genome.fa.s7960.2.7.7.80.10.50.1000.15.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: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7905731

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   34   35   36   37   38   39   

This is table  15  of  39  ( 4646 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)
2882536--2883786	259	4.8	258	89	3	1849	34	16	15	34	1.90
2883558--2883659	42	2.5	41	77	7	118	32	19	21	26	1.97
2889239--2889635	54	7.4	54	85	1	483	27	18	20	32	1.97
2896270--2896592	54	6.0	54	88	1	450	28	18	20	32	1.96
2896894--2897092	95	2.1	95	83	7	244	27	20	12	39	1.89
2901841--2901889	23	2.2	22	81	3	53	55	2	0	42	1.11
2904537--2904565	13	2.1	14	93	6	51	75	0	0	24	0.80
2904537--2904578	19	2.2	19	86	0	57	71	0	2	26	0.98
2906625--2906665	20	2.0	20	90	0	64	14	12	17	56	1.68
2915214--2915275	7	9.0	7	72	22	51	29	41	1	27	1.65
2915215--2915275	21	3.0	21	82	2	79	29	42	1	26	1.65
2915208--2915275	27	2.5	28	81	13	79	30	39	1	27	1.66
2916963--2917007	2	22.5	2	100	0	90	51	0	0	48	1.00
2919058--2919311	127	1.9	131	86	7	365	40	5	16	37	1.72
2928858--2928882	12	2.1	12	100	0	50	44	8	32	16	1.76
2940284--2940381	18	5.6	18	68	17	55	63	3	0	33	1.10
2940281--2940369	11	8.2	11	70	20	55	62	2	0	34	1.07
2941636--2941696	3	20.0	3	83	9	79	60	0	0	39	0.97
2941642--2941696	22	2.5	22	97	2	103	60	0	0	40	0.97
2941827--2942854	76	13.5	76	96	0	1867	35	21	20	22	1.96
2943529--2943584	23	2.5	22	85	5	85	39	14	8	37	1.77
2948430--2948457	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2950696--2950736	21	2.0	21	95	0	73	60	12	9	17	1.57
2953594--2953679	11	8.2	11	69	24	53	62	2	0	34	1.08
2954946--2955015	3	23.0	3	85	8	97	61	0	0	38	0.96
2954935--2955015	28	2.7	30	94	5	139	59	0	0	40	0.98
2956675--2956715	20	2.0	20	86	9	57	75	0	21	2	0.92
2959053--2959091	2	19.5	2	83	0	51	41	0	7	51	1.31
2959131--2959190	29	2.1	29	93	0	102	16	10	16	56	1.66
2959915--2959947	7	4.9	7	92	7	59	69	0	0	30	0.88
2959915--2959944	13	2.3	13	100	0	60	73	0	0	26	0.84
2960017--2960096	34	2.3	35	83	8	94	71	2	3	22	1.14
2960332--2960379	22	2.1	22	84	7	60	60	10	6	22	1.52
2962531--2962626	35	2.7	35	87	4	149	29	7	16	46	1.74
2962534--2962626	34	2.7	35	89	1	143	30	7	15	47	1.72
2962610--2962969	36	10.2	36	84	9	474	41	13	18	26	1.88
2962610--2962969	136	2.5	141	83	10	457	41	13	18	26	1.88
2962804--2962940	21	7.4	21	62	26	85	43	12	18	24	1.85
2962610--2962993	209	1.8	209	89	4	605	41	13	18	26	1.87
2966024--2966128	39	2.7	39	83	1	122	25	35	9	29	1.88
2967041--2967140	18	5.3	18	73	15	78	72	2	3	23	1.09
2967077--2967143	26	2.7	24	80	11	73	73	1	4	20	1.09
2967627--2967693	26	2.6	25	82	13	75	67	0	7	25	1.17
2972711--2972837	65	2.0	65	91	0	209	34	14	19	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2972716--2972857	65	2.2	65	85	1	187	34	15	19	30	1.93
2973007--2973044	16	2.3	17	81	4	51	63	5	15	15	1.48
2973041--2973097	17	3.4	17	77	0	51	56	5	24	14	1.59
2975925--2975991	23	3.0	23	79	12	61	61	1	4	32	1.25
2976096--2976122	2	13.5	2	100	0	54	48	0	0	51	1.00
2976127--2976168	22	2.0	21	86	9	59	50	9	4	35	1.56
2976195--2976267	2	36.0	2	91	8	121	47	2	0	49	1.15
2989611--2989677	4	17.0	4	70	14	50	67	0	4	28	1.10
2989612--2989686	23	3.1	23	70	16	55	65	1	4	29	1.19
2989650--2989688	16	2.4	17	83	12	55	64	2	0	33	1.08
2989754--2989882	40	3.3	38	74	16	129	47	7	2	42	1.45
2989709--2989882	80	2.2	79	80	9	201	47	7	3	41	1.48
2989879--2989908	14	2.1	14	100	0	60	43	6	6	43	1.57
2989737--2989918	37	4.7	39	72	16	153	45	7	3	42	1.51
2989735--2989919	80	2.4	81	79	15	219	45	7	3	43	1.50
2989893--2989938	20	2.4	19	85	7	65	43	8	2	45	1.47
2989929--2989983	12	4.8	12	75	18	55	40	1	1	56	1.21
2998003--2998077	35	2.1	35	90	0	114	34	29	26	9	1.88
2998156--2998246	24	3.8	24	79	2	103	38	18	16	26	1.92
3004562--3004636	35	2.1	35	90	0	114	33	28	28	10	1.90
3004714--3004797	24	3.5	24	86	3	125	36	19	15	28	1.92
3013110--3013245	42	3.2	42	74	6	123	30	25	17	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3016753--3016818	22	3.0	21	67	16	62	43	7	1	46	1.41
3016845--3016920	40	1.9	40	91	0	125	32	17	18	31	1.94
3026144--3026236	31	3.0	32	86	9	131	35	19	18	26	1.95
3026425--3026530	31	3.5	31	93	1	178	39	21	19	18	1.92
3031608--3031638	9	3.6	9	95	4	55	0	22	6	70	1.09
3035112--3035167	25	2.2	25	93	0	94	32	23	26	17	1.97
3037353--3037410	31	1.9	31	92	3	100	29	25	25	18	1.98
3038919--3038964	20	2.2	20	84	3	56	36	13	2	47	1.54
3039685--3039717	2	17.0	2	93	6	59	48	0	0	51	1.00
3061412--3061442	2	15.5	2	100	0	62	51	0	0	48	1.00
3062426--3062457	9	3.6	9	95	0	55	75	0	0	25	0.81
3062403--3062454	13	3.9	13	78	11	52	69	5	0	25	1.10
3062570--3062635	11	5.3	11	74	25	60	71	0	0	28	0.87
3062576--3062645	14	4.8	16	73	22	73	68	0	0	31	0.90
3062570--3062635	27	2.6	25	92	7	114	71	0	0	28	0.87
3062580--3062632	14	3.9	14	80	14	74	69	0	0	30	0.88
3065736--3065776	14	3.0	13	89	7	55	75	0	4	19	0.98
3065741--3065782	5	8.8	5	82	10	52	78	2	2	16	0.96
3065742--3065777	9	3.9	9	92	3	54	77	0	2	19	0.88
3066658--3066716	27	2.1	28	87	9	84	1	23	3	71	1.11
3067294--3067337	3	14.7	3	88	9	63	68	2	0	29	1.02
3067282--3067343	27	2.3	27	83	5	81	67	3	1	27	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3067629--3067746	40	2.9	41	79	3	121	20	20	33	25	1.97
3068786--3068851	24	2.7	24	79	13	73	9	13	0	77	0.99
3068814--3068850	7	5.7	7	81	18	53	10	10	0	78	0.97
3068814--3068852	11	3.3	11	89	10	51	10	10	0	79	0.94
3075949--3076016	30	2.3	30	81	0	73	29	4	22	44	1.72
3080361--3080402	13	3.2	13	93	3	66	76	0	4	19	0.96
3081293--3081334	13	3.2	13	83	12	59	4	19	2	73	1.12
3081904--3081962	16	3.1	18	76	21	50	67	3	1	27	1.16
3081919--3081962	16	2.6	17	85	7	54	70	2	0	27	0.99
3086737--3086776	21	2.0	19	85	9	53	22	12	32	32	1.91
3086828--3086888	22	2.9	21	74	11	63	37	13	27	21	1.90
3099768--3099805	20	1.9	20	88	0	58	10	26	39	23	1.87
3099789--3099848	23	2.7	23	89	2	86	21	26	28	23	1.99
3105698--3106137	6	73.0	6	94	2	659	17	12	33	37	1.87
3107506--3107551	23	2.0	24	86	4	67	30	6	2	60	1.34
3107700--3107737	2	19.0	2	100	0	76	50	0	0	50	1.00
3111712--3111765	28	1.9	28	84	0	72	35	22	12	29	1.91
3112730--3112767	19	2.0	19	89	0	58	47	0	0	52	1.00
3123197--3123320	61	2.0	61	92	0	203	40	17	13	28	1.88
3131293--3131543	123	2.0	123	97	0	475	47	16	12	23	1.80
3132570--3132633	19	3.4	18	87	12	85	71	0	3	25	1.00
3132806--3133349	132	4.2	132	84	1	675	30	17	22	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3134617--3134667	7	7.3	7	80	10	52	3	13	0	82	0.81
3134617--3134652	15	2.5	15	90	4	56	0	13	0	86	0.58
3134620--3134659	19	2.0	20	90	4	64	2	12	0	85	0.71
3134627--3134671	15	3.1	14	84	9	54	6	11	0	82	0.84
3145154--3145192	19	2.0	20	90	5	62	41	7	15	35	1.76
3154014--3154057	18	2.3	20	84	7	56	50	11	20	18	1.77
3157013--3157102	43	2.1	44	83	6	112	47	17	7	26	1.75
3159525--3159574	22	2.5	20	78	15	66	28	10	4	58	1.49
3159534--3159576	22	2.0	22	95	0	77	30	16	4	48	1.66
3160099--3160136	3	13.0	3	84	15	53	71	0	0	28	0.87

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   34   35   36   37   38   39