genome.fa.s8061.2.7.7.80.10.50.1000.6.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: VEPZ01008061.1 Hibiscus syriacus cultivar Beakdansim tig00110556_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5800122

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   

This is table  6  of  26  ( 3118 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)
1000274--1000308	13	2.8	13	95	4	63	31	17	37	14	1.89
1000324--1000516	32	6.2	32	81	13	201	33	21	33	10	1.88
1000322--1000517	93	2.1	91	96	2	356	33	21	33	11	1.90
1000322--1000516	61	3.2	64	84	10	248	33	21	33	11	1.89
1000548--1000656	29	3.8	29	92	2	175	14	30	32	22	1.94
1000699--1000771	36	2.0	36	100	0	146	16	46	13	23	1.82
1000776--1000810	18	1.9	18	100	0	70	28	17	25	28	1.97
1000915--1000960	23	2.0	23	100	0	92	47	4	39	8	1.54
1000964--1001029	4	16.5	4	76	9	55	63	0	34	1	1.04
1000915--1000975	23	2.6	23	86	5	59	50	6	36	6	1.54
1000963--1001021	21	2.9	21	94	2	102	62	0	35	1	1.05
1001156--1001244	41	2.2	41	78	8	92	42	1	10	46	1.45
1001225--1001315	45	2.0	47	87	8	134	41	0	12	46	1.41
1001184--1001315	45	3.0	44	80	14	132	40	0	12	46	1.41
1001472--1001518	16	3.0	16	84	9	53	29	0	10	59	1.31
1001493--1001523	15	2.1	14	94	5	53	38	0	6	54	1.26
1003671--1003703	17	1.9	17	93	0	57	45	12	6	36	1.66
1003801--1004145	26	12.9	26	72	21	168	45	9	2	43	1.47
1003823--1003858	11	3.4	11	88	3	56	58	5	0	36	1.22
1003822--1003998	97	1.8	98	84	6	243	46	8	1	43	1.44
1003800--1004203	123	3.3	124	94	2	681	45	9	1	43	1.47
1007028--1007078	26	2.0	26	88	7	77	39	3	9	47	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1007891--1007953	28	2.2	30	91	5	103	57	11	0	31	1.34
1007895--1007960	28	2.4	28	85	10	98	56	10	0	33	1.34
1007930--1007978	21	2.3	21	85	3	71	53	16	0	30	1.43
1008539--1008618	29	2.8	29	98	0	151	16	30	33	20	1.94
1009313--1009359	6	7.8	6	97	0	85	29	17	17	36	1.92
1010057--1010088	13	2.4	14	94	5	57	40	6	0	53	1.26
1010058--1010126	27	2.6	26	77	11	70	40	2	5	50	1.41
1011395--1011468	24	3.1	24	77	14	66	51	2	1	44	1.24
1011554--1011631	31	2.4	33	78	4	79	50	1	2	46	1.23
1013227--1013256	2	15.0	2	100	0	60	50	0	0	50	1.00
1013315--1013347	17	2.0	16	94	5	57	57	0	0	42	0.98
1013317--1013350	15	2.3	15	94	0	59	55	0	0	44	0.99
1014692--1014720	14	2.1	14	100	0	58	34	17	13	34	1.89
1020274--1020298	13	1.9	13	100	0	50	48	0	0	52	1.00
1021473--1021499	13	2.1	13	100	0	54	29	40	0	29	1.57
1022540--1022607	22	3.1	22	91	0	109	13	19	17	50	1.78
1027311--1027365	3	17.7	3	88	3	74	36	0	0	63	0.95
1027752--1027777	13	2.0	13	100	0	52	23	30	38	7	1.83
1028741--1028771	16	2.0	15	93	6	53	19	3	0	77	0.90
1031263--1031301	20	2.0	20	84	0	51	30	15	2	51	1.57
1031282--1031310	12	2.3	13	94	5	51	27	13	6	51	1.66
1037845--1037919	21	3.5	21	90	5	116	34	9	14	41	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1038580--1039259	75	9.1	76	95	3	1204	23	19	22	34	1.97
1039450--1039499	3	16.7	3	84	15	68	38	0	0	62	0.96
1039450--1039499	15	3.3	15	94	5	84	38	0	0	62	0.96
1039452--1039502	12	4.2	13	90	9	81	39	0	0	60	0.97
1039465--1039507	12	3.3	12	83	9	50	44	0	0	55	0.99
1043526--1043569	2	22.5	2	90	4	72	54	0	0	45	0.99
1043523--1043567	21	2.1	21	95	0	81	55	0	0	44	0.99
1046287--1046355	30	2.2	31	94	5	122	20	28	10	40	1.85
1047431--1047506	30	2.5	31	89	4	118	18	28	11	40	1.86
1048235--1048342	54	2.0	55	83	1	137	49	11	24	15	1.77
1048824--1048887	32	2.1	31	91	5	103	40	12	28	18	1.87
1049933--1050041	55	2.0	55	85	0	146	49	11	23	15	1.76
1049960--1050044	26	3.2	26	70	15	73	50	10	21	17	1.76
1054731--1054846	21	5.6	21	69	10	60	32	27	18	21	1.96
1054834--1055006	20	8.6	20	83	5	197	35	26	19	19	1.95
1055384--1055454	33	2.2	33	94	0	124	11	23	16	47	1.79
1055533--1055606	21	3.5	20	80	8	94	47	17	20	14	1.83
1055588--1055639	18	3.1	18	78	15	67	46	21	23	9	1.80
1055608--1055651	18	2.4	18	88	3	61	45	27	18	9	1.79
1055647--1055744	19	5.7	19	71	22	99	10	23	21	44	1.82
1055669--1055756	14	5.6	14	71	23	68	9	25	22	43	1.82
1055652--1055756	33	3.2	33	100	0	210	9	23	21	44	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1055652--1055778	66	1.9	67	91	1	211	10	24	21	44	1.83
1057466--1057775	93	3.4	93	97	0	579	21	13	19	45	1.84
1057891--1057947	14	3.7	14	72	20	51	43	24	22	8	1.81
1057905--1057996	19	5.4	18	72	24	65	46	28	17	7	1.75
1057873--1057996	33	3.7	33	91	1	185	45	27	17	8	1.78
1057922--1057980	14	3.9	14	76	20	64	47	28	16	6	1.72
1057992--1058145	19	8.6	19	72	14	130	11	20	22	46	1.82
1058014--1058070	14	3.7	14	75	20	51	10	22	22	43	1.84
1057997--1058127	33	3.8	33	83	9	172	9	20	22	47	1.79
1060054--1060089	13	2.6	14	91	8	65	30	0	22	47	1.52
1060180--1060266	19	4.8	19	81	16	114	47	16	22	13	1.82
1060180--1060285	53	2.0	53	94	3	189	45	16	23	14	1.84
1060275--1060463	19	10.7	19	77	19	212	14	21	17	46	1.84
1060275--1060477	52	3.9	52	85	10	281	13	22	18	45	1.84
1060332--1060496	33	4.8	34	79	11	192	13	20	19	46	1.83
1060313--1060463	71	2.1	72	95	1	268	13	20	17	47	1.82
1062748--1062772	12	2.1	12	100	0	50	0	28	0	72	0.86
1062947--1062993	24	2.0	24	87	8	69	38	21	14	25	1.92
1063691--1063914	20	11.2	20	85	1	234	19	18	25	36	1.94
1063882--1063979	21	4.8	20	75	10	81	21	19	21	37	1.94
1063882--1063980	42	2.4	43	77	11	100	21	19	22	37	1.94
1066292--1066326	2	17.5	2	100	0	70	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1068778--1068819	22	2.0	21	85	4	57	50	0	7	42	1.30
1076414--1076464	24	2.2	23	86	10	68	39	1	0	58	1.09
1076544--1076581	20	1.9	20	94	0	67	57	13	2	26	1.49
1079329--1079374	23	2.0	23	100	0	92	34	21	8	34	1.84
1080189--1080253	2	34.0	2	87	9	100	47	0	0	52	1.00
1080189--1080253	21	3.1	21	88	0	103	47	0	0	52	1.00
1080189--1080253	19	3.5	19	91	4	107	47	0	0	52	1.00
1080853--1080923	32	2.2	33	87	5	101	42	15	8	33	1.77
1083505--1083529	2	12.5	2	100	0	50	48	0	0	52	1.00
1088063--1088107	21	2.1	21	87	0	63	31	28	24	15	1.96
1089519--1089831	149	2.1	149	95	1	556	28	15	21	34	1.94
1091260--1091309	23	2.2	23	88	0	73	38	8	24	30	1.84
1091338--1091385	23	2.1	23	84	7	62	39	8	16	35	1.79
1091223--1091385	87	1.9	87	93	0	281	41	12	15	30	1.84
1091413--1091856	198	2.2	198	83	4	549	31	16	13	38	1.88
1094930--1095913	201	4.9	200	79	6	1105	31	14	16	37	1.89
1094932--1095936	405	2.5	403	89	3	1501	31	14	16	37	1.89
1095921--1095946	11	2.4	11	100	0	52	38	23	15	23	1.92
1097432--1098018	182	3.2	182	88	2	844	27	18	11	42	1.85
1102053--1102129	16	4.8	16	76	9	77	37	2	0	59	1.11
1102775--1102833	23	2.6	23	81	2	57	42	8	15	33	1.77
1102784--1102833	23	2.2	22	85	3	64	40	8	18	34	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1102598--1102954	157	2.3	158	91	1	563	41	11	13	33	1.80
1103034--1103276	72	3.4	70	89	3	342	39	14	11	34	1.82
1103442--1103623	90	2.0	90	89	0	274	43	12	14	28	1.82
1103584--1103778	91	2.1	91	93	0	327	43	14	13	28	1.84
1103675--1103950	116	2.4	114	87	3	401	44	13	12	29	1.80
1103843--1104040	93	2.1	93	89	4	301	43	13	12	30	1.81
1103358--1104103	207	3.6	202	80	8	803	43	13	13	30	1.81
1107245--1107296	25	2.1	25	100	0	104	48	7	11	32	1.68
1108549--1108588	18	2.2	18	100	0	80	32	5	15	47	1.66
1110104--1110138	18	1.9	18	88	0	52	28	8	25	37	1.85

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26