genome.fa.s8955.2.7.7.80.10.50.1000.15.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: VEPZ01008955.1 Hibiscus syriacus cultivar Beakdansim tig00112285_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4658001

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

This is table  15  of  23  ( 2731 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)
2914776--2914810	18	1.9	18	100	0	70	28	22	22	25	1.99
2915172--2915206	12	2.9	12	86	0	52	34	8	34	22	1.85
2915166--2915206	21	2.0	21	95	0	73	34	12	34	19	1.89
2915175--2915203	15	1.9	15	100	0	58	34	10	34	20	1.87
2919142--2919204	29	2.1	29	82	2	72	30	14	26	28	1.95
2920281--2920334	25	2.2	25	89	0	81	44	1	1	51	1.22
2921235--2921282	24	2.0	24	95	0	87	33	29	14	22	1.94
2924667--2924760	21	4.5	21	89	2	129	46	18	18	17	1.84
2925017--2925053	20	1.9	20	88	5	58	21	10	10	56	1.64
2926818--2926869	27	1.9	27	85	14	72	28	11	7	51	1.65
2926823--2926876	27	2.1	26	83	13	67	31	9	7	51	1.61
2930115--2930420	126	2.4	124	86	5	418	33	16	27	23	1.95
2931154--2931238	36	2.3	37	90	6	129	34	23	17	24	1.96
2931383--2931494	42	2.7	42	83	2	136	23	23	22	31	1.99
2931594--2931699	42	2.5	42	83	1	133	21	23	23	31	1.99
2931224--2932144	211	4.4	214	90	3	1357	31	15	19	33	1.93
2932744--2932801	24	2.4	24	94	2	98	32	32	13	20	1.92
2933905--2934098	94	2.0	96	96	3	356	29	18	12	39	1.87
2947387--2947574	37	5.1	37	100	0	376	45	7	5	40	1.56
2948579--2948620	9	4.6	9	80	13	50	76	2	2	19	1.01
2949782--2949809	2	14.0	2	100	0	56	50	0	0	50	1.00
2950737--2951097	134	2.7	131	75	9	340	28	17	26	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2951070--2951186	46	2.6	44	85	4	146	28	17	28	25	1.98
2951336--2951505	91	1.9	91	87	4	254	25	18	14	41	1.88
2951426--2951756	117	2.8	117	86	4	463	24	20	14	40	1.90
2951669--2951731	19	3.2	20	70	14	60	17	23	12	46	1.83
2951663--2951951	105	2.7	105	87	4	409	24	18	16	40	1.91
2952348--2952578	73	3.2	73	88	1	302	37	13	21	27	1.91
2952405--2952542	37	3.8	36	67	6	89	36	14	20	28	1.92
2952389--2952500	36	3.1	36	67	7	100	41	15	19	23	1.89
2952580--2952665	28	3.0	28	93	1	145	44	15	11	29	1.81
2952642--2952709	35	2.0	35	88	2	102	36	11	22	29	1.89
2952703--2953692	40	24.7	40	91	1	1590	42	11	16	30	1.83
2953188--2953252	21	3.1	21	61	12	53	43	10	15	30	1.81
2952703--2953692	441	2.2	440	96	0	1820	42	11	16	30	1.83
2953884--2955181	448	2.9	448	98	0	2515	31	19	14	34	1.92
2959135--2959177	20	2.2	20	86	0	59	60	6	11	20	1.54
2960767--2960969	82	2.4	82	86	4	264	31	17	18	32	1.94
2960772--2960990	41	5.3	42	75	8	207	31	16	18	33	1.94
2970403--2970520	30	3.9	30	94	0	209	21	30	10	38	1.86
2971649--2971679	16	1.9	16	93	0	53	45	29	3	22	1.68
2974869--2974939	30	2.4	30	87	0	106	15	4	19	60	1.51
2974933--2975029	23	4.2	23	94	0	158	24	16	17	41	1.89
2976335--2976363	15	1.9	15	100	0	58	41	24	13	20	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2981306--2981358	24	2.2	24	90	3	81	24	16	16	41	1.89
2981315--2981368	24	2.2	24	83	0	63	25	18	18	37	1.94
2981287--2981392	34	3.1	34	70	5	104	23	16	18	41	1.90
2985916--2986007	16	5.7	16	79	3	69	42	13	3	41	1.60
2989009--2989687	338	2.0	338	97	0	1288	32	18	21	28	1.96
2993908--2994012	53	2.0	53	86	0	147	26	12	21	39	1.89
2999537--2999584	21	2.3	20	80	16	53	45	0	4	50	1.21
2999582--2999926	133	2.6	130	84	7	428	46	8	8	36	1.65
2999582--2999966	133	2.9	128	75	13	348	47	8	7	36	1.62
3000073--3000112	19	2.1	19	90	9	64	72	5	0	22	1.04
3001375--3001414	9	4.6	9	87	3	55	55	0	0	45	0.99
3001547--3001792	73	3.4	73	91	3	376	31	22	17	27	1.97
3001752--3002153	45	8.8	46	93	3	654	33	19	23	23	1.97
3001752--3002153	91	4.4	91	94	2	650	33	19	23	23	1.97
3001753--3002153	136	2.9	136	94	2	680	33	19	23	22	1.97
3003499--3003567	23	3.0	23	84	0	102	30	26	26	17	1.97
3006107--3006164	22	2.6	22	88	0	89	39	13	13	32	1.85
3010563--3010639	8	9.5	8	77	14	70	0	15	1	83	0.72
3010563--3010630	7	9.7	7	81	9	77	0	16	1	82	0.75
3016120--3016153	17	2.0	17	88	11	52	64	0	5	29	1.17
3017250--3017714	236	2.0	232	95	4	846	14	22	26	36	1.92
3017935--3017978	3	14.7	3	86	9	63	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3023984--3024035	24	2.2	24	89	6	79	38	13	0	48	1.43
3024058--3024254	96	2.1	96	93	2	335	36	13	13	36	1.85
3024509--3024595	32	2.7	32	80	3	86	27	10	21	40	1.86
3026528--3026577	17	3.1	17	69	16	52	22	6	20	52	1.68
3028866--3028919	22	2.4	22	93	3	90	16	14	16	51	1.76
3030765--3030907	70	2.0	71	94	1	252	45	10	17	26	1.81
3032311--3032761	147	3.1	147	88	4	650	37	21	13	27	1.91
3032714--3033173	121	3.8	121	90	1	701	35	26	15	22	1.93
3037794--3038133	171	2.0	172	96	3	636	30	10	18	40	1.85
3038504--3038537	16	2.1	16	100	0	68	38	11	17	32	1.86
3038308--3038771	229	2.0	229	99	0	919	35	16	14	32	1.90
3038733--3038766	16	2.1	16	100	0	68	38	11	17	32	1.86
3042419--3042471	25	2.1	25	96	0	97	33	16	24	24	1.96
3047693--3047717	13	1.9	13	100	0	50	32	16	16	36	1.90
3048007--3048045	21	1.9	21	94	5	71	38	25	10	25	1.87
3050338--3050391	21	2.6	21	87	0	81	29	25	22	22	1.99
3050406--3050453	21	2.3	21	85	0	60	25	20	27	27	1.99
3050510--3050585	21	3.6	21	72	13	75	19	18	26	35	1.95
3050516--3050597	42	2.0	42	95	0	146	21	15	23	39	1.92
3051190--3051217	6	4.7	6	100	0	56	0	17	50	32	1.47
3051333--3051408	21	3.8	21	70	10	68	25	22	23	28	1.99
3051461--3051535	21	3.6	21	90	0	105	20	24	25	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3057619--3057676	25	2.3	26	80	14	68	46	3	20	29	1.67
3063392--3063529	68	2.0	69	98	1	269	36	23	18	20	1.94
3066436--3066495	30	2.0	31	83	3	77	38	15	8	38	1.77
3066684--3066729	17	2.8	16	83	9	56	65	8	0	26	1.21
3066684--3066719	16	2.2	16	90	5	54	72	5	0	22	1.05
3067012--3067047	17	2.1	17	89	0	54	25	2	25	47	1.65
3066837--3067306	236	2.0	236	88	1	701	33	18	22	25	1.96
3069869--3069946	22	3.5	22	89	0	93	26	25	20	26	1.99
3069927--3069987	30	2.0	30	90	0	95	31	24	19	24	1.98
3071947--3072005	31	1.9	31	86	6	84	47	8	13	30	1.73
3072257--3072307	2	27.0	2	88	11	81	49	0	0	50	1.00
3073297--3073408	24	4.7	24	89	5	156	28	21	26	23	1.99
3073297--3073421	48	2.6	48	88	1	180	28	20	27	23	1.99
3079539--3079666	63	2.0	63	100	0	256	50	10	5	32	1.60
3080815--3080933	59	2.0	59	95	0	211	26	6	28	37	1.82
3081193--3081273	42	1.9	42	87	0	117	38	24	11	25	1.89
3086185--3086501	156	2.0	156	99	0	627	42	11	17	28	1.84
3089414--3089466	18	2.9	18	91	0	88	16	18	33	30	1.94
3092096--3092486	195	2.0	196	98	0	766	30	20	19	29	1.97
3093486--3093525	18	2.2	18	95	0	71	20	20	32	27	1.97
3095611--3095653	21	2.0	21	86	0	59	41	6	6	44	1.58
3096141--3096226	34	2.6	34	88	1	129	17	23	30	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3096702--3096742	17	2.5	17	84	11	50	26	29	17	26	1.97
3109681--3109714	17	2.1	16	88	5	50	76	0	8	14	1.01
3111843--3111918	3	25.3	3	100	0	152	67	0	0	32	0.91
3113405--3113444	3	13.7	3	94	5	73	32	0	0	67	0.91
3114707--3114820	30	3.9	29	90	1	165	21	9	4	64	1.40
3114726--3114775	15	3.3	15	71	20	50	24	12	2	62	1.40
3114699--3114823	59	2.1	59	89	4	198	20	12	5	61	1.51
3114699--3114838	59	2.4	59	86	4	169	19	13	6	60	1.54
3115598--3115627	15	1.9	16	93	6	53	33	6	6	53	1.53
3118022--3118144	64	1.9	64	83	1	156	38	22	19	19	1.94

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