genome.fa.s7980.2.7.7.80.10.50.1000.6.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: VEPZ01007980.1 Hibiscus syriacus cultivar Beakdansim tig00110419_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1499237

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 886 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)
982281--982345	21	3.1	21	77	6	60	38	20	16	24	1.93
985669--985726	21	2.8	21	75	0	62	36	20	15	27	1.93
985822--985861	21	1.9	21	84	0	53	32	17	20	30	1.95
987547--987584	19	2.0	19	100	0	76	36	36	0	26	1.57
990650--990675	2	13.0	2	100	0	52	50	0	0	50	1.00
993719--993777	29	2.2	26	76	21	68	25	11	8	54	1.65
993875--993937	23	3.0	20	73	15	63	28	3	15	52	1.58
997485--997900	4	104.0	4	100	0	832	50	25	0	25	1.50
998525--998566	17	2.5	17	92	0	66	42	0	9	47	1.36
998543--998611	21	3.3	21	87	6	104	46	1	4	47	1.31
998534--998610	20	4.0	20	85	8	106	45	1	5	48	1.33
998645--998720	3	26.3	3	75	24	67	34	0	0	65	0.93
998645--998720	21	3.5	22	79	20	88	34	0	0	65	0.93
998648--998729	37	2.2	37	85	12	107	34	1	0	64	1.01
998749--998826	37	2.1	37	95	0	138	42	26	14	16	1.86
998749--998838	37	2.4	37	90	0	126	41	27	15	15	1.88
999120--999175	20	2.8	20	100	0	112	19	35	28	16	1.93
1000525--1000572	19	2.5	20	82	3	62	52	6	12	29	1.63
1002050--1002131	20	4.1	20	85	1	110	20	39	28	12	1.89
1002050--1002131	40	2.0	41	90	2	130	20	39	28	12	1.89
1003927--1003960	16	2.1	16	88	0	50	5	11	5	76	1.14
1007232--1007324	32	3.0	31	90	3	150	34	21	19	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1009109--1009138	15	2.1	14	93	6	51	13	16	20	50	1.78
1011458--1011526	24	2.9	24	95	0	120	36	11	30	21	1.89
1011740--1011839	33	3.2	33	84	9	113	20	15	41	24	1.90
1011666--1011896	87	2.8	81	78	8	221	18	17	39	24	1.91
1011663--1011893	114	2.0	114	83	1	293	19	16	39	24	1.91
1011663--1011896	27	8.4	27	82	7	227	18	17	39	24	1.91
1014686--1014791	52	2.0	52	98	0	203	38	6	26	28	1.81
1015946--1016012	32	2.1	32	97	0	125	40	20	8	29	1.83
1016365--1016401	19	1.9	19	100	0	74	40	16	5	37	1.71
1017576--1017665	45	2.0	45	95	0	162	18	34	27	18	1.95
1020870--1020906	19	1.9	19	94	0	65	45	8	5	40	1.56
1022325--1022393	32	2.2	32	97	0	129	42	11	15	30	1.83
1023557--1023585	3	9.7	3	100	0	58	65	0	0	34	0.93
1023561--1023601	15	2.7	16	85	7	50	68	2	0	29	1.03
1023677--1023717	17	2.5	17	88	4	57	58	2	0	39	1.11
1026055--1026079	13	1.9	13	100	0	50	72	0	0	28	0.86
1026463--1026536	38	1.9	38	97	0	139	41	24	18	14	1.89
1027285--1027359	15	5.2	15	73	20	63	76	1	0	22	0.87
1027314--1027363	5	10.2	5	81	18	61	78	0	0	22	0.76
1027317--1027366	15	3.3	15	84	15	68	78	0	0	22	0.76
1028167--1028201	7	5.0	7	100	0	70	0	42	0	57	0.99
1035116--1035164	25	2.0	24	84	4	62	44	4	0	51	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1035138--1035212	22	3.1	24	81	12	84	42	4	0	53	1.19
1035147--1035210	25	2.5	27	80	10	80	42	3	0	54	1.16
1036059--1036148	44	2.0	44	89	0	135	31	24	23	21	1.98
1040249--1040807	111	5.0	111	91	1	854	30	17	22	29	1.97
1040249--1040807	220	2.5	222	91	1	881	30	17	22	29	1.97
1041975--1042022	23	2.1	22	85	11	62	4	16	0	79	0.89
1042015--1042051	12	2.8	13	88	12	58	13	24	0	62	1.31
1049221--1049250	11	2.7	11	89	0	51	46	10	20	23	1.80
1060640--1061176	22	24.4	22	87	2	765	41	0	10	47	1.40
1061200--1061258	31	1.9	31	92	0	100	44	8	5	42	1.57
1064086--1064129	18	2.4	18	85	7	54	29	11	2	56	1.46
1066408--1066436	2	14.5	2	100	0	58	51	0	48	0	1.00
1071548--1071722	88	2.0	86	87	2	251	39	21	16	22	1.92
1072596--1072691	47	2.0	47	95	0	174	29	8	28	34	1.86
1077589--1077787	98	2.0	98	93	0	335	41	15	20	22	1.90
1078766--1078819	23	2.4	23	81	3	56	12	24	11	51	1.72
1080305--1080342	14	2.7	15	88	8	53	34	31	18	15	1.92
1082744--1082815	32	2.2	32	82	4	83	16	30	30	22	1.96
1084097--1084146	26	1.9	26	95	0	91	44	2	0	54	1.11
1094162--1094271	11	10.3	11	75	15	81	78	0	1	20	0.85
1094164--1094258	33	2.7	34	81	10	113	75	0	2	22	0.90
1094166--1094273	18	6.2	17	75	14	71	78	0	1	19	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1094173--1094270	27	3.6	27	68	14	76	77	0	2	20	0.87
1094162--1094271	15	7.2	15	75	20	104	78	0	1	20	0.85
1095420--1095464	11	4.0	11	85	8	56	86	2	2	8	0.73
1095519--1095787	38	7.6	38	75	18	251	41	7	3	47	1.48
1095592--1095655	26	2.5	26	92	2	103	45	7	3	43	1.48
1095621--1095787	37	4.6	37	78	12	168	41	7	2	47	1.47
1095617--1095754	34	3.9	34	81	11	138	41	7	2	48	1.46
1096868--1097171	85	3.6	85	80	5	305	27	18	17	36	1.93
1096604--1097444	427	2.0	425	86	4	1185	26	19	18	34	1.95
1098554--1098750	99	2.0	98	90	4	306	31	18	17	32	1.94
1100621--1100914	39	7.9	37	77	13	227	42	6	3	47	1.44
1100609--1100940	79	4.4	76	71	17	255	43	7	2	46	1.46
1100750--1100804	11	5.1	11	76	12	51	45	1	0	52	1.11
1100793--1100969	33	5.1	34	74	16	116	43	9	1	45	1.46
1101006--1101032	14	1.9	14	100	0	54	92	7	0	0	0.38
1108267--1108309	19	2.1	21	83	8	54	20	9	20	48	1.77
1109885--1109912	2	14.0	2	100	0	56	50	0	0	50	1.00
1114430--1114470	20	2.0	20	86	9	57	39	9	7	43	1.65
1114643--1114700	18	2.9	19	75	15	55	29	27	20	22	1.99
1114972--1115000	14	2.0	15	93	6	51	13	13	13	58	1.63
1121275--1121315	18	2.2	20	86	8	59	39	7	7	46	1.60
1121829--1121857	14	2.0	15	93	6	51	13	13	13	58	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1128677--1128802	49	2.5	51	94	2	220	61	3	5	30	1.35
1130340--1130399	31	1.9	31	96	0	111	51	18	5	25	1.66
1131908--1131947	21	1.9	21	89	0	62	37	17	20	25	1.94
1145113--1145223	49	2.2	51	91	4	190	32	3	44	19	1.68
1145114--1145201	29	3.3	29	63	28	70	31	3	45	19	1.67
1150293--1150353	32	1.9	32	100	0	122	42	16	11	29	1.83
1152883--1152947	3	21.0	3	81	6	76	38	0	1	60	1.07
1155085--1155131	18	2.7	18	76	3	51	25	0	2	72	0.96
1155121--1155158	15	2.8	13	88	11	51	23	5	2	68	1.23
1161855--1162091	115	2.1	114	88	0	348	32	14	21	31	1.93
1164130--1164251	54	2.3	55	88	2	176	40	16	19	22	1.90
1164618--1164672	22	2.5	22	93	0	101	34	10	14	40	1.81
1165348--1166291	76	12.5	76	97	1	1772	21	20	21	35	1.96
1165348--1166291	303	3.1	303	97	1	1770	21	20	21	35	1.96
1166419--1166479	3	20.0	3	80	9	70	37	0	1	60	1.07
1170199--1170238	21	1.9	21	94	0	71	40	0	2	57	1.12
1170272--1170493	76	2.9	75	83	8	216	48	2	4	44	1.37
1170272--1170514	39	6.3	37	82	8	249	48	2	4	44	1.36
1170526--1170568	12	3.5	13	81	18	56	25	6	0	67	1.15
1176181--1176255	37	2.1	37	85	7	102	54	0	4	41	1.19
1176286--1176335	8	6.2	8	77	9	57	60	0	0	40	0.97
1176304--1176333	15	2.0	15	93	0	51	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1176456--1176496	17	2.3	18	83	8	57	56	2	0	41	1.13
1176440--1176528	46	1.9	47	81	6	110	53	3	1	41	1.24
1177348--1177581	118	2.0	118	88	1	353	29	12	5	52	1.60
1185559--1185614	20	2.8	20	91	0	94	32	19	12	35	1.89
1191920--1191991	27	2.6	27	88	4	99	56	5	16	20	1.60
1191912--1191991	29	2.8	29	85	7	94	56	5	17	21	1.60
1194267--1194590	161	2.0	162	99	0	641	22	21	13	42	1.88
1194676--1194717	17	2.5	16	88	7	57	9	7	0	83	0.81
1194682--1194733	24	2.2	23	83	13	61	11	7	1	78	1.02
1194831--1195564	257	2.8	257	87	3	1012	35	16	13	34	1.88

Tables:   1   2   3   4   5   6   7   8