genome.fa.s409.2.7.7.80.10.50.1000.19.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: Scaffold409
Parameters: 2 7 7 80 10 50 1000
Length:  3905031

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   

This is table  19  of  25  ( 2882 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)
2920711--2920757	23	2.0	24	84	12	62	36	19	6	38	1.77
2921161--2921213	20	2.7	20	87	0	70	32	20	11	35	1.88
2921243--2921297	19	2.8	19	78	8	58	34	9	21	34	1.85
2921539--2921578	20	2.0	20	85	5	53	25	12	7	55	1.63
2923092--2923122	12	2.6	12	89	0	53	16	6	38	38	1.74
2928403--2929255	155	5.5	155	84	4	959	39	20	15	24	1.91
2930359--2930407	19	2.6	19	100	0	98	36	24	16	22	1.94
2930397--2930446	20	2.5	20	87	3	66	28	14	18	40	1.89
2932106--2932149	3	14.7	3	90	0	70	34	0	31	34	1.58
2937122--2937147	13	2.0	13	100	0	52	38	15	15	30	1.88
2939236--2939280	21	2.1	21	84	8	56	53	4	20	22	1.63
2941084--2941114	15	2.1	15	93	0	53	48	16	22	12	1.80
2943131--2943210	20	3.8	20	75	15	79	26	15	15	43	1.85
2943196--2943234	13	3.0	13	96	0	69	30	17	15	35	1.91
2943355--2943401	21	2.3	21	79	20	55	34	19	4	42	1.70
2943357--2943399	20	2.2	19	84	16	52	32	18	4	44	1.71
2945753--2945778	13	2.0	13	100	0	52	38	15	15	30	1.88
2947424--2947475	11	4.4	12	85	9	72	0	17	0	82	0.66
2947428--2947469	15	2.9	15	86	6	52	0	21	0	78	0.75
2947426--2947475	13	3.8	13	84	7	66	0	18	0	82	0.68
2948118--2948745	168	3.7	167	82	5	723	53	7	10	28	1.63
2948129--2948745	335	1.8	336	83	5	820	52	7	10	29	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2950609--2950683	28	2.7	28	82	0	78	24	18	33	24	1.97
2950666--2950797	51	2.6	52	77	6	151	33	10	25	30	1.90
2953156--2953181	13	2.0	13	100	0	52	38	15	15	30	1.88
2953168--2953209	21	2.0	21	90	0	66	28	19	9	42	1.82
2954286--2954541	43	6.0	42	77	5	212	37	17	26	18	1.93
2954286--2954541	86	3.0	84	77	8	236	37	17	26	18	1.93
2954286--2954572	43	6.8	41	77	5	200	36	17	26	18	1.93
2954898--2955117	41	5.3	41	65	12	106	35	16	28	19	1.93
2954846--2955241	84	4.7	83	86	2	515	34	15	28	20	1.94
2955296--2955423	42	3.0	43	70	10	120	37	18	25	17	1.93
2955663--2955759	42	2.3	41	81	8	115	42	14	25	17	1.87
2956118--2956441	78	4.2	78	84	2	418	29	15	26	27	1.96
2957061--2957263	88	2.3	88	84	1	264	45	11	20	22	1.83
2957111--2957293	88	2.1	88	80	6	201	48	12	18	20	1.80
2962048--2962102	20	2.8	20	88	0	83	40	14	12	32	1.84
2961998--2962185	72	2.6	71	85	3	252	40	13	16	29	1.87
2972922--2972997	1	76.0	1	78	0	80	89	7	1	1	0.60
2972923--2972996	19	3.9	19	84	13	100	89	8	1	1	0.61
2972922--2972995	37	2.0	38	91	2	123	89	8	1	1	0.61
2972920--2972997	10	8.1	10	85	8	101	88	8	1	1	0.63
2973965--2974703	61	12.4	61	85	5	860	25	28	20	25	1.99
2973965--2974703	177	4.1	178	84	6	883	25	28	20	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2973965--2974706	232	3.1	235	87	5	1007	25	28	21	25	1.99
2975499--2975584	19	4.8	18	71	25	65	34	12	15	37	1.85
2975539--2975565	13	2.1	13	100	0	54	29	14	14	40	1.86
2975519--2975590	32	2.2	32	90	0	117	33	12	15	38	1.85
2975608--2975650	21	2.0	21	95	0	77	46	9	16	27	1.77
2978026--2978414	52	7.4	52	71	14	230	29	26	11	31	1.92
2978194--2978412	51	4.3	51	84	4	226	29	27	11	31	1.92
2978028--2978522	262	1.9	262	94	0	873	28	27	12	31	1.93
2978425--2978627	79	2.6	78	84	3	246	24	29	17	29	1.97
2986308--2986415	21	5.3	18	66	30	58	10	48	1	39	1.48
2986311--2986429	42	2.8	42	93	0	202	9	46	1	42	1.46
2986344--2986419	12	6.9	11	75	15	52	9	48	2	39	1.49
2992505--2993213	43	16.8	43	74	8	454	17	27	18	36	1.94
2992509--2993077	85	6.7	85	78	5	373	17	27	17	36	1.93
2992507--2992955	128	3.5	128	85	3	503	16	28	18	36	1.92
2992509--2993213	213	3.3	209	83	3	794	17	27	18	36	1.94
2992635--2993049	128	3.2	128	84	4	383	18	27	17	36	1.93
2993104--2993216	42	2.7	43	80	5	122	16	29	20	33	1.95
2993753--2993796	13	3.7	12	80	20	56	79	4	0	15	0.89
2995431--2995500	20	3.5	20	94	1	115	40	15	15	28	1.88
2995607--2995651	23	1.9	23	81	4	54	40	8	8	42	1.67
2995854--2996369	155	3.3	153	79	7	497	39	19	16	24	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2997796--2997837	10	4.0	10	84	9	57	0	19	0	80	0.70
2998334--2998430	49	2.0	49	95	0	176	60	6	4	28	1.39
2998549--2998869	168	1.9	167	87	1	464	50	10	10	27	1.70
2998863--2998892	14	2.2	13	94	5	51	73	6	6	13	1.24
2999383--2999452	21	3.2	22	75	15	74	47	1	1	50	1.19
2999363--2999428	28	2.4	27	80	10	71	50	0	1	48	1.10
3001535--3001583	11	4.4	11	78	14	55	65	0	6	28	1.16
3001529--3001583	22	2.4	22	85	11	67	63	1	5	29	1.27
3003642--3003682	16	2.5	16	85	14	57	26	2	0	70	0.99
3006562--3006590	6	4.8	6	100	0	58	17	17	48	17	1.82
3006943--3006980	19	2.0	19	94	0	67	26	18	10	44	1.82
3007749--3008152	156	2.6	154	88	3	571	33	7	7	51	1.59
3009608--3010115	166	3.1	165	84	4	657	32	9	15	42	1.79
3010016--3010206	104	1.8	105	81	3	242	27	10	13	48	1.76
3009845--3010355	271	1.9	271	81	5	622	31	10	13	44	1.78
3010219--3010739	167	3.1	165	77	5	451	32	11	12	43	1.78
3011785--3011814	10	3.0	10	90	0	51	10	16	30	43	1.81
3011848--3011889	20	2.0	21	90	4	68	47	14	9	28	1.75
3011913--3011969	20	2.8	20	100	0	114	26	15	14	43	1.85
3024643--3024878	78	3.1	73	65	22	167	44	16	21	16	1.87
3024605--3024920	156	2.0	156	91	0	515	44	16	21	17	1.86
3024623--3024958	156	2.2	155	87	5	446	46	16	21	15	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3024959--3025181	111	2.0	111	100	0	446	55	11	19	13	1.69
3025194--3025289	22	4.4	22	94	0	138	37	18	20	22	1.94
3025658--3025736	34	2.3	34	82	0	95	44	30	16	8	1.78
3028820--3028844	13	1.9	13	100	0	50	32	16	16	36	1.90
3028799--3028860	33	1.9	32	90	3	97	27	14	16	41	1.87
3029335--3029400	35	1.9	34	93	3	114	31	13	25	28	1.94
3032237--3032310	20	3.7	20	89	3	105	35	18	12	33	1.88
3032379--3032405	13	2.1	13	100	0	54	40	14	14	29	1.86
3033017--3033065	24	2.0	24	92	0	80	38	20	8	32	1.82
3034947--3034973	13	2.1	13	100	0	54	40	14	14	29	1.86
3041178--3041250	20	3.7	20	78	7	60	39	15	15	30	1.87
3042230--3042302	20	3.6	20	81	3	101	35	13	19	31	1.91
3042248--3042323	21	3.7	21	80	3	100	42	11	17	28	1.84
3042230--3042323	41	2.3	41	98	0	179	39	12	18	29	1.88
3042362--3042387	13	2.0	13	100	0	52	38	15	15	30	1.88
3046449--3046479	15	2.1	15	93	0	53	48	16	22	12	1.80
3048487--3048564	20	3.6	21	73	15	70	25	12	16	44	1.83
3048551--3048589	13	3.0	13	96	0	69	30	17	15	35	1.91
3050375--3050446	32	2.2	32	100	0	144	22	2	22	52	1.59
3051070--3051142	20	3.6	20	81	3	101	35	13	19	31	1.91
3051088--3051163	21	3.7	21	80	3	100	42	11	17	28	1.84
3051070--3051163	41	2.3	41	98	0	179	39	12	18	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3051202--3051227	13	2.0	13	100	0	52	38	15	15	30	1.88
3054252--3054291	17	2.4	17	91	4	64	42	12	17	27	1.85
3055809--3056033	44	5.1	43	72	12	163	26	20	12	41	1.87
3055753--3055997	88	2.8	86	84	4	282	26	19	11	42	1.85
3056493--3056567	20	3.7	20	75	10	71	33	12	12	42	1.79
3069715--3069781	37	1.9	35	88	11	102	29	25	11	32	1.92
3070252--3070277	13	2.0	13	100	0	52	30	23	15	30	1.95
3070313--3070343	16	2.0	15	93	6	53	45	12	22	19	1.84
3085123--3085706	28	20.5	28	80	8	592	30	32	17	20	1.95
3085128--3085735	58	10.6	57	81	8	616	30	31	17	20	1.96

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