genome.fa.s8374.2.7.7.80.10.50.1000.6.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: VEPZ01008374.1 Hibiscus syriacus cultivar Beakdansim tig00111131_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1731758

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

This is table  6  of  10  ( 1105 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)
912732--912760	13	2.2	13	100	0	58	58	0	0	41	0.98
917493--917802	155	2.0	155	100	0	620	24	23	29	23	1.99
917882--917934	26	2.0	26	100	0	106	26	7	7	58	1.52
918007--918045	20	2.0	20	89	0	60	28	23	20	28	1.99
918078--918156	20	3.9	20	80	8	79	35	24	7	32	1.83
918069--918135	20	3.3	20	80	15	75	32	25	7	34	1.84
918153--918187	18	1.9	18	94	0	61	31	17	8	42	1.79
918955--918988	12	2.8	12	90	0	50	55	26	0	17	1.42
919114--919167	24	2.2	24	90	0	81	22	18	18	40	1.91
923138--923210	21	3.6	21	81	5	71	28	19	27	24	1.98
923560--923603	21	2.1	21	83	8	54	31	38	11	18	1.86
923617--923666	21	2.4	21	79	0	55	34	38	10	18	1.84
925263--925306	20	2.2	20	91	0	70	54	11	18	15	1.70
925313--925364	20	2.5	21	93	3	88	9	19	23	48	1.78
925700--925761	22	3.0	21	75	9	65	20	16	43	19	1.88
927729--927765	7	5.4	7	93	6	67	24	29	29	16	1.96
927729--927765	13	2.7	14	91	8	67	24	29	29	16	1.96
927784--927851	19	3.5	19	87	2	91	29	30	23	16	1.96
927784--927851	9	7.1	9	73	12	55	29	30	23	16	1.96
934996--935031	13	2.6	14	91	8	65	25	30	27	16	1.97
935021--935078	17	3.4	17	97	0	107	15	24	43	17	1.87
934996--935031	7	5.3	7	93	6	65	25	30	27	16	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
935072--935139	19	3.5	19	83	2	82	27	29	23	19	1.98
935072--935139	29	2.4	28	73	11	66	27	29	23	19	1.98
938012--938192	51	3.6	51	79	3	222	50	13	9	25	1.72
938385--938411	13	2.1	13	100	0	54	37	0	14	48	1.45
938665--938708	18	2.4	18	96	0	79	29	36	18	15	1.92
938843--938889	21	2.3	21	92	3	78	25	29	19	25	1.98
944482--944506	13	1.9	13	100	0	50	40	8	4	48	1.51
947988--948044	20	2.8	21	89	5	98	14	14	33	38	1.85
948476--948567	21	4.4	21	84	0	103	20	35	19	23	1.95
948476--948570	42	2.3	41	88	1	136	20	37	18	23	1.94
950067--950164	20	4.9	20	89	0	160	38	22	19	19	1.93
951355--951410	24	2.3	24	84	6	78	46	16	5	32	1.69
951777--951826	25	2.0	25	96	0	91	44	22	8	26	1.80
951924--951968	20	2.2	20	92	0	72	46	17	17	17	1.84
954572--954637	24	2.8	24	95	0	123	34	16	24	24	1.95
955569--955643	19	3.8	21	83	13	88	32	9	21	37	1.85
955570--955661	40	2.3	40	85	5	116	33	10	19	35	1.87
958941--959109	84	2.0	84	100	0	338	14	33	15	37	1.87
959906--959983	26	2.9	26	81	7	68	43	2	1	52	1.23
960020--960067	15	3.2	15	74	11	53	50	2	0	47	1.12
960030--960106	39	2.0	39	87	5	111	54	1	2	41	1.22
960069--960134	30	2.2	30	83	5	80	54	4	1	39	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
966022--966074	21	2.5	21	87	0	70	32	30	18	18	1.96
966084--966182	21	4.8	19	71	18	72	18	18	26	37	1.93
966086--966157	21	3.4	21	74	14	76	16	18	30	34	1.93
966070--966182	42	2.7	42	91	2	185	19	18	24	37	1.94
966107--966178	21	3.4	21	76	14	85	19	18	23	38	1.93
966274--966313	6	6.7	6	91	8	64	30	52	17	0	1.45
972163--972243	41	2.0	40	83	7	101	53	1	1	44	1.16
974287--974362	28	2.7	28	97	0	143	50	3	10	35	1.56
974497--974546	26	1.9	26	88	8	75	46	0	0	54	1.00
977731--977793	29	2.1	30	83	13	78	38	9	14	38	1.78
978751--978780	12	2.4	13	88	11	53	13	23	23	40	1.90
978755--978782	12	2.3	12	100	0	56	17	25	21	35	1.95
990909--990947	15	2.6	15	91	0	60	7	33	35	23	1.83
993528--993579	15	3.1	17	71	23	56	51	0	0	48	1.00
993525--993608	38	2.2	38	89	0	132	50	0	0	50	1.00
993527--993606	13	5.8	15	65	23	50	50	0	0	50	1.00
996421--996471	25	2.0	26	88	7	79	41	3	3	50	1.39
1000496--1000556	20	3.0	20	72	15	54	32	13	26	27	1.93
1003189--1003279	27	3.3	28	83	4	105	23	15	15	46	1.83
1003178--1003306	55	2.4	54	77	5	134	18	13	18	48	1.80
1011758--1011876	35	3.3	36	89	5	170	34	5	16	43	1.70
1012273--1012311	16	2.4	16	86	4	51	33	10	20	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1012273--1012306	16	2.1	17	88	5	52	35	8	20	35	1.84
1012653--1012748	3	32.0	3	80	12	90	28	4	3	64	1.27
1012814--1012926	57	2.0	57	100	0	226	23	29	24	23	1.99
1013959--1014014	16	4.0	14	78	17	62	21	5	1	71	1.15
1019216--1019301	24	3.6	24	80	0	91	32	22	19	25	1.97
1019335--1019398	21	3.0	21	80	14	78	20	21	18	39	1.93
1023267--1023315	20	2.3	22	83	13	59	36	30	2	30	1.69
1035139--1035299	21	7.7	21	85	8	213	29	27	20	22	1.98
1035159--1035275	62	1.9	62	89	3	182	31	25	21	21	1.98
1035139--1035351	104	2.0	106	90	7	340	30	25	21	22	1.99
1035496--1035545	6	8.5	6	95	4	93	32	52	16	0	1.44
1036044--1036076	16	2.1	16	88	11	50	0	18	45	36	1.49
1036525--1036564	17	2.3	17	91	4	62	37	0	0	62	0.95
1036525--1036593	18	3.7	18	80	14	77	34	0	1	63	1.03
1036535--1036621	32	2.7	33	77	7	90	37	1	2	58	1.18
1042645--1042710	26	2.4	26	82	7	78	42	6	1	50	1.36
1043997--1044047	27	1.9	26	88	4	75	60	19	11	7	1.55
1045198--1045240	20	2.1	21	95	4	79	23	18	4	53	1.63
1046234--1046288	27	2.0	27	92	0	92	56	3	9	30	1.48
1052374--1052410	16	2.3	16	90	9	58	18	0	16	64	1.29
1053679--1053747	15	4.6	15	94	0	120	39	10	28	21	1.86
1053672--1053747	30	2.5	30	97	2	143	40	9	30	19	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1056270--1056335	32	2.1	32	97	0	123	27	30	25	16	1.97
1060071--1060427	178	2.0	178	97	2	682	30	20	14	34	1.93
1080421--1080464	17	2.7	16	79	6	52	45	2	4	47	1.35
1081431--1081650	112	2.0	113	99	0	433	27	15	23	33	1.95
1085147--1085227	31	2.6	31	90	2	117	11	28	29	30	1.91
1086501--1086571	3	23.0	3	88	2	97	39	0	0	60	0.97
1090115--1090149	17	2.1	17	100	0	70	28	0	42	28	1.56
1091699--1091730	15	2.1	15	94	0	55	25	18	9	46	1.79
1098996--1099111	13	8.9	12	75	17	99	81	0	18	0	0.70
1098996--1099121	16	7.8	16	78	12	89	79	0	20	0	0.73
1098996--1099120	29	4.4	29	78	16	138	80	0	20	0	0.72
1099000--1099119	59	2.0	58	83	12	147	80	0	19	0	0.70
1099963--1100225	93	2.8	93	93	3	431	28	14	20	35	1.92
1100957--1101561	112	5.5	111	86	5	827	38	14	18	28	1.90
1100921--1101557	330	1.9	332	88	6	961	38	14	18	28	1.90
1100957--1101561	218	2.7	218	88	4	883	38	14	18	28	1.90
1101410--1101454	24	1.9	23	82	13	56	48	11	26	13	1.75
1101807--1101869	3	21.0	3	87	6	92	38	0	0	61	0.96
1107038--1107164	41	3.1	41	69	24	115	26	15	23	33	1.95
1107037--1107204	82	2.1	82	89	3	259	28	16	23	32	1.96
1107047--1107173	40	3.1	41	69	19	113	27	17	25	29	1.97
1107025--1107204	81	2.2	81	88	3	263	28	16	22	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1112368--1112400	15	2.1	16	88	5	50	9	24	15	51	1.72
1113150--1113184	16	2.1	17	94	5	63	34	25	8	31	1.86
1115549--1115934	42	9.1	42	78	4	362	25	23	17	33	1.96
1115540--1115902	127	2.8	126	79	6	365	26	23	17	32	1.96
1115549--1115938	85	4.6	85	83	5	412	25	22	17	33	1.96
1125788--1125963	29	6.2	28	79	8	162	36	1	16	46	1.55
1133117--1133291	29	6.2	29	77	12	150	34	1	14	49	1.54
1133242--1133301	28	2.1	30	84	6	79	38	0	20	41	1.52
1135251--1135293	20	2.2	20	86	0	59	32	20	16	30	1.95
1139754--1139790	16	2.2	18	90	9	60	48	0	2	48	1.15

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