.99
1051955--1052162	65	3.2	62	80	11	197	31	23	18	26	1.97
1052896--1053077	75	2.4	75	80	3	222	33	15	9	40	1.81
1053559--1053602	20	2.2	20	100	0	88	27	15	13	43	1.85
1066334--1066383	3	15.0	3	91	8	55	38	0	0	62	0.96
1066932--1066956	8	3.1	8	100	0	50	60	0	40	0	0.97
1070833--1070914	43	1.9	43	92	2	139	34	9	20	35	1.86
1072698--1072801	52	2.0	52	100	0	208	44	25	13	17	1.85
1075131--1075391	54	4.9	54	79	7	280	39	13	21	26	1.90
1075143--1075391	107	2.3	108	83	3	306	38	13	20	26	1.90
1076702--1076787	42	2.0	42	86	0	118	27	20	20	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1076920--1077005	42	2.0	42	86	0	118	25	19	22	32	1.97
1076487--1077356	218	4.0	217	90	2	1269	31	17	19	30	1.95
1077533--1077581	3	16.0	3	78	4	53	32	2	2	63	1.17
1077540--1077592	25	2.2	25	83	6	65	41	1	1	54	1.22
1082491--1082578	41	2.1	41	85	2	113	39	14	17	28	1.89
1083487--1083526	15	2.7	15	84	0	62	17	7	32	42	1.77
1084000--1084056	24	2.5	24	80	5	64	40	3	3	52	1.35
1091476--1091508	15	2.2	15	94	0	57	24	21	27	27	1.99
1094152--1094410	137	1.9	138	87	4	380	42	17	10	28	1.83
1094907--1094978	20	3.5	20	90	3	99	22	22	16	38	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20