genome.fa.s9596.2.7.7.80.10.50.1000.5.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: VEPZ01009596.1 Hibiscus syriacus cultivar Beakdansim tig00116975_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1846166

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 926 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)
968678--968736	14	3.9	14	76	20	64	6	16	28	47	1.72
968662--968785	33	3.7	33	90	1	176	9	17	26	45	1.79
968662--968753	19	5.4	18	72	24	83	7	17	28	46	1.75
968833--969105	93	3.1	87	90	6	315	45	18	13	23	1.85
968882--969105	93	2.4	93	98	0	430	44	18	13	23	1.85
970782--970845	20	3.2	20	82	4	92	46	15	25	12	1.81
970780--970844	21	3.1	21	82	4	96	47	15	26	10	1.78
970829--970885	14	3.7	14	70	20	51	45	22	22	8	1.80
970780--970902	33	3.5	33	87	8	156	47	18	23	10	1.80
970780--970907	19	7.1	19	67	21	78	46	18	24	10	1.81
970919--970975	14	3.7	14	75	20	60	8	24	22	43	1.81
970903--970982	33	2.4	33	95	0	142	8	21	22	47	1.78
970963--971036	21	3.5	21	80	7	96	13	21	17	47	1.82
971116--971186	33	2.2	33	94	0	124	47	16	23	11	1.79
971566--971758	20	9.6	20	84	5	237	18	19	27	34	1.95
972269--972437	84	2.0	84	92	0	284	47	13	14	24	1.80
972435--972469	17	2.1	17	94	0	61	60	8	5	25	1.49
972830--972873	19	2.3	19	84	7	54	70	6	4	18	1.27
972884--972936	27	2.0	25	82	13	63	33	5	0	60	1.20
973277--973304	12	2.3	12	100	0	56	28	7	32	32	1.84
983226--983250	6	4.2	6	100	0	50	36	48	16	0	1.46
986527--986566	22	2.0	20	85	14	55	12	20	42	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
988565--988646	21	3.9	21	74	14	71	18	25	32	23	1.97
988609--988646	20	1.9	20	94	0	67	15	26	34	23	1.95
997294--997343	24	2.1	24	85	7	66	24	2	14	60	1.45
998625--998703	24	3.4	24	68	16	67	56	20	1	21	1.49
999825--999853	2	15.0	2	92	7	51	48	0	0	51	1.00
1010786--1010824	21	1.9	20	84	5	51	48	5	28	17	1.68
1015912--1015955	13	3.4	13	80	0	52	68	13	2	15	1.31
1018016--1018086	24	3.0	24	81	2	81	21	25	21	32	1.98
1019210--1019273	33	1.9	33	84	6	85	23	18	40	17	1.91
1020924--1020977	16	3.4	16	79	2	56	68	1	0	29	1.00
1020937--1020988	10	5.1	10	77	17	54	69	1	0	28	0.99
1021259--1021327	30	2.3	31	80	7	72	31	11	27	28	1.92
1023777--1023852	20	3.8	20	94	0	134	43	21	23	11	1.85
1025691--1025762	30	2.4	30	95	2	128	2	12	44	40	1.57
1026726--1026792	23	2.9	23	88	0	98	26	25	25	22	2.00
1026808--1027025	103	2.1	103	95	0	391	37	23	13	26	1.91
1027812--1027862	19	2.7	19	96	0	93	19	25	25	29	1.99
1027831--1027986	64	2.5	63	78	8	172	25	19	21	33	1.97
1029519--1029561	21	2.0	21	100	0	86	13	18	9	58	1.62
1031451--1031504	24	2.2	26	78	18	62	40	3	5	50	1.44
1040653--1040690	18	2.1	19	85	5	51	52	15	2	28	1.56
1043619--1043655	14	2.8	14	84	12	51	32	0	5	62	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1054725--1054751	3	9.0	3	100	0	54	33	0	0	66	0.92
1056374--1056438	31	2.1	31	100	0	130	55	3	6	35	1.40
1057153--1057295	73	2.0	72	90	1	223	42	10	7	39	1.68
1061423--1061466	14	3.1	14	86	0	70	34	13	0	52	1.41
1068196--1068260	31	2.1	31	88	0	94	40	23	18	18	1.92
1068565--1068611	22	2.0	23	84	12	60	38	12	4	44	1.62
1088550--1088586	17	2.2	18	85	9	51	48	2	0	48	1.15
1088609--1088638	15	1.9	16	93	6	53	60	0	3	36	1.14
1090195--1090226	2	16.5	2	93	6	57	50	0	0	50	1.00
1094367--1094448	27	3.1	27	77	12	107	60	2	0	36	1.10
1094368--1094448	25	3.2	26	91	8	139	60	2	0	37	1.10
1094481--1094521	6	6.8	6	85	0	55	4	48	9	36	1.58
1094481--1094521	12	3.4	12	93	0	64	4	48	9	36	1.58
1094481--1094515	18	1.9	18	94	0	61	5	51	8	34	1.56
1094948--1094995	20	2.4	20	96	0	87	45	12	20	20	1.83
1100420--1100453	17	2.0	17	94	0	59	50	0	2	47	1.16
1104464--1104624	64	2.5	63	84	5	198	34	18	20	26	1.95
1105991--1106294	149	2.0	149	94	0	536	27	15	21	36	1.93
1109586--1109746	64	2.5	63	85	5	207	34	18	21	26	1.96
1123845--1123940	10	8.9	10	69	15	57	50	5	5	39	1.47
1123844--1123912	34	2.0	34	100	0	138	49	5	5	39	1.51
1124140--1124178	15	2.7	15	88	7	55	43	12	0	43	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1130254--1130306	18	2.8	19	88	5	81	43	11	20	24	1.85
1130484--1130557	36	2.0	37	82	7	89	51	4	1	43	1.29
1131202--1131326	39	3.3	38	82	4	153	36	22	17	24	1.95
1135589--1135631	20	2.3	19	80	11	52	25	27	6	39	1.81
1136604--1136645	18	2.3	18	84	8	50	9	16	7	66	1.42
1140051--1140128	39	2.0	39	100	0	156	20	33	25	20	1.97
1142236--1142622	183	2.1	184	90	2	611	43	2	8	45	1.48
1144669--1144693	12	2.1	12	100	0	50	44	0	8	48	1.32
1145121--1145795	84	8.1	83	83	5	772	23	21	26	29	1.99
1145909--1147305	106	13.3	106	92	2	2261	23	17	25	33	1.96
1146513--1146668	43	3.4	43	69	13	141	21	18	25	34	1.96
1146571--1147305	211	3.5	211	92	0	1247	23	17	25	33	1.96
1150433--1150477	19	2.4	19	92	3	74	66	8	13	11	1.44
1153432--1153456	12	2.1	12	100	0	50	44	0	8	48	1.32
1159531--1159587	23	2.7	20	73	13	51	47	3	1	47	1.29
1161626--1161783	21	7.8	20	70	7	77	37	24	17	19	1.93
1161751--1162061	20	15.5	20	81	6	79	34	26	19	20	1.96
1161751--1162140	40	9.7	40	87	2	439	35	25	18	20	1.95
1161789--1162140	20	17.6	19	85	5	398	34	25	18	21	1.96
1162817--1162863	24	2.0	24	87	8	69	25	14	21	38	1.92
1165341--1165594	19	14.4	19	79	17	307	46	18	21	13	1.83
1165341--1165594	33	7.2	34	75	16	218	46	18	21	13	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1165341--1165616	52	5.3	55	87	10	297	46	18	21	14	1.84
1165623--1165705	20	4.6	19	81	15	113	14	24	18	43	1.87
1165812--1165848	14	2.6	14	91	0	65	45	21	0	32	1.52
1167800--1167856	14	3.7	14	77	20	60	45	22	21	10	1.82
1167781--1167873	33	2.8	33	95	0	168	47	21	20	10	1.80
1167744--1167878	19	7.6	19	76	16	128	45	23	19	11	1.82
1167874--1168002	19	7.3	19	75	17	125	8	17	28	45	1.77
1167874--1167965	33	2.8	33	93	3	150	7	18	28	45	1.76
1168091--1168123	17	1.9	17	88	11	50	45	15	15	24	1.84
1168046--1168424	92	4.1	93	98	0	726	46	18	12	22	1.82
1168046--1168424	185	2.0	185	97	1	724	46	18	12	22	1.82
1170131--1170220	14	5.7	14	74	23	81	42	23	25	8	1.83
1170123--1170237	33	3.5	33	95	0	212	45	20	24	9	1.81
1170130--1170242	19	6.8	18	72	23	88	43	22	24	9	1.83
1170254--1170308	14	3.6	14	73	21	56	9	25	23	41	1.83
1170238--1170308	33	2.2	33	94	0	124	8	22	25	43	1.81
1170249--1170330	33	2.5	33	89	2	119	9	25	21	42	1.84
1170261--1170349	20	4.8	20	72	19	75	12	24	19	43	1.85
1170429--1170499	33	2.2	33	92	0	115	47	18	22	11	1.80
1170681--1170735	22	2.5	22	81	0	74	20	16	40	23	1.91
1170881--1171073	20	9.6	20	82	5	219	19	19	25	35	1.95
1170881--1171073	60	3.2	60	83	0	251	19	19	25	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1176863--1176925	26	2.4	26	89	0	99	46	11	9	33	1.72
1177930--1177966	18	2.0	19	89	5	58	40	5	2	51	1.39
1179015--1179051	17	2.1	19	90	10	60	72	2	8	16	1.19
1191045--1191088	21	2.1	21	95	0	79	31	0	13	54	1.39
1191065--1191118	28	1.9	28	96	0	99	29	0	12	57	1.36
1191604--1191662	17	3.3	17	68	13	55	38	0	8	52	1.32
1194517--1194564	11	4.0	11	80	17	51	39	0	10	50	1.37
1194511--1194559	14	3.6	14	76	21	50	42	0	8	48	1.32
1194591--1194660	26	2.7	26	89	8	115	47	2	7	42	1.45
1194522--1194691	14	13.7	13	71	18	98	41	1	10	46	1.47

Tables:   1   2   3   4   5   6   7   8