genome.fa.s9576.2.7.7.80.10.50.1000.7.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: VEPZ01009576.1 Hibiscus syriacus cultivar Beakdansim tig00116944_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1684752

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

This is table  7  of  10  ( 1108 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)
1141643--1141697	25	2.2	24	78	15	58	20	9	18	52	1.71
1142826--1142870	18	2.5	18	88	0	72	26	44	15	13	1.83
1143352--1143418	20	3.4	20	81	2	73	38	23	22	14	1.92
1143393--1143482	33	2.7	33	94	0	153	47	22	18	11	1.80
1143391--1143487	19	5.6	19	67	22	79	46	21	19	12	1.83
1143494--1143524	14	2.3	13	94	5	53	6	12	25	54	1.62
1143525--1143580	20	2.8	19	86	7	76	16	25	23	35	1.94
1143947--1144034	41	2.1	41	85	2	122	21	40	14	22	1.90
1145448--1145483	14	2.6	14	90	0	54	30	0	22	47	1.52
1145623--1145704	19	4.3	19	92	0	137	48	15	18	17	1.81
1145703--1145743	20	2.0	20	100	0	82	14	24	26	34	1.94
1146067--1146119	20	2.7	20	90	0	79	22	20	26	30	1.98
1146109--1146158	20	2.4	21	83	3	66	18	24	18	40	1.91
1146577--1146677	19	5.3	19	93	0	166	49	15	17	16	1.80
1146676--1146716	20	2.0	20	100	0	82	14	24	26	34	1.94
1147040--1147092	20	2.7	20	90	0	79	22	20	26	30	1.98
1147082--1147131	20	2.4	21	83	3	66	18	24	18	40	1.91
1145623--1147525	973	2.0	973	99	0	3770	31	18	20	30	1.96
1149944--1150010	30	2.3	30	86	2	100	38	31	8	20	1.84
1150405--1150442	17	2.3	17	90	4	60	47	5	2	44	1.39
1150594--1150649	28	2.0	29	89	3	87	35	7	12	44	1.70
1150605--1150661	28	2.2	26	81	15	64	35	3	14	47	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1150623--1150859	96	2.5	94	85	8	286	34	9	13	43	1.76
1150807--1151094	117	2.5	117	85	2	382	33	9	13	43	1.77
1150930--1150999	29	2.4	29	90	2	113	30	4	14	51	1.61
1150959--1151120	88	1.8	89	94	1	290	35	12	12	38	1.82
1150898--1151455	268	2.1	272	97	2	1061	37	12	11	38	1.79
1151360--1151510	69	2.2	69	78	0	158	44	17	7	31	1.76
1151976--1152041	30	2.2	29	91	2	105	22	9	30	37	1.85
1152666--1152777	23	4.9	23	92	0	161	26	19	19	33	1.96
1152689--1152777	11	7.8	11	69	7	61	26	22	19	31	1.97
1153521--1153642	7	17.1	7	71	5	75	24	0	30	44	1.60
1153787--1153828	15	2.6	16	81	14	50	54	2	2	40	1.26
1154073--1154135	11	5.9	11	69	14	51	38	1	3	57	1.24
1154650--1154749	47	2.1	46	82	10	114	27	20	25	28	1.99
1158351--1158437	35	2.5	34	78	12	88	55	10	6	27	1.59
1161680--1161748	27	2.5	28	79	6	79	20	20	44	14	1.86
1163885--1163912	2	14.0	2	100	0	56	50	0	0	50	1.00
1165159--1165183	12	2.1	12	100	0	50	16	16	32	36	1.90
1166870--1166896	12	2.2	12	100	0	54	40	33	11	14	1.82
1169086--1169135	14	3.6	14	91	0	82	24	28	0	48	1.52
1169159--1169188	3	10.0	3	100	0	60	33	0	0	66	0.92
1173869--1173903	2	17.5	2	100	0	70	0	0	48	51	1.00
1177745--1177797	21	2.5	21	81	6	63	22	26	18	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1177783--1177891	20	5.4	20	80	8	116	33	18	20	27	1.96
1177744--1177922	20	8.9	20	76	9	89	29	21	18	30	1.97
1177785--1177922	20	6.9	20	78	9	106	32	19	18	28	1.96
1178451--1178529	20	3.9	21	86	5	94	51	17	18	11	1.75
1178511--1178575	14	4.3	14	73	17	58	46	21	23	9	1.80
1178506--1178586	33	2.5	33	93	0	135	46	22	20	9	1.80
1178587--1178693	20	5.8	19	72	14	98	13	23	16	46	1.82
1180385--1180663	94	3.0	93	89	5	390	22	13	18	45	1.84
1180666--1180775	19	6.0	19	83	10	131	48	21	20	9	1.77
1180784--1180878	33	2.9	33	93	0	154	9	21	22	47	1.79
1180783--1180896	19	6.5	19	70	19	104	9	21	22	46	1.80
1180864--1180904	19	2.2	19	90	0	64	12	19	21	46	1.82
1181318--1181398	42	1.9	42	84	0	108	20	39	17	22	1.92
1181376--1181434	20	3.0	20	74	0	64	22	37	20	20	1.95
1182833--1182898	19	3.7	19	73	22	63	45	22	21	10	1.82
1182865--1182908	19	2.3	19	96	0	79	43	27	15	13	1.85
1182908--1183067	33	4.8	33	93	0	248	11	23	17	46	1.81
1182943--1183087	19	8.4	19	68	21	95	13	23	18	44	1.85
1183040--1183094	20	2.8	19	83	2	65	18	21	21	38	1.94
1185555--1185607	24	2.3	23	87	9	81	39	20	18	20	1.92
1186451--1186608	20	8.0	21	81	9	147	26	20	18	34	1.95
1186451--1186597	81	1.8	78	82	7	188	25	20	17	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1186558--1186591	17	2.0	17	94	0	59	20	17	17	44	1.87
1186466--1186608	37	3.6	39	76	10	123	25	20	18	34	1.96
1188988--1189133	72	2.0	72	100	0	292	26	24	18	30	1.98
1196590--1196639	16	3.1	17	83	13	61	32	0	0	68	0.90
1196563--1196638	29	2.5	29	85	8	89	30	0	2	67	1.05
1201890--1201931	18	2.3	18	91	0	66	35	16	16	30	1.92
1202231--1202272	18	2.3	18	91	0	66	35	16	16	30	1.92
1201634--1202319	341	2.0	345	98	1	1335	28	16	19	35	1.94
1203241--1203325	42	2.0	43	97	2	163	25	7	14	52	1.66
1203830--1203955	60	2.1	60	87	0	180	40	7	9	42	1.67
1205094--1205141	14	3.2	14	78	16	60	56	27	12	4	1.54
1205351--1205430	27	3.1	27	58	17	62	31	6	10	52	1.59
1205351--1205457	49	2.2	50	96	3	200	30	6	12	50	1.65
1205365--1205444	27	3.1	27	66	23	82	35	6	11	47	1.64
1206357--1206411	2	28.5	2	92	7	96	49	0	0	50	1.00
1206355--1206411	17	3.4	17	95	2	98	49	0	0	50	1.00
1207519--1207561	20	2.3	19	84	11	61	23	27	9	39	1.85
1207524--1207561	20	1.9	20	94	0	67	23	26	10	39	1.87
1212588--1212627	20	2.0	20	100	0	80	40	25	5	30	1.77
1212725--1212772	21	2.3	20	88	0	60	45	12	2	39	1.54
1212723--1212757	14	2.5	14	85	0	52	45	14	0	40	1.45
1224515--1224672	78	2.0	76	84	11	205	38	4	6	50	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1224688--1224737	21	2.4	21	75	0	55	58	2	0	40	1.10
1224710--1224774	32	2.1	31	82	2	76	49	10	0	40	1.38
1226252--1226292	18	2.3	18	91	0	64	21	46	17	14	1.84
1228850--1228975	48	2.6	48	90	5	200	27	13	19	38	1.90
1228850--1228968	24	5.0	24	88	4	177	26	14	20	38	1.91
1229084--1229177	42	2.2	43	94	1	163	17	9	36	37	1.82
1231510--1231556	20	2.3	20	85	0	67	44	6	25	23	1.77
1233272--1233335	19	3.4	19	88	0	92	51	23	14	10	1.73
1233331--1233462	19	7.1	19	79	11	85	12	22	20	43	1.86
1233345--1233453	19	5.9	19	77	17	95	12	23	22	41	1.88
1235544--1235708	42	3.9	41	76	7	152	23	36	16	23	1.94
1235545--1235708	84	2.0	84	95	0	292	23	37	17	22	1.94
1235545--1235746	84	2.4	84	86	1	226	23	35	17	23	1.96
1237043--1237078	14	2.6	14	95	0	63	30	0	25	44	1.54
1237185--1237231	19	2.5	19	92	0	76	42	21	23	12	1.87
1237260--1237386	33	3.9	32	83	8	175	15	22	18	43	1.88
1237253--1237385	66	2.0	66	94	0	230	17	21	18	42	1.89
1239679--1239715	12	3.1	12	100	0	74	0	27	0	72	0.84
1239890--1239944	25	2.2	24	90	3	83	41	21	14	21	1.89
1241052--1241139	20	4.4	20	77	5	106	39	23	20	15	1.91
1241170--1241243	19	4.5	16	83	16	66	13	20	18	47	1.82
1241166--1241233	19	3.8	19	87	12	101	13	22	17	47	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1243258--1243328	20	3.6	20	82	1	81	42	22	21	14	1.88
1243317--1243374	14	3.9	14	79	16	71	50	24	15	10	1.75
1243301--1243379	32	2.4	33	91	2	133	48	22	17	11	1.79
1243386--1243448	18	3.7	18	75	18	71	12	20	22	44	1.85
1243433--1243487	20	2.8	19	83	8	65	16	23	23	36	1.94
1243969--1244013	18	2.5	18	88	0	72	13	15	44	26	1.83
1245333--1245406	20	3.8	20	81	1	69	43	22	17	16	1.88
1245640--1245683	22	2.0	22	90	0	70	18	9	45	27	1.79
1245851--1246005	20	7.7	20	79	6	134	25	16	23	34	1.96
1245851--1246004	61	2.5	61	80	3	168	25	16	24	33	1.96

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