genome.fa.s1448.2.7.7.80.10.50.1000.4.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: VEPZ01001448.1 Hibiscus syriacus cultivar Beakdansim tig00002799_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1849635

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 993 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)
874343--874419	31	2.5	31	80	2	91	27	31	27	14	1.95
874296--874419	63	2.0	63	82	6	153	25	29	28	16	1.97
875293--875318	13	2.0	13	100	0	52	23	30	30	15	1.95
875308--875365	17	3.4	17	97	0	107	15	24	43	17	1.87
875289--875318	7	4.4	7	91	8	53	23	30	30	16	1.96
875359--875448	19	4.7	19	86	6	119	26	28	25	18	1.98
875359--875447	9	9.3	9	75	11	79	26	29	25	17	1.98
875394--875448	29	1.9	30	82	14	71	29	27	23	20	1.99
881691--881767	31	2.5	31	80	2	91	27	31	27	14	1.95
881644--881767	63	2.0	63	82	6	153	25	29	28	16	1.97
882641--882666	13	2.0	13	100	0	52	23	30	30	15	1.95
882656--882713	17	3.4	17	97	0	107	15	24	43	17	1.87
882637--882666	7	4.4	7	91	8	53	23	30	30	16	1.96
882707--882778	19	3.8	19	92	5	119	25	31	26	16	1.96
882707--882795	9	9.3	9	76	11	79	26	29	25	17	1.98
890672--890710	19	2.0	20	85	5	53	25	15	20	38	1.92
896350--896390	15	2.7	15	100	0	82	34	24	4	36	1.77
896767--896803	12	3.1	12	92	0	56	5	2	56	35	1.36
897490--897548	23	2.6	23	94	0	100	27	22	28	22	1.99
901204--901242	20	1.9	21	84	5	53	25	17	7	48	1.74
907386--907591	101	2.0	101	94	1	360	33	11	6	48	1.65
908485--908610	38	3.3	38	75	8	130	42	2	0	54	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
908543--908582	11	3.6	11	80	12	55	40	0	0	60	0.97
908482--908625	76	1.9	75	91	1	234	40	2	0	56	1.11
908490--908569	27	3.0	27	70	21	69	42	1	0	56	1.07
908545--908591	12	4.0	12	75	13	53	40	2	0	57	1.11
908598--908627	15	2.0	15	93	0	51	30	0	0	70	0.88
909854--909937	28	3.0	28	96	1	150	44	8	0	47	1.33
909854--909958	56	1.9	54	81	13	124	41	11	0	46	1.40
923834--923860	14	1.9	14	100	0	54	7	22	3	66	1.33
928169--928438	105	2.6	105	91	2	443	37	17	20	24	1.94
928169--928484	105	3.0	101	80	14	356	38	16	20	24	1.92
941597--941686	41	2.1	44	83	6	114	54	5	15	24	1.62
941731--941798	22	3.1	21	69	12	57	70	2	1	25	1.09
969299--969466	36	4.6	36	82	2	203	35	13	24	26	1.93
969299--969466	73	2.3	72	85	5	214	35	13	24	26	1.93
970975--971199	32	7.1	32	91	1	364	27	18	20	34	1.95
972042--972078	18	2.1	18	89	0	56	24	13	13	48	1.78
972583--972633	20	2.5	20	93	0	84	35	19	21	23	1.96
972672--972914	102	2.4	102	91	2	389	34	18	12	34	1.88
972972--973034	22	3.0	22	68	15	60	33	25	19	22	1.97
972947--973060	42	2.7	42	87	1	158	30	23	20	25	1.98
973154--973215	21	3.2	21	63	25	55	41	17	19	20	1.90
973100--973387	36	8.2	36	82	8	301	38	14	20	26	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
973208--973580	65	5.6	65	77	8	322	39	13	19	27	1.89
973171--973357	101	1.9	101	89	0	293	39	13	20	26	1.90
973134--973611	137	3.5	137	79	5	524	40	13	19	26	1.89
973170--973524	101	3.5	100	71	14	289	40	13	18	27	1.89
973689--973776	36	2.5	35	80	10	99	44	14	19	21	1.86
976932--976972	21	2.0	21	90	0	64	21	26	21	29	1.99
977011--977049	20	2.0	20	90	10	62	23	17	30	28	1.97
977034--977074	20	2.0	21	90	4	66	26	19	21	31	1.97
979427--979469	22	2.0	22	90	0	68	41	11	20	25	1.86
980143--980261	58	2.1	57	83	1	148	32	24	15	26	1.96
980946--981040	50	1.9	50	97	0	181	30	13	10	45	1.77
982390--982446	18	2.9	18	80	16	62	50	10	10	28	1.69
985526--985600	20	4.0	19	80	16	77	26	20	26	26	1.99
985530--985599	36	1.9	36	83	11	90	27	20	25	27	1.99
989289--989330	3	14.0	3	100	0	84	66	0	0	33	0.92
990298--990348	2	25.5	2	100	0	102	50	0	0	49	1.00
992911--992950	21	1.9	21	84	0	53	25	12	42	20	1.86
993127--993163	16	2.3	16	100	0	74	37	13	32	16	1.87
996806--996870	21	3.2	20	82	6	76	15	49	6	29	1.68
997616--997660	2	22.5	2	100	0	90	51	0	0	48	1.00
999783--999840	29	2.0	29	82	0	71	41	12	15	31	1.84
1005154--1005192	2	19.5	2	100	0	78	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1011532--1011595	30	2.2	31	86	11	98	31	20	7	40	1.81
1012983--1013039	4	13.8	4	76	12	53	75	7	17	0	1.02
1012983--1013040	13	4.6	13	77	12	59	75	6	17	0	1.01
1012987--1013039	21	2.6	20	87	3	79	75	7	16	0	1.02
1015185--1015231	18	2.4	21	89	10	73	44	14	10	29	1.79
1015185--1015240	18	2.8	19	84	10	60	48	12	10	28	1.74
1021076--1021114	19	2.1	18	85	4	51	38	5	5	51	1.46
1021506--1021562	20	2.6	21	83	10	62	19	24	26	29	1.98
1022081--1022255	86	2.0	87	97	1	334	34	18	13	34	1.89
1027207--1027330	36	3.4	36	87	5	153	32	17	13	36	1.89
1027474--1027628	66	2.4	66	82	4	181	35	18	12	34	1.88
1028215--1028261	19	2.5	18	83	10	58	27	4	2	65	1.22
1028168--1028289	62	2.0	63	83	8	160	29	3	2	64	1.22
1028181--1028278	32	3.1	31	73	11	92	30	2	2	65	1.15
1028231--1028285	28	2.0	29	82	10	71	29	3	0	67	1.08
1028203--1028301	16	6.2	16	72	17	80	34	3	1	61	1.18
1028236--1028428	50	3.8	49	73	16	137	24	6	0	68	1.17
1028320--1028386	13	5.0	13	73	12	55	14	5	1	77	1.03
1028360--1028415	23	2.4	23	74	11	60	19	8	0	71	1.12
1031511--1031559	15	3.4	14	81	13	64	81	0	16	2	0.78
1031518--1031570	13	4.0	13	81	16	56	77	1	16	3	1.01
1032621--1032708	32	2.7	31	81	6	104	28	14	22	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1033282--1033602	106	3.0	106	88	1	448	34	23	18	23	1.96
1034012--1034159	37	4.2	37	65	23	104	31	18	11	38	1.87
1033861--1034038	87	2.1	87	90	1	277	32	18	12	35	1.89
1033947--1034186	102	2.4	102	92	0	399	32	18	12	37	1.88
1034087--1034159	37	2.0	37	91	0	119	27	19	12	41	1.87
1034224--1034326	36	2.8	37	89	5	165	32	21	10	35	1.88
1034342--1034460	36	3.3	36	81	9	143	27	16	15	40	1.89
1035598--1035674	41	1.9	40	84	10	104	22	5	3	68	1.26
1035637--1035700	25	2.5	25	80	10	67	26	3	4	65	1.27
1035719--1035776	2	28.5	2	81	10	55	39	3	0	56	1.16
1035781--1035854	12	6.1	12	73	14	62	16	5	1	77	1.03
1035745--1035831	16	5.4	16	68	13	61	26	1	1	71	1.00
1035770--1035915	47	2.9	47	74	20	120	19	7	1	71	1.16
1035770--1035853	23	3.6	23	74	17	75	19	4	1	75	1.05
1036341--1036419	37	2.2	37	90	2	124	27	20	17	34	1.95
1036368--1036549	65	2.8	65	86	2	249	25	17	14	42	1.87
1036551--1036943	137	2.9	136	88	1	565	26	30	16	26	1.96
1036551--1037008	137	3.3	133	80	9	396	27	29	16	27	1.97
1040453--1040562	35	3.1	35	85	0	148	42	20	1	35	1.62
1042609--1042720	35	3.2	34	83	2	134	34	1	22	41	1.64
1046696--1046747	17	3.1	17	80	5	61	51	0	0	48	1.00
1047451--1047481	15	2.1	15	100	0	62	51	0	6	41	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1047499--1047575	37	2.1	36	83	11	95	44	0	2	53	1.14
1047722--1047761	19	2.2	18	90	4	62	27	20	7	45	1.78
1054603--1054770	57	2.9	56	84	3	228	38	35	8	16	1.80
1056204--1056236	7	4.7	7	100	0	66	42	0	0	57	0.98
1056274--1056317	21	2.0	21	91	4	70	40	43	0	15	1.47
1056956--1057048	29	3.2	29	72	15	84	19	10	9	60	1.57
1056951--1057087	58	2.4	58	79	10	140	21	10	9	58	1.60
1059243--1059294	26	2.0	26	100	0	104	30	15	23	30	1.95
1061417--1061572	32	4.8	32	87	3	215	30	16	21	31	1.96
1061949--1062361	61	6.8	61	88	4	609	37	21	17	24	1.94

Tables:   1   2   3   4   5   6   7   8   9