genome.fa.s9086.2.7.7.80.10.50.1000.5.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: VEPZ01009086.1 Hibiscus syriacus cultivar Beakdansim tig00112530_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1596699

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 761 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)
1013184--1013232	20	2.4	21	86	3	64	20	20	16	42	1.89
1014007--1014060	24	2.2	24	90	0	81	22	16	20	40	1.91
1014232--1014268	12	3.1	12	92	0	65	70	0	29	0	0.88
1016586--1016677	19	5.4	19	71	24	96	45	18	21	14	1.84
1016601--1016691	14	5.8	14	70	22	56	45	18	24	12	1.83
1016586--1016712	33	3.8	33	95	0	218	45	18	22	12	1.83
1016712--1016772	19	3.2	19	88	4	70	14	16	24	44	1.85
1016729--1016839	19	6.4	19	73	21	109	14	19	19	45	1.84
1016746--1016839	33	2.8	33	96	0	170	14	21	19	44	1.86
1018305--1018371	21	3.2	21	68	4	55	19	20	35	23	1.95
1018645--1018826	91	2.0	90	91	6	294	46	18	12	21	1.82
1020511--1020651	19	7.8	19	69	17	95	45	19	22	12	1.84
1020652--1020695	19	2.3	19	92	0	70	9	18	27	45	1.79
1021284--1021335	20	2.5	21	87	3	70	21	23	17	38	1.93
1021242--1021350	41	2.7	41	74	5	96	29	18	21	31	1.97
1021325--1021377	21	2.5	22	81	6	74	33	18	26	20	1.96
1021266--1021397	21	6.4	20	72	13	65	27	19	22	30	1.98
1023201--1023231	2	15.5	2	100	0	62	48	0	0	51	1.00
1023705--1023738	14	2.4	14	85	0	50	41	5	11	41	1.66
1023945--1024015	32	2.2	30	77	18	72	47	0	2	49	1.16
1023946--1024035	34	2.6	33	81	15	94	50	0	3	46	1.18
1024045--1024089	23	2.0	23	90	0	72	44	0	2	53	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1024045--1024142	34	2.9	34	78	17	89	47	1	1	50	1.14
1024046--1024096	23	2.2	23	85	0	66	47	0	1	50	1.12
1024107--1024181	27	2.7	26	78	17	73	49	2	0	48	1.15
1024107--1024212	54	2.0	53	81	10	126	46	1	0	50	1.18
1024170--1024257	44	2.0	45	82	10	110	48	1	2	47	1.21
1024261--1024307	22	2.1	23	88	4	69	53	0	2	44	1.12
1024269--1024312	22	2.0	22	82	8	54	54	0	2	43	1.12
1027051--1027107	27	2.1	27	96	0	105	29	21	19	29	1.97
1031922--1031961	21	1.9	21	89	0	62	10	25	40	25	1.86
1038389--1038497	31	3.5	31	89	0	146	51	12	11	24	1.72
1038906--1038987	3	27.0	3	97	2	155	67	0	0	32	0.91
1042567--1042592	13	2.0	13	100	0	52	38	0	0	61	0.96
1049316--1049353	17	2.2	17	90	0	58	31	23	34	10	1.89
1049907--1049947	21	2.0	21	85	9	57	36	9	2	51	1.48
1050875--1050910	18	1.9	19	88	5	56	52	2	0	44	1.15
1051848--1051921	37	2.0	36	87	7	105	48	4	0	47	1.20
1052251--1052344	31	3.0	31	96	0	179	31	38	7	22	1.82
1053144--1053202	27	2.2	27	90	0	91	37	11	15	35	1.84
1063922--1063963	2	21.0	2	100	0	84	50	0	0	50	1.00
1065051--1065083	11	3.0	11	95	0	57	42	36	12	9	1.74
1070359--1070415	24	2.4	23	88	2	78	26	28	21	24	1.99
1079905--1079950	22	2.1	22	100	0	92	41	19	26	13	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1081265--1081332	30	2.3	30	97	0	127	33	27	4	33	1.77
1082792--1082870	33	2.4	33	91	0	122	60	7	16	15	1.56
1088328--1088386	29	2.0	29	96	0	109	50	13	11	23	1.74
1092804--1092862	29	2.0	29	100	0	118	49	13	13	23	1.78
1096406--1096477	24	2.9	25	75	4	74	34	18	16	30	1.93
1098019--1098062	15	3.1	14	87	9	63	61	0	2	36	1.09
1104357--1104401	18	2.5	18	100	0	90	35	11	6	46	1.66
1104488--1104514	2	13.5	2	100	0	54	51	0	48	0	1.00
1106207--1106274	30	2.3	29	82	2	82	42	1	11	44	1.50
1107636--1107680	2	23.0	2	95	4	83	51	0	0	48	1.00
1113683--1113840	21	7.8	20	70	7	77	37	25	17	19	1.93
1113808--1114001	20	9.6	20	81	6	78	35	26	18	19	1.95
1113804--1114001	40	5.0	39	83	4	209	34	27	18	19	1.95
1113808--1114000	60	3.2	60	82	3	244	34	26	18	19	1.95
1114382--1114452	33	2.2	33	92	0	115	11	22	18	47	1.80
1114532--1114623	21	4.6	20	77	6	105	45	17	23	13	1.83
1114530--1114626	41	2.4	40	85	1	131	46	16	24	12	1.81
1114544--1114620	19	3.9	19	75	9	73	46	16	23	12	1.82
1114646--1114759	19	6.1	19	78	13	94	12	24	16	46	1.81
1114676--1114759	41	2.1	40	90	2	132	11	25	14	48	1.77
1114675--1114757	20	4.2	20	84	6	123	13	24	14	48	1.79
1116458--1116930	93	5.1	93	98	0	921	22	12	18	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1116458--1116930	185	2.5	186	98	0	921	22	12	18	46	1.83
1116974--1117102	19	7.3	19	75	17	125	45	28	16	9	1.78
1117010--1117102	33	2.8	32	91	4	150	46	27	17	8	1.77
1116974--1117102	52	2.5	52	74	14	140	45	28	16	9	1.78
1117098--1117232	19	7.6	19	75	16	128	11	18	23	45	1.82
1117120--1117176	14	3.7	14	75	20	51	12	19	22	45	1.83
1117103--1117195	33	2.8	33	93	0	159	11	19	21	47	1.81
1119042--1119157	57	2.1	54	90	7	180	31	2	15	50	1.57
1119145--1119180	14	2.6	14	95	0	63	33	0	22	44	1.53
1119287--1119384	19	5.4	19	83	13	134	45	18	20	15	1.85
1119287--1119403	53	2.2	53	89	1	182	43	18	23	14	1.87
1119393--1119771	19	21.7	19	74	18	351	15	22	18	44	1.86
1119393--1119771	52	7.2	52	79	13	431	15	22	18	44	1.86
1119399--1119771	157	2.4	157	95	1	669	15	21	18	44	1.86
1119399--1119804	71	5.8	70	80	10	344	14	21	18	44	1.86
1119399--1119785	33	11.2	33	72	16	252	14	22	18	44	1.86
1122268--1122314	24	2.0	24	87	8	69	38	21	14	25	1.92
1122997--1123265	20	13.4	20	88	1	279	20	17	25	36	1.94
1130885--1131333	225	2.0	225	95	0	799	34	11	19	34	1.87
1137623--1137687	2	32.0	2	84	9	78	46	1	4	47	1.32
1145237--1145345	55	2.0	55	94	0	191	27	20	18	33	1.96
1150076--1150188	60	1.9	60	83	3	147	32	9	14	43	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1150899--1150976	31	2.5	31	85	0	93	23	24	15	37	1.93
1151816--1151966	21	7.9	20	67	13	79	23	21	20	34	1.97
1151835--1151955	35	3.3	35	72	15	125	23	20	19	35	1.96
1151816--1151966	77	2.0	77	97	0	284	23	21	20	34	1.97
1152285--1152375	19	4.4	20	73	17	87	30	26	5	37	1.79
1152296--1152377	44	1.9	41	85	7	110	32	26	6	34	1.81
1152377--1152437	21	3.0	21	82	2	70	24	19	24	31	1.98
1152666--1152711	23	2.0	24	83	12	60	30	0	6	63	1.20
1152945--1152984	14	2.9	14	88	7	55	40	27	7	25	1.82
1155179--1155205	2	13.5	2	100	0	54	48	0	0	51	1.00
1155422--1155448	2	13.5	2	100	0	54	51	0	48	0	1.00
1156977--1157002	2	13.0	2	100	0	52	50	0	0	50	1.00
1157184--1157222	19	2.0	20	85	14	55	53	7	2	35	1.43
1163248--1163295	24	2.0	24	100	0	96	33	0	20	45	1.52
1165204--1165411	98	2.1	98	93	0	355	26	12	20	40	1.88
1166396--1166461	32	2.1	32	97	0	123	40	6	7	45	1.57
1168995--1169020	2	13.0	2	100	0	52	50	0	0	50	1.00
1174908--1174953	23	2.0	23	91	0	74	28	26	23	21	1.99
1174931--1175532	149	4.0	149	97	1	1136	35	21	15	27	1.94
1174931--1175532	300	2.0	296	97	1	1132	35	21	15	27	1.94
1175988--1176127	63	2.2	63	87	2	192	26	21	20	32	1.97
1182249--1182701	149	3.0	149	99	0	888	35	20	15	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1183157--1183315	63	2.5	63	87	2	212	26	22	19	32	1.97
1183283--1183320	19	2.0	20	94	5	69	26	28	15	28	1.96
1184615--1184675	2	30.5	2	100	0	122	50	0	0	49	1.00
1184733--1184762	2	15.0	2	100	0	60	50	0	0	50	1.00
1185155--1185222	23	3.0	23	84	0	91	17	25	26	30	1.97
1188584--1188637	26	2.0	27	85	3	74	62	0	1	35	1.06
1190425--1190472	25	2.0	24	84	12	62	45	2	14	37	1.57
1205267--1205297	10	3.1	10	95	0	53	32	32	0	35	1.58
1207410--1207446	3	12.3	3	88	0	56	37	29	29	2	1.71
1207406--1207444	12	3.2	12	88	0	60	38	30	28	2	1.70

Tables:   1   2   3   4   5   6   7