genome.fa.s8245.2.7.7.80.10.50.1000.15.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: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6601124

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   27   28   29   30   31   32   
          33   

This is table  15  of  33  ( 3922 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)
2886058--2886170	59	1.9	59	89	3	174	37	15	15	31	1.89
2887525--2887568	21	2.0	21	82	4	52	65	9	4	20	1.38
2887553--2887604	25	2.1	25	82	7	61	67	11	1	19	1.31
2889769--2889827	29	2.0	29	96	0	109	47	13	15	23	1.81
2893105--2893136	15	2.1	15	100	0	64	37	0	37	25	1.56
2898488--2898687	75	2.6	76	85	4	262	21	24	32	22	1.98
2899302--2899345	17	2.6	17	82	7	54	56	31	0	11	1.35
2901278--2901317	21	1.9	21	89	0	62	10	25	40	25	1.86
2901300--2901360	20	2.9	21	87	7	79	18	26	34	21	1.96
2907021--2907221	75	2.6	76	82	3	244	21	24	31	22	1.98
2910092--2910148	23	2.5	23	79	0	69	50	12	21	15	1.76
2916862--2916897	14	2.6	14	91	4	56	33	0	0	66	0.92
2916726--2917026	154	1.9	157	89	4	466	43	3	5	47	1.43
2920792--2921085	128	2.3	127	84	4	367	34	20	24	21	1.97
2920764--2921085	43	7.5	42	85	3	349	32	21	23	22	1.98
2921210--2921246	19	2.0	19	89	5	58	56	16	0	27	1.40
2923610--2923681	2	36.0	2	100	0	144	0	0	50	50	1.00
2925640--2925776	42	3.3	41	77	10	127	32	16	18	32	1.93
2925698--2925822	41	3.1	40	74	10	110	31	16	20	32	1.94
2925805--2926029	83	2.7	83	82	5	276	31	15	20	32	1.93
2925805--2926011	41	5.0	42	75	8	183	32	14	20	32	1.93
2934645--2934716	20	3.6	20	98	0	135	23	9	18	48	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2935693--2935977	43	6.6	42	71	13	161	29	15	19	36	1.92
2945426--2945518	42	2.2	42	90	3	143	26	29	18	25	1.98
2947132--2947312	42	4.3	42	80	3	161	32	20	13	33	1.92
2950597--2950688	29	3.1	29	67	29	77	44	3	18	33	1.66
2953774--2953892	36	3.2	37	79	11	138	42	3	6	47	1.46
2954033--2954083	5	10.6	5	80	16	63	37	1	0	60	1.08
2954017--2954091	12	6.3	12	77	16	59	33	1	1	64	1.11
2954033--2954095	17	3.8	16	78	15	74	34	1	0	63	1.04
2955304--2955372	18	3.9	17	75	16	68	20	7	1	71	1.18
2955423--2955454	6	5.7	6	96	3	50	15	0	0	84	0.63
2970754--2970908	38	4.2	37	74	12	156	40	4	9	45	1.57
2970881--2970941	23	2.6	23	92	7	97	47	9	3	39	1.53
2970925--2970979	28	1.9	29	88	3	85	45	7	7	40	1.60
2971006--2971068	28	2.3	27	82	17	69	33	0	1	65	1.03
2971006--2971065	14	3.9	14	71	25	50	33	0	1	65	1.03
2971019--2971087	4	15.8	4	72	21	50	27	1	0	71	0.95
2972201--2972268	29	2.3	29	97	0	127	29	14	8	47	1.75
2972330--2972373	8	5.5	8	78	10	54	20	2	0	77	0.88
2972338--2972387	15	3.3	15	80	5	64	16	4	0	80	0.87
2972330--2972378	23	2.2	23	85	3	64	20	2	0	77	0.87
2972329--2972394	31	2.1	32	91	2	107	21	3	0	75	0.93
2972327--2972380	24	2.3	23	81	15	74	20	1	0	77	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2972339--2972388	14	3.4	14	76	15	55	18	4	0	78	0.91
2975540--2975564	5	5.0	5	100	0	50	80	0	20	0	0.72
2984737--2984778	3	14.0	3	85	9	59	33	2	33	30	1.71
2987391--2987442	21	2.5	21	78	12	70	19	34	25	21	1.96
2987951--2988023	34	2.1	34	87	0	101	50	6	4	38	1.48
2988232--2988339	23	5.0	22	67	16	82	38	18	0	41	1.57
2988425--2989301	138	6.6	130	87	7	1178	33	23	21	22	1.97
2988425--2989322	266	3.4	266	92	2	1457	32	23	21	22	1.98
2988906--2989322	133	3.1	134	91	3	640	30	25	21	22	1.98
2990165--2990214	21	2.4	21	93	0	82	32	38	16	14	1.88
2992423--2992470	22	2.1	23	88	3	71	47	0	0	52	1.00
2992397--2992467	26	2.8	25	78	18	74	45	0	1	53	1.09
2992992--2993109	61	2.0	60	82	1	146	27	31	22	19	1.98
2999349--2999375	6	4.5	6	100	0	54	48	0	0	51	1.00
3006312--3006373	21	3.0	21	95	0	106	54	8	32	4	1.51
3008338--3008434	6	16.7	6	75	14	87	15	1	3	80	0.89
3008338--3008420	34	2.4	34	88	6	114	14	1	2	81	0.85
3008338--3008434	40	2.4	40	84	8	117	15	1	3	80	0.89
3008338--3008434	34	2.8	34	84	7	108	15	1	3	80	0.89
3020382--3020420	21	1.9	20	85	15	53	30	12	17	38	1.88
3025454--3025503	21	2.5	20	80	9	57	30	10	26	34	1.89
3025990--3026048	30	2.0	30	86	6	84	33	6	18	40	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3026195--3026250	24	2.3	24	84	0	76	21	16	23	39	1.92
3032951--3032991	21	1.9	22	90	5	66	17	24	24	34	1.96
3033203--3033248	18	2.6	18	85	0	65	45	2	15	36	1.58
3033495--3033540	2	23.0	2	100	0	92	50	0	0	50	1.00
3039735--3039793	21	2.9	21	89	2	93	35	6	20	37	1.79
3040297--3040361	15	4.3	15	80	7	69	32	6	20	41	1.77
3040484--3040563	24	3.4	24	72	5	74	23	21	20	35	1.96
3045712--3045786	36	2.1	35	80	11	82	18	0	6	74	1.03
3049453--3049925	54	8.8	54	89	1	664	32	19	17	30	1.95
3050668--3050713	23	2.0	23	100	0	92	47	26	4	21	1.69
3055612--3055925	54	5.8	54	91	2	479	30	19	17	32	1.95
3056609--3056652	20	2.1	21	83	4	54	45	29	2	22	1.65
3070278--3070550	132	2.1	133	97	0	512	32	14	19	34	1.91
3079195--3079324	31	4.3	29	73	17	104	43	1	6	48	1.37
3079252--3079317	11	6.5	10	72	14	55	48	0	1	50	1.10
3085906--3085945	15	2.5	17	84	12	57	62	0	15	22	1.32
3088190--3088493	30	10.2	30	74	7	181	57	8	12	21	1.61
3088232--3088513	149	1.9	149	82	2	361	58	8	12	20	1.60
3088258--3088559	149	2.0	147	80	7	333	58	9	10	20	1.59
3089305--3089381	3	26.3	3	74	10	61	63	2	5	28	1.29
3089578--3089905	131	2.5	131	84	2	417	24	18	32	24	1.97
3089580--3089777	40	4.6	42	71	14	138	24	17	32	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3089933--3090009	32	2.5	31	89	6	111	37	15	19	27	1.92
3089960--3090185	65	3.5	63	76	12	199	41	12	15	30	1.84
3091415--3091455	19	2.2	19	91	4	66	7	9	2	80	0.99
3095304--3095539	30	8.0	30	77	6	212	57	9	13	19	1.63
3095280--3095532	59	4.3	59	77	7	219	56	8	14	20	1.65
3097079--3097162	3	28.3	3	85	7	109	64	1	3	30	1.18
3097598--3097645	20	2.4	20	82	0	60	39	20	12	27	1.89
3098890--3099000	23	4.8	23	90	0	177	36	9	18	35	1.84
3098959--3099189	87	2.7	87	88	1	356	43	10	13	32	1.78
3099037--3099086	23	2.2	23	85	0	64	42	12	12	34	1.79
3098812--3099096	156	1.8	155	93	0	498	41	11	15	31	1.82
3099124--3099173	23	2.2	23	85	0	64	40	10	16	34	1.81
3099136--3099180	23	2.0	23	81	0	54	42	8	17	31	1.80
3099523--3099581	30	2.0	30	83	12	77	49	1	1	47	1.21
3099700--3099747	20	2.4	20	96	0	87	45	8	14	31	1.74
3100210--3100283	20	3.7	21	87	8	102	52	4	0	43	1.20
3100327--3100412	30	2.7	31	77	12	86	45	1	1	52	1.16
3100669--3100719	21	2.4	21	93	0	84	41	9	9	39	1.71
3102140--3102202	17	3.7	18	93	4	96	50	23	0	25	1.49
3102135--3102202	35	1.9	35	88	8	102	50	25	0	25	1.50
3104170--3104207	20	1.9	20	88	0	58	13	26	36	23	1.91
3104292--3104333	20	2.0	22	86	9	61	47	11	2	38	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3109794--3110274	197	2.4	198	89	4	749	38	14	14	32	1.87
3110362--3110412	23	2.2	23	89	0	75	35	21	5	37	1.78
3110287--3110499	87	2.5	86	95	1	374	33	16	9	40	1.81
3115647--3115679	2	17.0	2	93	6	59	51	0	0	48	1.00
3128832--3128885	24	2.3	23	78	6	56	37	9	7	46	1.64
3129862--3129900	20	2.0	20	89	0	60	33	10	17	38	1.84
3133000--3133139	70	2.0	70	100	0	280	37	31	11	20	1.88
3134890--3135130	95	2.5	96	84	4	294	32	17	24	25	1.97
3135567--3135796	79	2.9	79	92	0	372	36	10	22	30	1.88
3135719--3135825	44	2.4	44	84	4	124	34	11	23	30	1.90

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   27   28   29   30   31   32   
          33