genome.fa.s42.2.7.7.80.10.50.1000.19.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: Scaffold42
Parameters: 2 7 7 80 10 50 1000
Length:  3911082

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   

This is table  19  of  24  ( 2843 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)
2871847--2871872	13	2.0	13	100	0	52	38	15	15	30	1.88
2871829--2871892	32	2.0	33	87	3	94	40	17	14	28	1.88
2871925--2871964	20	2.0	20	95	4	73	40	15	10	35	1.80
2872620--2878912	474	13.2	472	74	10	2720	32	17	13	36	1.89
2874750--2875112	157	2.3	157	80	1	379	31	16	16	36	1.91
2874276--2875563	632	2.0	631	85	2	1715	31	17	14	36	1.91
2874422--2875708	632	2.0	631	82	3	1523	31	17	13	36	1.89
2876911--2878915	949	2.1	947	87	2	2838	32	17	13	36	1.89
2879349--2879727	41	9.4	40	76	12	225	42	14	22	21	1.88
2879466--2879694	82	2.8	82	78	9	259	44	12	21	21	1.85
2879775--2880162	61	6.4	61	86	5	477	27	18	27	26	1.98
2879714--2880154	122	3.6	120	83	6	489	27	17	28	26	1.98
2879715--2880134	183	2.3	184	85	6	557	28	17	27	26	1.98
2882324--2882362	20	2.0	20	94	0	69	7	0	7	84	0.77
2882318--2882365	11	4.5	11	84	10	64	8	2	6	83	0.88
2883666--2885113	477	3.0	473	80	6	1609	31	18	13	35	1.90
2885881--2886015	43	3.4	42	65	19	117	31	16	21	30	1.95
2886703--2886765	32	2.0	31	84	12	83	33	19	12	34	1.89
2886794--2886833	20	2.1	19	90	4	62	27	17	15	40	1.89
2886818--2886842	13	1.9	13	100	0	50	32	16	16	36	1.90
2889345--2889370	13	2.0	13	100	0	52	38	15	15	30	1.88
2895654--2900459	944	5.1	941	84	4	5465	31	19	12	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2899260--2900421	159	7.4	156	68	11	526	32	20	12	34	1.90
2900861--2905536	476	9.9	475	82	3	5077	31	18	13	36	1.89
2905671--2905722	21	2.4	21	87	9	70	46	5	9	38	1.61
2905658--2905722	21	3.2	20	79	12	69	43	6	10	40	1.65
2906398--2906484	32	2.6	32	78	14	95	32	16	20	31	1.94
2906392--2906478	36	2.6	34	80	10	97	32	16	22	28	1.96
2907981--2908038	21	2.7	22	80	15	68	50	3	25	20	1.64
2908684--2908723	17	2.3	18	86	4	55	20	2	15	62	1.43
2910220--2910356	66	2.1	67	90	4	215	32	7	20	40	1.80
2911155--2911184	13	2.3	13	94	0	51	36	16	10	36	1.82
2911138--2911206	33	2.1	33	81	10	79	36	13	18	31	1.89
2913785--2913845	19	3.6	18	70	25	60	34	13	18	34	1.89
2913785--2913858	32	2.3	32	90	0	121	33	14	17	33	1.91
2913875--2913949	20	3.8	20	89	3	89	30	13	13	42	1.82
2922953--2923011	20	3.0	19	76	11	57	37	1	28	32	1.67
2922952--2923011	19	3.0	19	76	13	59	38	1	28	31	1.67
2922956--2923022	21	3.3	20	75	8	64	35	1	31	31	1.67
2928805--2929876	459	2.3	461	83	6	1324	32	17	13	35	1.90
2929902--2932394	475	5.3	472	83	5	2978	31	18	13	36	1.90
2929902--2932394	926	2.6	934	83	5	3047	31	18	13	36	1.90
2934486--2934785	153	2.0	152	78	4	316	33	17	11	38	1.85
2934835--2934879	22	2.0	22	100	0	90	37	4	17	40	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2934976--2935264	159	1.8	159	81	4	368	31	17	12	39	1.86
2936172--2936573	158	2.5	156	77	7	364	30	18	12	38	1.88
2937596--2938754	159	7.4	156	73	8	525	30	18	13	37	1.89
2937041--2938754	159	10.9	153	71	11	523	30	19	12	37	1.89
2939785--2941445	157	10.6	156	71	11	738	31	18	12	37	1.88
2939572--2941451	158	12.0	156	72	10	995	31	18	12	37	1.88
2941869--2941967	51	1.9	51	87	0	144	26	7	20	46	1.76
2942468--2942543	28	2.7	28	72	0	71	13	22	9	55	1.66
2947221--2947262	13	3.2	13	93	0	75	38	19	14	28	1.90
2954872--2954906	18	1.9	18	88	0	52	28	28	2	40	1.71
2956421--2956458	20	2.0	20	89	5	60	36	13	10	39	1.79
2956491--2956543	13	4.5	13	69	26	55	35	16	13	33	1.88
2956494--2956558	33	2.0	33	90	6	105	33	18	13	33	1.90
2959948--2959997	11	4.5	11	82	5	64	0	24	0	76	0.80
2959950--2959995	23	2.0	23	95	4	83	0	26	0	73	0.83
2959952--2959996	12	3.7	13	85	14	69	0	26	0	73	0.84
2960390--2961058	167	4.0	165	84	4	740	51	8	12	27	1.68
2962141--2962258	41	2.9	41	74	9	114	46	16	21	16	1.84
2962141--2962253	42	2.7	41	78	4	120	47	15	21	15	1.82
2962599--2962774	47	3.7	49	75	8	157	41	15	19	23	1.89
2962588--2963016	44	9.4	44	74	9	306	43	15	20	20	1.88
2962709--2963005	137	2.2	138	81	4	345	43	17	19	19	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2964614--2964653	9	4.7	9	87	12	57	5	12	0	82	0.82
2964590--2964655	16	3.8	16	75	15	60	4	13	3	78	1.02
2964604--2964655	9	5.9	9	84	11	54	5	11	1	80	0.96
2972011--2972083	20	3.7	20	85	3	103	39	12	15	32	1.84
2972995--2973494	28	17.5	28	88	5	610	21	18	31	28	1.97
2974724--2974804	1	81.0	1	75	0	72	2	0	9	87	0.63
2974726--2974806	8	10.1	8	85	14	82	2	0	11	86	0.67
2974710--2974804	24	3.8	25	81	13	97	3	0	11	85	0.71
2974725--2974806	26	3.0	27	85	3	103	2	0	10	86	0.66
2974707--2974806	47	2.1	47	85	5	132	3	0	12	85	0.72
2974707--2974806	43	2.3	44	84	10	134	3	0	12	85	0.72
2986260--2986316	20	2.8	20	86	7	80	38	15	17	28	1.91
2986374--2986399	13	2.0	13	100	0	52	38	15	15	30	1.88
2989946--2990627	166	4.1	163	80	7	655	51	9	10	28	1.68
2990512--2990542	14	2.1	15	94	5	55	67	6	3	22	1.28
2992033--2992323	162	1.8	160	87	3	431	41	10	11	35	1.76
2993223--2993255	8	4.1	8	88	11	50	12	12	0	75	1.04
2993800--2994314	165	3.1	165	82	4	571	51	6	10	31	1.62
2993914--2994389	165	2.9	161	82	7	428	52	7	8	31	1.61
2998216--2998379	79	2.1	80	87	6	237	35	11	24	28	1.90
2998319--2998438	57	2.1	58	84	4	154	30	17	28	23	1.97
2998412--2998578	51	3.3	51	83	5	187	31	12	27	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3001076--3001210	20	6.7	20	68	10	78	28	14	14	42	1.85
3002523--3002585	32	1.9	33	84	9	85	17	0	23	58	1.38
3004959--3004985	3	9.0	3	100	0	54	66	0	0	33	0.92
3009455--3009552	49	2.0	49	97	0	187	33	18	19	28	1.95
3011506--3011563	16	3.7	16	76	4	64	43	0	0	56	0.99
3011625--3011671	24	2.0	24	86	0	67	70	2	2	25	1.10
3012639--3012694	3	18.7	3	96	0	103	35	0	0	64	0.94
3012756--3012804	23	2.2	21	82	10	62	59	0	10	30	1.31
3014083--3014200	51	2.3	51	80	2	139	33	11	24	30	1.91
3014038--3014392	130	2.7	128	82	4	401	36	12	23	28	1.90
3014219--3014330	51	2.2	50	80	10	120	36	12	22	28	1.91
3014271--3014844	79	7.3	79	79	6	531	36	14	22	26	1.93
3014271--3014844	237	2.4	237	81	3	645	36	14	22	26	1.93
3017265--3017381	51	2.3	51	88	2	173	45	11	15	27	1.81
3017346--3017402	20	2.8	21	89	2	80	49	12	14	24	1.77
3018223--3018255	17	1.9	17	93	0	57	48	0	0	51	1.00
3018222--3018266	17	2.6	17	78	3	54	40	0	0	60	0.97
3018199--3018322	49	2.5	48	83	5	140	33	0	4	61	1.20
3018263--3018335	36	2.1	34	89	5	110	27	2	5	64	1.29
3018375--3018414	21	1.9	21	85	10	55	35	2	7	55	1.42
3020944--3020983	21	1.9	21	89	0	62	37	0	0	62	0.95
3021308--3021332	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3021288--3021354	33	2.0	33	88	0	98	34	11	13	40	1.81
3021395--3021422	13	2.2	13	100	0	56	28	14	17	39	1.89
3021428--3021552	52	2.4	52	94	0	214	36	17	17	28	1.93
3028732--3028782	13	3.9	13	80	19	54	86	11	1	0	0.66
3028720--3028791	22	3.3	22	81	11	85	83	11	5	0	0.80
3028731--3028784	17	3.2	16	92	5	81	87	11	1	0	0.63
3029593--3029638	8	5.6	8	92	5	65	43	23	6	26	1.78
3029766--3030644	34	26.5	34	77	11	692	21	32	13	32	1.92
3029743--3030619	65	13.3	65	78	12	549	21	32	14	32	1.92
3029970--3030147	30	5.8	30	79	10	198	24	28	16	30	1.97

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