genome.fa.s9267.2.7.7.80.10.50.1000.6.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: VEPZ01009267.1 Hibiscus syriacus cultivar Beakdansim tig00112925_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1725308

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

This is table  6  of  10  ( 1110 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)
1071872--1071952	22	3.9	21	79	11	94	39	2	0	58	1.12
1071867--1071952	41	2.1	42	97	2	165	41	2	0	55	1.12
1071881--1071959	21	3.8	20	72	12	70	39	1	1	58	1.14
1074016--1074079	17	3.4	17	70	25	56	42	3	0	54	1.16
1074013--1074100	41	2.1	42	97	2	169	42	2	0	55	1.12
1074012--1074100	21	4.3	22	79	11	98	42	2	0	55	1.12
1081178--1081220	21	2.0	21	81	0	50	27	27	25	18	1.98
1081871--1081939	23	3.0	24	78	6	79	21	26	23	28	1.99
1082650--1082782	26	5.0	26	70	14	101	37	9	15	37	1.80
1082633--1082794	81	2.0	80	92	3	272	40	8	13	37	1.75
1082720--1082946	94	2.4	94	89	2	357	35	9	14	40	1.79
1082853--1083111	144	1.8	142	92	1	437	39	8	13	38	1.74
1082852--1083101	69	3.6	69	82	7	315	40	8	14	37	1.76
1086237--1086278	22	1.9	22	85	9	59	42	2	0	54	1.13
1086279--1086303	2	12.5	2	100	0	50	52	0	0	48	1.00
1086717--1086794	3	26.0	3	100	0	156	66	0	0	33	0.92
1089769--1089985	28	7.6	28	78	12	185	52	11	14	22	1.72
1089764--1089992	86	2.7	85	80	8	243	54	11	13	20	1.70
1089692--1089985	57	5.2	58	76	12	204	53	10	14	21	1.70
1091287--1091323	17	2.2	17	90	0	56	10	21	32	35	1.88
1091768--1091806	18	2.2	18	90	0	60	12	20	30	35	1.90
1091251--1092224	481	2.0	482	92	7	1623	37	12	15	34	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1094828--1094856	12	2.3	13	94	5	51	31	0	0	68	0.89
1097802--1097853	27	2.0	26	84	3	68	84	3	9	1	0.82
1099679--1099738	22	2.8	22	80	5	70	36	15	23	25	1.93
1099745--1099789	19	2.4	20	82	10	51	42	17	17	22	1.89
1099611--1099830	95	2.3	94	80	7	230	37	15	21	25	1.93
1100149--1100536	54	7.2	54	90	0	575	28	17	20	33	1.96
1100560--1100746	59	3.2	58	89	3	277	35	11	19	33	1.88
1102456--1102510	27	1.9	28	82	10	67	16	32	1	49	1.56
1103147--1103186	3	13.3	3	89	10	64	65	0	0	35	0.93
1103154--1103184	16	1.9	16	100	0	62	64	0	0	35	0.94
1104818--1105060	85	2.9	84	88	0	324	34	20	18	25	1.96
1108355--1108411	22	2.8	20	78	17	64	36	0	5	57	1.21
1108355--1108411	14	4.1	14	75	16	57	36	0	5	57	1.21
1108359--1108427	32	2.1	33	84	7	88	34	2	4	57	1.33
1114932--1114956	6	4.2	6	100	0	50	16	16	16	52	1.76
1122312--1122343	10	3.2	10	95	0	55	81	0	6	12	0.87
1123216--1123509	129	2.3	133	84	8	392	34	18	20	26	1.96
1123349--1124123	234	3.3	236	89	4	1182	35	17	20	26	1.95
1124043--1124212	89	1.9	88	82	9	211	41	15	17	25	1.88
1123810--1124449	323	2.0	324	83	8	831	37	17	19	26	1.93
1124573--1124626	17	3.1	18	78	5	67	37	1	3	57	1.27
1126131--1126164	10	3.4	10	83	0	50	23	5	2	67	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1127849--1127881	16	2.1	16	94	0	57	57	21	12	9	1.62
1129577--1129617	18	2.3	18	84	16	50	19	41	21	17	1.90
1132056--1132171	48	2.4	48	85	5	155	24	14	18	42	1.88
1132060--1132171	24	4.7	24	85	6	138	24	15	19	41	1.90
1132108--1132181	24	3.1	24	82	3	78	22	13	18	44	1.85
1136515--1136554	21	1.9	21	89	0	62	15	27	25	32	1.95
1139225--1139298	16	4.6	16	91	0	121	27	25	4	43	1.72
1141200--1141275	37	2.1	37	100	0	152	40	13	21	25	1.89
1141706--1141772	3	22.0	3	85	8	91	29	0	4	65	1.12
1142356--1142386	13	2.4	13	94	0	53	83	9	6	0	0.79
1142981--1143027	20	2.4	19	80	16	51	25	2	14	57	1.49
1144770--1144817	25	2.0	24	88	8	71	45	2	4	47	1.33
1144781--1144835	25	2.1	27	86	10	78	52	3	5	38	1.42
1148469--1148518	15	3.2	16	80	11	59	68	6	24	2	1.23
1148469--1148512	16	2.9	15	86	6	54	65	6	25	2	1.28
1150010--1150322	91	3.3	90	75	16	328	30	17	11	39	1.85
1150021--1150470	195	2.3	195	94	1	791	31	17	12	39	1.86
1150440--1150678	105	2.3	103	82	8	288	30	18	11	39	1.86
1150651--1150749	37	2.8	35	78	4	110	35	17	12	35	1.87
1151000--1151185	29	6.6	27	89	7	234	29	10	16	43	1.82
1150993--1151185	58	3.4	57	85	8	261	29	10	16	43	1.82
1151232--1151429	30	6.1	30	71	15	153	32	10	13	43	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1151144--1151306	90	1.8	88	86	5	238	31	10	15	42	1.81
1151243--1151474	67	3.5	67	95	1	396	31	11	13	43	1.79
1151278--1151466	37	5.5	37	67	17	138	31	11	12	44	1.78
1152090--1152201	31	3.6	31	66	13	88	34	19	10	34	1.87
1152059--1152193	61	2.2	62	97	2	263	33	20	12	34	1.90
1152255--1152331	28	2.6	28	80	13	93	23	14	14	48	1.80
1152377--1152704	40	7.5	40	68	20	151	25	32	18	23	1.97
1152409--1152615	43	4.7	43	72	14	154	25	33	19	21	1.97
1152358--1152721	133	2.7	133	91	1	550	25	33	18	22	1.97
1152916--1152970	3	18.0	3	85	10	76	30	0	3	65	1.10
1153546--1153577	14	2.3	14	94	0	55	84	9	6	0	0.78
1154145--1154191	20	2.4	19	80	16	51	25	2	14	57	1.49
1157056--1157374	138	2.3	138	91	0	521	31	23	21	22	1.98
1157259--1157477	117	1.9	116	89	0	339	33	21	24	21	1.97
1160611--1160665	22	2.3	24	81	9	69	49	0	0	50	1.00
1160632--1160672	20	2.0	20	85	4	55	51	0	0	48	1.00
1161412--1161516	37	2.8	37	82	0	138	39	14	15	31	1.87
1162199--1162250	17	2.8	19	81	16	56	23	3	5	67	1.29
1162682--1162814	4	33.0	4	73	19	64	26	2	2	69	1.12
1162704--1162821	11	10.1	11	69	19	62	22	2	3	72	1.12
1162756--1162822	23	2.7	23	79	9	71	17	0	2	79	0.86
1162753--1162823	27	2.7	26	84	4	88	18	0	2	78	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1162756--1162836	24	3.2	25	79	16	87	19	2	2	75	1.03
1163960--1163997	19	2.0	20	89	5	60	7	23	0	68	1.16
1167417--1167453	17	2.2	17	90	0	56	83	5	8	2	0.88
1168048--1168102	22	2.5	22	96	0	101	38	27	10	23	1.88
1169054--1170011	106	9.0	106	90	0	1441	33	24	17	23	1.96
1170740--1170844	37	2.8	37	83	0	138	40	13	14	32	1.84
1171470--1171562	17	5.0	17	70	23	55	22	4	3	69	1.20
1171441--1171562	56	2.1	57	81	18	146	23	4	3	68	1.25
1171459--1171572	52	2.3	48	76	13	106	26	3	3	66	1.24
1172112--1172159	18	2.4	21	80	13	57	20	16	0	62	1.33
1175025--1175060	17	2.1	17	89	0	54	58	5	0	36	1.22
1176818--1176862	18	2.5	17	82	10	54	4	37	2	55	1.32
1176814--1176900	33	2.6	33	83	3	104	2	37	3	56	1.29
1177760--1177803	21	2.1	21	83	8	54	54	9	6	29	1.58
1178004--1178052	13	3.8	13	88	0	80	28	20	18	32	1.96
1178030--1178193	84	2.0	84	82	9	201	31	19	18	30	1.96
1178219--1178253	2	17.5	2	100	0	70	48	0	0	51	1.00
1182938--1183142	31	6.6	31	95	0	365	39	22	18	20	1.93
1184092--1184160	18	3.9	17	75	17	70	24	33	26	15	1.95
1194948--1194981	18	1.9	17	88	5	50	64	5	0	29	1.17
1197910--1198018	28	3.9	28	71	4	94	35	22	18	23	1.95
1200415--1200478	27	2.4	27	80	10	71	59	1	4	34	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1200472--1200522	26	1.9	26	84	11	68	50	1	0	47	1.12
1200516--1200561	23	2.0	24	82	4	58	47	0	2	50	1.13
1202370--1202394	13	1.9	13	100	0	50	48	4	0	48	1.20
1210716--1210765	24	2.1	24	88	0	73	58	6	26	10	1.54
1212226--1212299	21	3.6	21	72	3	78	20	18	25	35	1.96
1212222--1212331	41	2.7	41	92	1	177	20	18	23	38	1.93
1212359--1212458	21	5.0	21	71	14	77	18	19	25	38	1.93
1212396--1212430	17	2.1	17	94	0	61	11	25	20	42	1.85
1212367--1212511	21	7.2	21	69	15	67	19	18	22	40	1.92
1212451--1212514	19	3.2	19	70	12	56	20	15	20	43	1.87

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