genome.fa.s9576.2.7.7.80.10.50.1000.6.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: 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  6  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)
1025457--1025507	23	2.3	23	93	3	86	19	31	21	27	1.97
1027688--1027745	24	2.5	24	94	5	102	17	46	22	13	1.83
1027787--1027843	23	2.5	23	97	2	107	17	45	22	14	1.84
1027683--1027917	98	2.4	98	98	1	454	23	34	26	15	1.95
1030900--1030975	21	3.6	21	78	0	80	38	26	15	19	1.92
1031234--1031294	31	2.0	30	81	9	70	37	18	8	36	1.80
1033970--1034032	20	2.9	21	79	9	65	15	25	34	23	1.95
1037777--1037816	21	1.9	21	85	10	55	35	7	5	52	1.51
1040801--1040848	21	2.3	20	85	7	60	29	12	4	54	1.56
1040827--1040860	14	2.3	15	90	5	52	26	11	5	55	1.58
1041365--1041405	17	2.2	18	87	12	57	19	9	4	65	1.40
1041363--1041408	19	2.4	20	75	20	53	21	8	4	65	1.38
1043006--1043072	29	2.3	29	94	0	116	19	23	16	40	1.91
1044843--1045272	2	218.5	2	62	22	65	46	3	4	45	1.40
1044895--1044937	13	3.3	13	96	0	77	53	4	2	39	1.34
1044847--1044978	11	12.5	11	66	20	59	46	4	3	44	1.41
1044922--1045020	20	4.8	20	70	16	76	47	3	2	47	1.29
1044895--1045073	11	16.4	11	67	16	63	46	3	2	46	1.35
1045111--1045143	15	2.3	15	90	10	52	48	9	6	36	1.60
1045150--1045262	15	7.3	15	71	15	54	48	1	3	46	1.29
1045112--1045272	79	2.0	79	93	0	277	49	2	4	43	1.37
1045112--1045319	79	2.6	77	85	6	240	48	2	6	42	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1045369--1045449	7	11.6	7	77	0	72	46	29	1	22	1.59
1045374--1045449	28	2.7	27	84	8	82	46	28	1	23	1.61
1045471--1045544	37	2.1	36	84	5	96	43	9	8	39	1.67
1045471--1045633	55	2.9	56	85	7	204	43	9	6	40	1.63
1045531--1045625	20	4.9	20	73	7	81	45	7	4	43	1.51
1045551--1045585	13	2.6	13	90	4	52	48	8	2	40	1.49
1045529--1045591	33	1.9	33	90	6	101	47	6	4	41	1.50
1045502--1045642	57	2.5	57	87	4	198	43	9	5	41	1.60
1045668--1045741	21	3.5	21	84	0	103	39	8	5	47	1.56
1045728--1045778	22	2.3	21	83	9	75	39	1	7	50	1.42
1045752--1045802	15	3.3	15	76	15	59	43	1	3	50	1.31
1045752--1045973	65	3.4	67	78	14	214	42	4	3	50	1.39
1045825--1045935	31	3.5	31	78	18	104	43	5	2	48	1.40
1048377--1048435	21	2.9	21	92	2	93	20	28	32	18	1.96
1049784--1049810	14	1.9	14	100	0	54	48	0	7	44	1.31
1049900--1049947	19	2.5	20	82	3	62	29	12	6	52	1.63
1051204--1051293	19	4.6	20	88	4	121	14	28	35	21	1.92
1053367--1053420	23	2.3	23	90	0	81	22	12	27	37	1.91
1056125--1056156	16	2.0	16	100	0	64	25	31	0	43	1.55
1056599--1056652	23	2.3	23	90	0	81	22	12	27	37	1.91
1060820--1060936	19	6.5	19	68	22	74	58	1	5	34	1.33
1060821--1060936	37	3.2	36	69	20	107	57	1	6	34	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1060805--1060941	71	1.9	71	88	5	206	56	2	5	35	1.33
1060940--1060993	27	2.0	26	82	10	65	50	3	1	44	1.30
1062650--1063349	210	3.3	210	88	1	945	34	16	21	28	1.95
1068506--1068582	2	38.5	2	100	0	154	50	0	0	49	1.00
1068721--1068763	21	2.0	21	86	0	59	55	4	0	39	1.20
1069252--1069439	29	6.6	29	78	5	168	46	16	2	34	1.59
1069447--1069482	18	2.0	18	100	0	72	11	22	50	16	1.77
1077897--1077935	17	2.3	17	86	0	51	12	2	25	58	1.47
1078577--1078631	20	2.6	21	88	5	85	16	43	25	14	1.86
1085209--1085299	43	2.1	43	95	0	164	31	17	13	37	1.88
1093520--1093569	24	2.1	24	96	0	91	46	6	8	40	1.58
1095128--1095158	16	2.0	15	93	6	53	67	6	0	25	1.14
1097082--1097141	21	2.7	23	70	17	54	35	28	15	21	1.93
1103002--1103056	22	2.5	22	80	8	67	30	18	12	38	1.88
1103015--1103057	23	1.9	22	90	4	68	30	20	11	37	1.89
1106704--1106782	22	3.6	22	91	0	131	32	21	17	27	1.96
1106697--1106782	44	2.0	44	92	0	145	31	22	19	26	1.98
1107241--1107310	33	2.1	33	89	0	104	31	15	31	21	1.95
1108241--1108342	17	5.9	16	72	15	71	41	8	12	37	1.75
1108241--1108342	35	2.9	34	80	8	109	41	8	12	37	1.75
1108435--1108473	20	2.0	20	85	5	53	61	10	0	28	1.28
1115076--1115143	23	3.0	23	82	0	82	17	23	26	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1117310--1117347	17	2.1	19	85	9	53	63	0	18	18	1.32
1118019--1118092	15	5.3	15	72	18	79	43	6	21	28	1.78
1118019--1118092	27	2.7	27	95	0	139	43	6	21	28	1.78
1120635--1120664	2	15.0	2	100	0	60	50	0	0	50	1.00
1130291--1130327	18	2.1	18	100	0	74	5	16	21	56	1.59
1130773--1130813	21	2.0	21	90	0	64	43	0	14	41	1.45
1131172--1131212	19	2.1	20	90	4	66	48	21	7	21	1.74
1132503--1132546	20	2.2	20	87	0	61	59	15	13	11	1.62
1134825--1134981	63	2.5	62	84	2	179	39	19	8	31	1.83
1135227--1135341	6	19.3	6	78	1	70	6	8	42	41	1.62
1135227--1135341	12	9.7	12	76	1	79	6	8	42	41	1.62
1135248--1135329	30	2.7	30	83	7	103	7	4	43	43	1.53
1135266--1135338	24	3.1	23	82	5	92	6	6	45	41	1.57
1135574--1135799	103	2.2	101	85	6	294	33	7	27	31	1.86
1136006--1136143	62	2.2	61	85	2	204	35	10	6	47	1.63
1136236--1136595	18	20.2	18	69	16	205	41	6	6	45	1.56
1136174--1136579	58	7.5	58	77	14	325	42	5	6	45	1.54
1136247--1136519	33	8.7	32	72	17	182	42	6	7	44	1.57
1136339--1136387	25	2.0	25	87	0	71	40	8	8	42	1.64
1136396--1136539	68	2.1	70	93	5	249	42	4	6	46	1.50
1136443--1136738	9	32.8	9	65	25	67	42	4	6	46	1.50
1136428--1136738	18	17.3	18	68	21	111	42	4	6	46	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1136677--1136749	18	4.3	18	75	22	54	46	2	5	45	1.40
1136396--1136738	2	165.0	2	64	24	81	42	4	6	46	1.50
1136782--1136921	18	7.5	19	70	23	75	42	7	8	41	1.64
1136807--1136969	18	8.7	18	75	19	120	41	7	7	42	1.62
1136806--1136940	42	3.3	41	80	13	161	42	6	8	42	1.60
1136805--1136922	38	3.0	39	81	12	150	41	7	8	42	1.64
1136905--1136979	18	4.2	17	75	11	62	44	5	6	44	1.53
1136953--1137019	33	2.1	32	91	2	107	50	4	5	38	1.47
1136801--1137050	133	1.9	131	79	8	283	45	5	6	42	1.54
1136984--1137064	25	3.4	25	75	16	91	50	3	4	40	1.42
1136983--1137032	13	3.8	13	77	17	59	54	2	6	38	1.37
1136970--1137057	45	2.0	45	95	0	158	52	2	5	39	1.38
1136970--1137070	20	4.8	20	74	11	85	52	2	4	39	1.38
1137043--1137077	18	1.9	18	88	0	52	45	2	5	45	1.41
1137118--1137148	9	3.4	9	90	0	53	35	3	9	51	1.51
1137118--1137199	20	4.1	20	74	20	73	39	6	9	45	1.62
1137176--1137229	11	5.2	11	75	8	51	33	1	12	51	1.51
1137313--1137445	26	5.3	24	70	20	87	47	3	3	45	1.36
1137365--1137446	11	7.8	10	69	17	51	47	2	3	46	1.33
1137415--1137446	11	2.9	11	90	0	55	46	3	0	50	1.17
1137494--1137531	20	1.9	19	89	5	58	34	7	10	47	1.67
1137478--1137541	20	3.3	20	78	8	53	43	4	6	45	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1137525--1137582	11	5.2	11	76	17	57	51	3	3	41	1.35
1137518--1137576	29	2.1	28	87	3	82	47	3	5	44	1.42
1137578--1137641	22	3.0	21	68	25	53	40	6	4	48	1.49
1137766--1138649	210	4.2	216	90	3	1348	30	12	7	49	1.68
1137766--1138651	425	2.1	426	89	1	1386	30	12	7	49	1.68
1139425--1139536	56	2.0	56	98	0	215	42	8	13	34	1.75
1140854--1140988	20	6.7	20	80	7	121	33	24	17	24	1.96
1140851--1140982	61	2.2	61	87	0	165	35	24	16	23	1.95
1141156--1141199	22	2.0	22	95	0	79	20	45	15	18	1.85
1141443--1141506	20	3.2	20	84	0	74	15	18	20	45	1.86

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