genome.fa.s8645.2.7.7.80.10.50.1000.21.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: VEPZ01008645.1 Hibiscus syriacus cultivar Beakdansim tig00111621_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4138222

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

This is table  21  of  22  ( 2605 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)
3770427--3770515	32	2.8	31	78	8	90	79	0	12	7	0.92
3770439--3770510	6	11.3	6	77	20	51	81	0	11	6	0.85
3770424--3770516	15	6.2	14	71	18	55	78	0	13	7	0.95
3770513--3770600	45	2.0	45	82	8	108	38	15	29	15	1.89
3771784--3771893	37	3.0	37	89	1	168	39	19	20	21	1.93
3771896--3772539	55	11.9	55	85	3	735	28	16	25	29	1.96
3785068--3785124	21	2.7	21	76	13	62	50	5	3	40	1.42
3785261--3785334	20	3.7	20	77	12	71	51	2	2	43	1.30
3785446--3785488	16	2.6	18	78	17	56	67	0	2	30	1.03
3785446--3785487	11	3.8	11	84	9	59	69	0	2	28	1.01
3786662--3786746	29	2.9	28	81	6	98	23	31	24	20	1.98
3790948--3790987	22	1.9	21	85	10	55	40	7	2	50	1.44
3811751--3811783	2	16.5	2	93	0	57	48	0	0	51	1.00
3824012--3824137	33	3.8	33	87	0	162	32	26	14	26	1.94
3824641--3824685	23	1.9	24	86	4	65	31	0	4	64	1.13
3824663--3824700	17	2.3	17	90	4	60	36	0	5	57	1.21
3827553--3827627	28	2.7	28	91	0	114	45	17	12	25	1.82
3828667--3828722	24	2.3	24	96	0	103	28	16	16	39	1.89
3828948--3829013	30	2.2	30	88	0	96	12	31	22	33	1.91
3833921--3834227	168	1.8	169	85	2	429	21	14	28	34	1.93
3842282--3842470	94	2.0	94	96	0	351	36	10	30	22	1.87
3844636--3844680	18	2.5	18	85	7	65	35	15	24	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3858432--3858478	24	2.1	22	88	11	69	38	8	4	48	1.53
3858601--3858678	34	2.2	33	84	10	102	47	1	2	48	1.23
3858620--3858687	19	3.7	19	73	16	72	57	0	1	41	1.08
3858850--3858887	20	1.9	20	88	0	58	26	26	5	42	1.76
3870048--3870097	25	2.0	25	84	0	64	26	34	2	38	1.68
3874952--3875506	54	10.3	54	87	2	704	26	17	20	36	1.94
3875063--3875148	27	3.2	27	62	6	66	29	18	18	33	1.95
3875144--3875229	27	3.2	27	65	12	68	24	17	22	36	1.95
3875928--3875978	20	2.6	19	87	3	66	21	25	15	37	1.93
3877497--3877525	2	14.5	2	100	0	58	48	0	0	51	1.00
3902210--3902262	27	2.0	27	96	0	97	33	11	15	39	1.83
3903965--3904041	39	2.0	39	84	5	102	51	18	5	24	1.66
3904092--3904127	19	1.9	18	88	5	54	25	19	0	55	1.43
3904071--3904128	25	2.3	26	85	8	75	25	18	0	55	1.43
3904870--3905209	172	2.0	172	91	0	554	34	16	10	38	1.84
3905983--3906175	97	2.0	97	95	0	350	35	23	3	37	1.72
3908523--3908552	15	2.0	15	93	0	51	13	30	13	43	1.82
3909165--3909269	37	2.8	37	85	0	138	41	14	14	29	1.85
3913538--3914074	183	2.9	183	94	1	934	26	20	21	31	1.98
3915220--3915376	72	2.1	76	83	9	200	28	20	12	39	1.88
3915407--3915549	39	3.4	39	66	23	99	26	21	13	37	1.91
3915485--3915559	39	1.9	39	83	5	98	26	22	13	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3915462--3915780	105	3.1	104	92	2	518	30	20	12	36	1.89
3915680--3915755	36	2.1	36	90	0	116	22	21	15	40	1.90
3915955--3916480	105	5.0	104	88	3	736	33	26	18	21	1.96
3917106--3917210	37	2.8	37	85	0	138	41	14	14	29	1.85
3921460--3921556	47	2.0	49	88	4	144	15	11	29	43	1.82
3921566--3921647	31	2.6	31	79	11	87	29	14	19	36	1.92
3921796--3921887	47	1.9	48	84	2	123	9	11	33	44	1.74
3924727--3924875	75	2.0	75	90	0	235	26	19	20	33	1.97
3927083--3927122	20	2.0	20	85	0	53	65	0	20	15	1.28
3927378--3927699	163	2.0	164	85	3	434	32	16	16	34	1.92
3927328--3927700	82	4.5	82	81	4	398	31	16	18	33	1.93
3931447--3931493	21	2.2	21	88	0	67	19	2	27	51	1.58
3931456--3931505	21	2.4	21	82	0	64	20	6	24	50	1.70
3932040--3932098	28	2.0	30	83	6	77	47	0	3	49	1.18
3932566--3933017	225	2.0	225	99	0	888	28	20	18	32	1.96
3933156--3933186	12	2.6	12	89	0	53	41	22	19	16	1.89
3933952--3934017	24	2.8	24	74	2	71	27	24	25	22	2.00
3937583--3937633	16	3.1	16	78	10	57	47	0	0	52	1.00
3938201--3938388	96	1.9	98	80	10	222	43	15	6	34	1.73
3938324--3938548	39	5.8	39	75	7	197	42	12	6	38	1.68
3938328--3938548	79	2.8	78	80	7	227	41	12	6	39	1.69
3938477--3938707	97	2.4	96	80	3	241	36	11	10	41	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3938751--3939082	58	5.7	55	76	12	231	45	12	5	37	1.64
3938858--3939107	116	2.1	116	80	9	269	44	12	6	36	1.68
3938931--3939124	58	3.3	58	82	6	230	45	13	5	35	1.67
3939236--3939355	45	2.7	45	80	7	136	40	15	7	36	1.75
3939554--3939585	14	2.3	14	94	0	55	56	12	3	28	1.51
3940785--3940824	21	1.9	21	85	10	55	45	10	10	35	1.71
3941628--3941682	20	2.5	23	80	8	71	52	12	14	20	1.73
3950474--3950516	16	2.7	16	92	0	77	60	4	0	34	1.17
3951290--3951335	17	2.8	17	83	3	58	45	0	2	52	1.13
3951733--3951843	42	2.8	40	79	12	122	48	0	0	50	1.06
3951757--3951818	16	4.3	15	70	19	51	45	1	0	53	1.10
3951746--3951822	23	3.6	23	70	21	67	45	1	0	53	1.08
3951751--3951833	42	2.0	42	92	0	139	49	1	0	49	1.08
3951802--3951876	25	2.9	25	77	15	73	53	1	1	44	1.17
3951832--3951864	14	2.5	13	95	5	57	54	0	0	45	0.99
3951856--3951905	22	2.1	22	82	10	55	52	0	2	46	1.12
3951984--3952076	10	9.0	10	67	22	50	50	1	0	48	1.07
3951953--3952076	54	2.4	53	80	11	132	50	2	0	45	1.20
3951965--3952097	41	3.2	42	75	9	112	51	1	0	46	1.15
3952039--3952101	27	2.5	26	80	14	69	50	0	0	49	1.00
3962417--3962521	50	2.0	53	85	7	144	43	14	21	20	1.87
3963370--3963394	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3967243--3967292	26	1.9	26	84	8	66	48	2	2	48	1.24
3967289--3968099	343	2.4	333	90	4	1257	44	6	5	43	1.53
3968335--3968407	37	2.0	37	91	0	119	19	30	35	15	1.92
3968899--3968974	35	2.2	35	92	0	125	39	23	1	35	1.63
3969371--3969618	130	1.9	130	94	0	433	36	15	12	35	1.85
3969385--3969649	130	2.0	129	83	4	327	40	13	12	33	1.82
3969855--3969919	25	2.6	25	97	0	121	46	3	3	47	1.33
3971885--3971923	20	2.0	20	94	0	69	10	5	20	64	1.44
3976038--3976112	33	2.4	31	86	8	98	40	9	8	42	1.66
3976038--3976112	31	2.3	33	86	8	102	40	9	8	42	1.66
3975967--3976294	35	9.3	35	75	12	203	45	6	4	43	1.51
3975968--3976294	37	9.3	36	74	13	184	44	6	4	43	1.52
3976240--3976265	13	2.0	13	100	0	52	46	7	7	38	1.61
3976906--3977790	84	10.7	84	78	5	888	23	19	26	29	1.98
3976916--3977806	248	3.6	248	84	3	1188	24	20	26	29	1.99
3977128--3977806	165	4.1	165	91	1	1087	24	20	26	29	1.99
3985068--3985097	15	2.0	15	93	0	51	10	6	40	43	1.64
3994903--3994937	6	5.8	6	96	0	61	54	0	45	0	0.99
3996153--3996263	10	10.2	10	67	19	62	58	18	10	12	1.62
3996729--3996853	60	2.1	60	82	8	148	34	12	13	39	1.83
3997410--3997472	3	21.0	3	96	0	117	65	0	1	33	1.03
3998166--3998201	6	5.7	6	93	6	54	27	0	72	0	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3998166--3998205	7	6.0	7	97	2	66	30	0	70	0	0.88
4014203--4014318	59	2.0	60	84	6	157	31	14	14	38	1.87
4017796--4017852	25	2.3	24	88	11	80	66	5	12	15	1.41
4020078--4020110	15	2.1	16	88	5	50	57	0	27	15	1.38
4026088--4026422	36	8.9	36	77	12	261	45	6	3	45	1.46
4026193--4026411	110	2.0	110	80	8	243	45	6	4	43	1.49
4026364--4026481	36	3.4	34	73	14	80	44	6	1	46	1.39
4026389--4026448	25	2.4	25	94	0	102	45	8	0	46	1.33
4030260--4030308	22	2.2	23	79	17	59	48	4	0	46	1.20
4030353--4030422	31	2.2	29	77	20	70	47	0	4	48	1.21

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