genome.fa.s35.2.7.7.80.10.50.1000.19.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: Scaffold35
Parameters: 2 7 7 80 10 50 1000
Length:  4812169

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   

This is table  19  of  30  ( 3549 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)
2970666--2970760	41	2.3	42	96	1	174	41	12	16	29	1.86
2970799--2970824	13	2.0	13	100	0	52	38	15	15	30	1.88
2975036--2975082	24	2.0	24	88	8	71	34	0	29	36	1.58
2975753--2975785	13	2.4	14	85	15	50	42	15	15	27	1.86
2975760--2975785	13	2.0	13	100	0	52	38	15	15	30	1.88
2982061--2982125	4	16.5	4	82	9	71	84	15	0	0	0.62
2982057--2982125	12	5.8	12	86	8	88	85	14	0	0	0.60
2982060--2982137	16	4.9	16	85	7	106	83	16	0	0	0.65
2982057--2982137	20	4.1	18	81	15	90	83	16	0	0	0.64
2982057--2982122	1	66.0	1	72	0	51	86	13	0	0	0.57
2983569--2983973	57	7.0	58	81	6	416	29	27	17	24	1.98
2983570--2983978	30	14.1	30	81	7	461	29	27	17	25	1.98
2983581--2983978	146	2.7	146	87	3	545	28	27	18	25	1.98
2983955--2984138	33	5.5	33	85	3	244	19	31	13	35	1.90
2983950--2984138	66	2.8	66	90	1	279	20	31	13	34	1.91
2988774--2988826	19	2.8	19	100	0	106	37	18	11	32	1.87
2995881--2996015	51	2.7	51	87	7	172	34	11	23	30	1.90
2995895--2996076	51	3.6	52	80	5	158	35	11	22	30	1.90
2998429--2998484	20	2.8	20	84	7	78	42	14	16	26	1.86
2998500--2998529	13	2.3	13	94	0	51	36	13	20	30	1.90
2998794--2998996	60	3.3	60	88	4	273	29	18	27	24	1.98
2998822--2999019	60	3.4	57	82	8	186	28	19	26	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2998943--2999115	95	1.8	96	91	3	287	25	20	27	26	1.99
2999094--2999235	47	3.0	47	96	2	257	23	23	26	27	2.00
2999190--2999381	55	3.4	56	91	5	289	23	21	27	27	1.99
2999036--2999681	200	3.1	211	84	9	698	25	19	28	25	1.99
2999450--2999525	39	1.9	40	91	2	127	31	15	32	19	1.94
2999305--2999789	100	4.9	100	93	1	811	26	17	30	24	1.97
2999704--2999884	62	2.9	62	90	4	276	28	17	28	26	1.97
2999966--3000062	49	1.9	51	87	6	144	29	20	26	22	1.99
3000008--3000135	61	2.1	62	88	5	188	32	19	24	24	1.98
3001390--3001445	20	2.8	20	86	5	78	42	12	17	26	1.85
3001432--3001505	29	2.5	30	97	2	141	36	18	18	25	1.94
3001493--3001518	13	2.0	13	100	0	52	30	15	15	38	1.88
3001463--3001560	43	2.3	43	100	0	196	34	18	18	28	1.94
3001536--3001560	13	1.9	13	100	0	50	32	16	16	36	1.90
3006410--3006457	20	2.3	21	85	3	62	43	14	16	25	1.86
3008954--3009133	97	1.8	98	84	3	247	31	21	10	37	1.86
3008954--3009168	97	2.2	98	81	4	240	30	22	10	36	1.88
3013039--3013144	42	2.5	43	82	11	132	36	22	10	30	1.88
3012609--3013217	304	2.0	304	92	0	1022	34	19	13	32	1.91
3014097--3014131	17	2.1	17	89	5	54	17	14	2	65	1.38
3015211--3015259	13	4.2	13	70	24	54	34	20	12	32	1.90
3015211--3015280	33	2.1	33	92	7	115	32	21	12	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3015310--3015387	32	2.4	33	85	6	97	38	12	15	33	1.85
3015925--3015979	20	2.9	18	79	17	58	30	25	3	40	1.73
3015925--3015977	17	2.7	19	77	19	56	32	22	3	41	1.72
3015918--3015983	22	3.2	22	75	20	79	28	28	3	39	1.72
3015914--3015990	22	3.7	21	70	19	56	28	29	3	37	1.75
3019075--3019130	21	2.7	21	100	0	112	35	10	17	35	1.85
3019188--3019308	13	7.9	13	69	28	71	34	12	18	34	1.88
3019168--3019329	32	5.0	32	95	0	279	35	11	17	36	1.85
3019368--3019392	13	1.9	13	100	0	50	32	16	16	36	1.90
3024225--3025644	701	2.0	701	98	0	2770	30	23	22	23	1.99
3026962--3026993	8	3.9	8	95	4	55	90	9	0	0	0.45
3026961--3026994	9	3.9	9	92	7	61	91	8	0	0	0.43
3026962--3026994	17	1.9	17	100	0	66	90	9	0	0	0.44
3026960--3026998	19	2.1	19	90	9	62	89	10	0	0	0.48
3027245--3027278	17	2.0	17	88	0	50	82	8	8	0	0.85
3027246--3027295	13	3.8	13	76	23	59	84	6	10	0	0.79
3028243--3028519	31	8.9	30	83	7	304	23	29	16	30	1.96
3028243--3028482	63	3.8	63	88	3	353	24	29	17	28	1.97
3028244--3028482	125	1.9	125	88	5	367	24	29	17	28	1.97
3028272--3028547	125	2.2	125	82	6	333	23	29	16	30	1.96
3028459--3029024	34	16.8	34	83	7	683	20	32	12	34	1.90
3028493--3029024	133	3.9	135	84	6	693	20	33	12	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3029015--3029296	33	8.7	32	88	8	412	27	34	18	19	1.95
3029015--3029286	65	4.2	66	92	2	435	27	34	19	19	1.95
3029332--3029608	43	6.1	43	79	12	311	24	24	18	31	1.98
3029335--3029612	92	3.0	91	89	6	404	24	24	18	32	1.97
3029289--3029559	135	2.0	135	93	0	461	25	24	19	30	1.98
3029513--3029725	67	3.7	55	78	9	171	23	24	15	37	1.93
3029513--3029650	52	2.6	52	82	3	168	23	25	16	34	1.95
3029616--3029742	67	1.9	68	86	1	184	23	25	12	38	1.90
3030539--3030591	13	3.6	13	73	26	52	35	13	16	33	1.88
3030518--3030614	19	5.7	19	67	27	74	36	12	16	35	1.86
3030519--3030616	32	3.0	32	93	1	160	36	12	16	34	1.86
3035212--3035264	20	2.6	21	84	3	72	28	16	15	39	1.89
3035252--3035276	13	1.9	13	100	0	50	36	16	16	32	1.90
3035897--3035959	29	2.2	29	94	0	108	28	22	0	49	1.50
3035888--3035955	29	2.6	25	72	17	64	30	23	0	45	1.53
3037753--3037791	13	3.0	13	92	0	69	33	15	20	30	1.94
3037779--3037830	20	2.6	20	100	0	104	34	15	23	26	1.94
3042353--3042383	9	3.4	9	95	0	53	25	35	0	38	1.56
3043993--3044017	13	1.9	13	100	0	50	36	16	16	32	1.90
3043971--3044037	33	2.1	33	91	2	109	34	13	16	35	1.88
3044069--3044121	20	2.6	21	84	3	72	28	16	15	39	1.89
3044109--3044133	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)
3048998--3049067	33	2.1	34	89	2	106	34	20	12	32	1.90
3049096--3049151	19	2.9	18	84	10	67	33	17	17	30	1.94
3060994--3061043	21	2.4	22	83	9	61	32	20	0	48	1.50
3063668--3063711	21	2.1	21	83	8	54	25	31	4	38	1.76
3065514--3065552	13	3.0	13	92	0	69	35	15	15	33	1.89
3067631--3067661	15	2.1	15	93	0	53	12	22	16	48	1.80
3069461--3069505	21	2.1	21	84	8	56	22	20	4	53	1.63
3073402--3073493	33	2.8	32	93	6	141	34	16	18	30	1.93
3073422--3073476	13	4.7	13	68	25	50	38	18	16	27	1.92
3073435--3073493	20	3.3	20	65	30	60	35	13	18	32	1.90
3075442--3075481	20	2.0	21	90	5	64	42	12	17	27	1.85
3076443--3076624	22	7.6	22	65	23	73	5	30	8	55	1.53
3076464--3076602	27	5.5	27	74	16	154	5	32	9	53	1.55
3076443--3076635	49	3.9	49	95	0	323	6	30	9	54	1.57
3077108--3077139	17	1.9	16	93	6	55	9	25	15	50	1.74
3077252--3077291	20	2.0	20	95	0	71	5	27	15	52	1.63
3077342--3077392	15	3.3	15	75	24	52	17	3	9	68	1.33
3077339--3077394	8	6.9	8	76	10	51	17	3	8	69	1.29
3077392--3077421	15	1.9	16	93	6	53	20	0	0	80	0.72
3083848--3083917	11	6.2	11	78	21	74	1	4	10	84	0.82
3083845--3083918	19	3.8	19	81	11	80	1	4	10	83	0.83
3101470--3101543	20	3.7	20	78	5	69	39	13	13	33	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3101595--3101647	20	2.6	21	90	3	81	30	20	11	37	1.88
3102395--3102516	31	3.9	31	78	6	104	16	24	31	27	1.96
3102159--3102738	180	3.2	180	86	2	774	22	23	23	30	1.99
3102465--3103152	319	2.1	321	82	3	834	21	23	25	30	1.99
3104008--3104035	13	2.2	13	100	0	56	39	17	14	28	1.89
3104913--3104952	6	6.7	6	91	8	64	0	0	12	87	0.54
3107854--3107922	20	3.5	19	82	7	68	28	14	14	42	1.85
3107873--3107926	19	2.8	20	80	2	74	29	12	14	42	1.83
3109577--3109608	3	10.7	3	93	0	55	37	0	31	31	1.58
3114186--3114237	21	2.5	22	78	15	56	28	21	0	50	1.49

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