genome.fa.s446.2.7.7.80.10.50.1000.19.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: Scaffold446
Parameters: 2 7 7 80 10 50 1000
Length:  3567220

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

This is table  19  of  22  ( 2549 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)
3043583--3044140	192	2.9	188	79	7	586	28	14	30	25	1.95
3045643--3045703	27	2.2	28	82	5	72	21	8	14	55	1.65
3048860--3048913	21	2.5	21	85	8	65	35	5	14	44	1.69
3052158--3052183	13	2.0	13	100	0	52	38	7	23	30	1.83
3054167--3054207	21	2.0	21	85	9	57	39	12	9	39	1.76
3054247--3054317	20	3.6	19	77	7	70	40	16	12	29	1.86
3054394--3054452	10	6.0	10	96	2	93	23	30	6	38	1.81
3054513--3054538	13	2.0	13	100	0	52	30	15	23	30	1.95
3055017--3055083	37	1.9	35	88	11	102	32	11	25	29	1.92
3059826--3059866	21	2.0	21	85	9	57	39	12	9	39	1.76
3059906--3059976	20	3.6	19	77	7	70	40	16	12	29	1.86
3060053--3060111	10	6.0	10	96	2	84	25	30	5	38	1.77
3060053--3060111	20	3.0	20	92	2	93	25	30	5	38	1.77
3060172--3060197	13	2.0	13	100	0	52	30	15	23	30	1.95
3060676--3060742	37	1.9	35	88	11	102	32	11	25	29	1.92
3062298--3062335	12	3.0	13	78	21	53	34	13	15	36	1.87
3067226--3067252	13	2.1	13	100	0	54	29	14	14	40	1.86
3067207--3067271	32	2.0	32	90	3	103	29	15	15	40	1.88
3067237--3067293	19	2.9	19	87	5	87	35	15	14	35	1.88
3067238--3067291	20	2.8	19	91	2	81	35	14	12	37	1.85
3069478--3069612	68	2.0	67	85	8	184	18	24	27	29	1.98
3069575--3069646	37	1.9	37	91	0	117	15	22	30	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3070110--3070163	20	2.7	20	91	2	90	37	9	20	33	1.84
3073580--3073682	29	3.6	29	79	0	116	24	17	29	29	1.97
3073661--3073720	31	1.9	31	93	0	102	31	21	20	26	1.98
3073712--3074347	67	9.8	65	73	9	351	24	18	25	31	1.98
3073779--3074216	129	3.4	129	84	4	584	23	19	25	30	1.98
3073778--3074339	31	17.4	31	70	10	263	24	19	25	30	1.98
3073969--3074077	30	3.6	31	74	8	100	26	18	24	30	1.98
3073801--3074266	255	1.8	256	87	3	706	24	20	25	29	1.99
3074000--3074387	98	4.0	98	73	11	305	26	18	24	30	1.98
3075028--3075064	18	2.1	18	94	0	65	5	13	29	51	1.63
3075070--3075106	18	2.1	18	89	0	56	10	21	24	43	1.84
3075284--3075355	23	3.2	23	61	11	58	20	1	23	54	1.53
3075271--3075371	45	2.2	45	92	3	168	24	0	19	54	1.50
3075301--3075372	23	3.2	23	63	11	58	25	1	18	55	1.50
3075301--3075401	45	2.2	45	80	3	105	26	2	17	52	1.59
3075421--3075452	9	3.6	9	100	0	64	43	0	0	56	0.99
3075635--3075719	31	2.7	30	85	7	100	23	24	21	30	1.99
3075959--3075994	13	2.8	13	95	0	63	38	11	13	36	1.81
3077844--3077881	15	2.5	15	95	0	67	39	13	13	34	1.83
3088384--3088706	130	2.5	130	82	5	368	32	13	25	28	1.94
3094222--3094266	20	2.2	20	88	0	63	44	6	17	31	1.75
3100374--3100428	8	7.7	7	82	13	60	83	10	3	1	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3100375--3100419	20	2.2	21	88	11	67	84	11	2	2	0.80
3100730--3100776	23	2.0	23	91	0	76	17	23	6	53	1.66
3100728--3100786	23	2.8	20	76	16	55	18	27	6	47	1.74
3101128--3101292	76	2.2	76	84	2	206	23	17	13	45	1.84
3101865--3102304	66	6.6	67	77	3	254	15	20	20	44	1.87
3101931--3102726	66	12.2	66	79	4	581	16	20	18	43	1.88
3102047--3102150	34	3.1	34	72	10	97	15	16	23	45	1.85
3101833--3102726	132	6.8	131	77	5	673	16	21	18	43	1.88
3101945--3102726	198	4.0	195	78	6	697	16	21	18	43	1.88
3102447--3102559	58	1.9	58	91	3	183	17	22	15	44	1.87
3102621--3102727	34	3.2	33	70	19	96	17	22	18	41	1.91
3104162--3104197	15	2.4	15	85	0	54	19	0	2	77	0.88
3105896--3107325	157	9.3	154	77	8	1214	27	12	18	42	1.86
3105976--3107325	610	2.2	616	82	7	1593	27	12	18	41	1.86
3113354--3113617	144	1.8	144	80	6	320	36	9	18	35	1.83
3114473--3114539	37	1.9	35	88	11	102	29	25	11	32	1.92
3115253--3115293	21	2.0	21	85	9	57	36	12	14	36	1.84
3117783--3117826	23	1.9	23	90	0	70	13	20	29	36	1.91
3117847--3121693	158	24.4	158	71	9	1577	36	12	18	32	1.88
3119409--3120762	624	2.2	616	81	8	1404	36	13	17	31	1.89
3121709--3122619	159	5.7	159	71	9	500	36	12	18	32	1.88
3122988--3123017	13	2.3	13	94	0	51	30	20	13	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3125361--3125817	79	5.8	78	78	4	461	25	24	15	33	1.95
3125362--3125825	237	2.0	237	82	2	574	25	25	15	33	1.95
3125363--3125825	158	2.9	157	81	3	520	25	25	15	33	1.95
3130565--3130626	33	2.0	32	87	9	92	35	17	25	20	1.95
3132007--3132995	61	16.4	60	80	7	793	26	26	18	28	1.98
3132103--3132688	60	10.0	55	79	10	351	26	25	19	28	1.99
3132757--3132816	26	2.3	26	79	0	75	30	25	15	30	1.95
3133104--3133303	62	3.3	62	92	1	332	24	27	19	29	1.98
3133690--3133806	19	6.7	19	70	23	87	35	12	17	33	1.88
3133712--3133814	32	3.2	32	95	0	188	33	12	19	34	1.89
3133731--3133787	13	3.9	13	72	24	51	33	14	19	33	1.91
3133859--3133886	13	2.2	13	100	0	56	28	14	17	39	1.89
3137055--3137166	60	1.9	59	90	5	181	28	27	19	24	1.99
3137149--3137302	45	3.5	43	82	10	186	20	27	15	35	1.93
3137283--3137605	62	5.3	61	84	5	395	24	26	20	27	1.99
3137588--3137695	43	2.8	37	78	12	103	23	26	14	35	1.94
3137621--3137803	43	4.2	42	75	12	172	17	26	14	41	1.88
3138094--3138119	13	2.0	13	100	0	52	69	0	7	23	1.14
3140927--3141311	79	4.9	78	79	5	369	26	23	14	34	1.94
3140944--3141311	158	2.3	158	84	2	499	25	23	15	34	1.94
3144016--3144130	58	2.0	58	91	0	185	27	23	19	29	1.98
3148588--3148618	13	2.4	13	94	0	53	35	12	16	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3149310--3149390	27	3.2	27	77	16	109	24	32	6	37	1.80
3149295--3149390	49	2.0	49	97	0	183	23	33	5	37	1.77
3149274--3149375	22	4.4	22	79	13	107	23	35	3	37	1.74
3151272--3151308	13	2.8	13	95	0	65	43	16	10	29	1.82
3157417--3157491	19	3.9	19	92	1	114	37	16	16	30	1.90
3159045--3159126	28	2.9	29	82	7	98	57	7	20	14	1.61
3162312--3162340	10	2.7	11	94	5	51	0	13	0	86	0.58
3162977--3163092	57	2.0	58	89	1	180	27	21	19	31	1.98
3166591--3166630	20	2.0	21	85	5	55	15	35	0	50	1.44
3166839--3166902	30	2.1	30	97	0	119	32	32	7	26	1.85
3167174--3167255	28	3.0	27	73	10	76	62	7	17	13	1.53
3167605--3167685	38	2.1	40	93	4	139	39	13	20	25	1.90
3174650--3176363	159	10.9	157	74	9	1012	32	19	12	35	1.89
3175295--3175854	305	1.8	306	88	2	858	31	19	12	36	1.89
3174656--3176363	318	5.4	315	75	10	1201	32	19	12	35	1.89
3177639--3177788	51	2.9	51	83	3	187	28	9	18	44	1.80
3178591--3178631	20	2.0	21	95	4	75	31	24	4	39	1.76
3181387--3181448	28	2.2	27	82	0	79	59	12	17	9	1.59
3184889--3184940	27	1.9	27	92	0	86	13	11	21	53	1.70
3188229--3188340	51	2.2	51	90	3	172	34	13	22	29	1.92
3188203--3188547	130	2.7	129	87	4	516	33	13	24	28	1.93
3188351--3188470	51	2.4	51	85	0	168	32	12	25	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3188403--3188609	79	2.6	80	84	7	264	33	12	25	28	1.92
3192913--3192996	27	3.1	25	68	23	71	44	16	9	29	1.80
3195810--3195881	29	2.5	28	77	6	74	27	15	30	26	1.96
3195870--3195984	51	2.3	51	87	3	160	30	10	26	32	1.90
3195701--3196009	159	1.9	159	82	2	388	32	10	27	29	1.90
3195922--3196223	79	3.8	79	80	3	320	30	13	26	29	1.94
3201310--3201365	24	2.4	23	85	11	78	10	5	10	73	1.25
3204086--3204204	61	1.9	62	89	5	188	26	9	15	48	1.75
3208394--3208537	56	2.6	55	81	8	157	36	9	15	38	1.79
3208956--3209107	81	1.9	80	83	1	196	41	18	8	31	1.80

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