genome.fa.s1162.2.7.7.80.10.50.1000.6.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: VEPZ01001162.1 Hibiscus syriacus cultivar Beakdansim tig00002317_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1560963

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 971 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)
1031161--1031237	5	15.4	5	76	15	79	61	2	0	36	1.10
1031277--1031521	36	6.8	37	79	13	183	46	7	2	43	1.45
1031489--1031538	23	2.2	23	92	0	82	42	2	2	54	1.23
1032212--1032306	21	4.5	21	91	0	154	32	31	18	16	1.94
1032318--1032582	21	12.8	20	74	15	202	22	19	23	35	1.96
1032302--1032582	42	6.8	42	84	8	305	22	19	22	35	1.96
1032310--1032512	63	3.3	62	90	2	304	22	19	23	34	1.97
1033446--1033562	21	5.7	20	74	8	76	40	22	17	20	1.92
1033478--1033515	19	2.0	19	94	0	67	31	28	18	21	1.97
1036203--1036248	3	15.7	3	90	4	76	65	0	0	34	0.93
1036244--1036272	13	2.1	14	93	6	51	62	0	10	27	1.28
1036200--1036315	33	3.7	32	75	16	102	68	0	3	28	1.06
1036272--1036296	13	1.9	13	100	0	50	80	0	0	20	0.72
1036209--1036314	23	4.6	23	72	17	69	67	0	3	28	1.07
1036209--1036316	21	5.1	19	72	18	56	68	0	3	27	1.06
1037491--1037560	3	23.7	3	81	11	65	68	1	2	27	1.12
1037558--1037766	37	5.9	37	80	9	206	43	6	4	45	1.51
1039105--1039237	37	3.6	37	90	6	216	42	7	3	46	1.50
1039600--1039652	26	2.1	26	82	10	65	54	0	1	43	1.11
1049549--1049612	27	2.4	27	89	0	92	57	21	4	15	1.56
1053251--1053316	2	35.0	2	79	11	77	53	1	0	45	1.09
1053250--1053316	17	3.9	17	81	12	84	53	1	0	44	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1053258--1053316	15	3.9	15	80	8	66	52	1	0	45	1.10
1054992--1055017	2	13.0	2	100	0	52	50	0	0	50	1.00
1057855--1057914	29	2.0	30	90	6	95	33	8	16	41	1.78
1058004--1058046	21	2.0	21	90	0	68	20	37	27	13	1.91
1058080--1058121	21	2.0	21	100	0	84	14	42	28	14	1.84
1058158--1058200	21	2.0	21	95	0	77	23	20	27	27	1.99
1058228--1058267	20	1.9	22	90	10	66	37	40	10	12	1.77
1058482--1058551	34	2.1	32	86	5	95	32	14	31	21	1.93
1061368--1061427	30	2.0	30	93	6	104	33	6	16	43	1.74
1061517--1061596	22	4.0	22	73	21	75	23	36	26	13	1.92
1061523--1061596	37	2.0	37	89	0	112	24	35	25	14	1.94
1061706--1061748	21	2.0	21	95	0	77	23	20	27	27	1.99
1061776--1061815	20	1.9	22	90	10	66	37	40	10	12	1.77
1062030--1062099	34	2.1	32	89	5	104	31	15	31	21	1.95
1063858--1063941	6	14.0	6	87	0	105	41	0	8	50	1.33
1063861--1063950	24	3.7	24	89	5	126	40	0	10	50	1.36
1063858--1063941	4	21.0	4	82	0	105	41	0	8	50	1.33
1063858--1063941	10	8.4	10	90	0	105	41	0	8	50	1.33
1065326--1065826	37	14.4	37	65	22	176	32	17	8	40	1.80
1065322--1065447	66	1.9	65	83	12	161	33	15	7	42	1.76
1065326--1065689	103	3.6	103	92	1	590	32	18	8	40	1.81
1065531--1065653	65	1.9	64	80	11	144	32	18	8	40	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1065502--1065847	176	2.0	178	89	2	536	32	18	8	39	1.82
1065620--1065764	75	1.9	75	94	2	256	32	21	7	38	1.82
1066134--1066178	15	3.0	15	86	0	63	26	31	13	28	1.94
1066067--1066246	88	2.0	88	85	4	238	27	23	12	36	1.90
1066203--1066267	21	3.4	21	70	24	70	26	26	10	36	1.89
1066149--1066348	36	5.5	36	89	3	276	25	22	14	38	1.92
1066288--1066406	39	3.1	39	89	3	163	31	16	13	37	1.88
1066402--1066599	54	3.6	52	79	8	191	28	9	20	41	1.82
1066963--1067080	21	5.7	21	68	17	77	27	17	21	33	1.96
1066942--1067072	41	3.2	40	78	12	149	27	17	21	33	1.96
1066955--1067090	41	3.3	42	78	6	134	28	19	20	31	1.97
1067564--1067913	136	2.6	135	87	1	511	38	17	20	24	1.93
1067854--1067953	40	2.5	40	91	0	155	46	15	22	17	1.84
1067719--1068092	176	2.1	176	83	6	461	39	18	19	22	1.92
1067893--1068396	139	3.7	137	89	2	716	36	18	19	25	1.94
1071828--1071901	25	3.0	25	97	0	139	39	8	39	13	1.74
1077716--1077846	36	3.5	37	78	7	124	32	18	10	38	1.85
1078236--1078356	30	3.8	30	69	18	84	31	14	14	38	1.87
1078041--1078382	68	5.1	68	83	4	401	28	16	15	40	1.88
1078207--1078326	36	3.5	35	69	18	108	27	18	15	39	1.90
1079117--1079232	21	5.4	21	76	8	92	38	22	13	25	1.91
1079140--1079232	42	2.2	42	86	0	132	39	22	12	24	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1080889--1081436	138	4.0	137	87	2	720	27	30	16	25	1.96
1081627--1081659	3	11.0	3	93	0	57	33	3	0	63	1.10
1082613--1082658	23	2.0	23	91	0	74	15	15	32	36	1.88
1092248--1092308	28	2.2	28	100	0	122	40	18	24	16	1.90
1092301--1092364	32	2.0	32	96	0	119	51	6	20	21	1.69
1092525--1092563	2	19.5	2	100	0	78	51	0	0	48	1.00
1092803--1092829	4	6.8	4	100	0	54	25	0	22	51	1.48
1093982--1094077	32	3.0	32	82	0	111	26	16	17	39	1.91
1095892--1095932	19	2.1	19	90	9	64	63	0	26	9	1.25
1099788--1099837	26	2.0	24	84	7	64	18	6	6	70	1.29
1102479--1102507	15	2.0	15	93	6	51	55	20	0	24	1.44
1104777--1104828	19	2.9	18	77	8	61	15	25	34	25	1.95
1104779--1104829	17	2.8	18	79	5	59	15	25	31	27	1.96
1108607--1108646	21	1.9	21	85	10	55	35	10	2	52	1.48
1113075--1113102	14	2.0	14	100	0	56	50	28	7	14	1.69
1116363--1116426	31	2.1	31	93	0	110	21	20	17	40	1.91
1123052--1123418	37	9.9	37	77	9	324	44	3	8	42	1.53
1123238--1123400	76	2.1	78	83	8	199	46	2	9	41	1.50
1123443--1123469	2	13.5	2	100	0	54	51	0	0	48	1.00
1123477--1123528	6	8.5	6	77	10	52	17	5	0	76	0.97
1123473--1123526	19	2.8	20	79	20	62	18	5	0	75	0.98
1129507--1129541	13	2.7	13	90	0	52	28	17	17	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1129520--1129685	85	2.0	84	82	7	201	31	19	17	31	1.95
1135225--1135275	22	2.3	23	82	3	68	25	17	31	25	1.97
1136319--1136644	37	8.7	37	84	8	394	46	2	7	43	1.46
1136319--1136644	112	2.9	108	85	5	404	46	2	7	43	1.46
1136676--1136707	2	16.0	2	100	0	64	50	0	0	50	1.00
1136708--1136751	20	2.3	19	88	4	61	18	6	2	72	1.17
1140576--1140622	18	2.5	19	89	3	69	46	2	8	42	1.46
1140702--1140748	18	2.5	19	89	3	69	46	2	8	42	1.46
1140778--1140838	9	6.6	9	75	7	59	49	1	6	42	1.38
1140536--1140818	64	4.4	64	81	10	346	42	7	11	38	1.68
1140778--1140838	18	3.3	18	82	8	68	49	1	6	42	1.38
1142445--1142469	3	8.3	3	100	0	50	0	32	0	68	0.90
1144287--1144336	17	2.9	17	87	0	73	42	6	14	38	1.70
1145245--1145376	3	42.7	3	83	8	167	64	0	34	0	1.04
1149515--1149613	21	4.8	20	72	6	72	36	23	19	21	1.95
1149581--1149773	20	9.6	20	84	5	246	34	27	19	18	1.95
1150146--1150216	33	2.2	33	92	0	115	11	22	18	47	1.80
1150296--1150372	21	3.7	21	81	6	102	48	16	22	12	1.80
1150307--1150415	19	5.8	19	73	16	84	47	20	20	11	1.81
1150432--1150488	14	3.7	14	75	20	60	8	24	22	43	1.81
1150416--1150496	33	2.5	33	97	2	155	9	23	19	46	1.80
1150473--1150537	21	3.1	21	80	4	87	12	26	13	47	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1150439--1150535	20	5.2	20	70	18	91	12	24	16	46	1.81
1152246--1152278	17	1.9	17	88	11	50	24	15	15	45	1.84
1152464--1152520	14	3.7	14	72	20	51	43	24	22	8	1.81
1152446--1152569	33	3.7	33	90	1	176	45	26	17	9	1.79
1152495--1152553	14	3.9	14	74	20	55	47	27	16	8	1.76
1152478--1152569	19	5.4	19	69	24	78	46	27	17	8	1.77
1152565--1152702	19	7.8	19	68	15	107	10	19	21	48	1.78
1152570--1152700	33	3.8	33	80	9	154	9	19	22	48	1.77
1154612--1154650	14	2.7	14	92	4	60	35	0	23	41	1.55
1154753--1154847	19	5.2	19	80	17	121	45	16	24	13	1.84

Tables:   1   2   3   4   5   6   7   8   9