genome.fa.s64.2.7.7.80.10.50.1000.16.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: Scaffold64
Parameters: 2 7 7 80 10 50 1000
Length:  7997333

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   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   

This is table  16  of  45  ( 5312 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)
2986984--2987022	18	2.2	19	90	9	64	61	0	0	38	0.96
2987019--2987061	21	2.0	22	86	4	61	46	0	0	53	1.00
2987047--2987111	28	2.4	27	82	7	78	60	3	3	33	1.28
2992087--2992130	23	1.9	23	81	9	54	54	2	6	36	1.40
2994701--2994751	2	25.5	2	100	0	102	50	0	0	49	1.00
2995233--2995270	15	2.4	16	82	8	51	52	0	0	47	1.00
2998727--2998781	24	2.3	25	84	9	78	30	0	5	63	1.17
2998761--2998800	16	2.3	17	87	12	55	30	0	2	67	1.04
2998717--2998802	18	4.4	18	71	23	66	31	0	3	65	1.10
3001465--3001745	142	2.0	141	84	4	366	29	14	18	37	1.91
3001736--3001786	2	25.5	2	100	0	102	49	0	0	50	1.00
3007059--3007151	46	2.0	46	95	0	168	26	8	27	36	1.86
3008200--3008224	6	4.2	6	100	0	50	36	0	0	64	0.94
3016079--3016143	25	2.6	25	72	18	71	50	0	3	46	1.17
3016213--3016254	18	2.4	17	84	4	57	40	0	2	57	1.12
3016972--3017040	19	3.6	19	69	9	50	42	0	1	56	1.08
3016988--3017073	24	3.7	24	75	17	74	45	0	0	54	0.99
3017059--3017110	19	2.9	19	69	25	51	55	0	0	44	0.99
3017650--3017701	17	2.9	17	86	13	61	34	0	1	63	1.06
3017661--3017816	20	7.8	20	66	21	62	37	0	1	60	1.08
3017754--3017817	3	23.3	3	77	15	50	39	0	0	60	0.97
3017740--3017817	31	2.3	32	85	10	95	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3019406--3019444	2	19.5	2	100	0	78	51	0	48	0	1.00
3024010--3024157	76	1.9	76	94	0	260	41	8	10	40	1.68
3024666--3024698	13	2.5	14	90	9	52	66	0	0	33	0.92
3025178--3025249	34	2.1	35	84	2	92	30	6	1	61	1.31
3025322--3025355	17	2.1	17	88	5	52	44	0	0	55	0.99
3025849--3025881	2	16.5	2	100	0	66	48	0	0	51	1.00
3032843--3032873	15	2.1	15	93	0	53	12	12	25	48	1.77
3034683--3034722	2	20.0	2	94	0	71	50	2	0	47	1.14
3038559--3038600	2	21.0	2	95	0	75	50	2	0	47	1.14
3043226--3043252	13	2.1	13	100	0	54	29	7	18	44	1.77
3044281--3044313	2	16.5	2	100	0	66	48	0	0	51	1.00
3049564--3049629	33	2.0	33	87	0	96	42	18	18	21	1.89
3051149--3051191	18	2.3	19	80	8	52	58	2	6	32	1.38
3051339--3051402	24	2.8	24	78	7	78	59	0	0	40	0.97
3052159--3052203	23	2.0	23	86	8	65	42	0	0	57	0.98
3052927--3052961	15	2.3	15	90	0	52	74	0	0	25	0.82
3053205--3053237	17	2.0	17	88	5	50	69	6	0	24	1.10
3054722--3054763	20	2.1	20	91	8	68	50	11	0	38	1.40
3055352--3055649	150	2.0	148	89	3	456	35	13	19	31	1.90
3055755--3055814	22	2.6	22	72	15	59	55	0	1	43	1.10
3055884--3055909	3	8.7	3	100	0	52	69	0	0	30	0.89
3066149--3066211	23	2.7	23	83	14	67	38	0	1	60	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3066148--3066213	11	5.5	12	70	23	50	37	0	1	60	1.06
3070138--3070223	12	7.5	12	70	18	51	47	0	1	51	1.08
3070221--3070259	18	2.1	19	85	4	53	51	2	0	46	1.14
3070673--3070706	2	17.0	2	100	0	68	0	50	0	50	1.00
3074239--3074345	32	3.4	30	79	11	117	42	4	3	49	1.41
3077402--3077444	2	21.5	2	95	0	77	2	48	0	48	1.14
3078765--3078817	18	3.0	17	76	15	54	56	0	1	41	1.10
3078762--3078809	19	2.4	20	83	16	64	62	0	0	37	0.95
3078726--3078794	31	2.3	30	82	12	79	62	0	1	36	1.04
3079193--3079243	14	3.6	14	72	15	50	58	0	3	37	1.16
3079224--3079260	14	2.8	14	88	8	51	51	0	0	48	1.00
3080341--3080381	2	20.5	2	100	0	82	48	0	51	0	1.00
3080644--3080758	30	3.9	30	76	8	103	40	0	2	56	1.19
3080634--3080764	59	2.2	60	85	9	173	44	0	2	52	1.19
3080778--3080815	19	2.0	19	85	10	51	47	0	5	47	1.24
3080747--3080822	25	3.1	24	77	5	89	52	0	2	44	1.14
3081107--3081140	2	17.0	2	100	0	68	0	50	0	50	1.00
3081140--3081169	2	15.0	2	92	0	51	46	0	0	53	1.00
3090206--3090287	39	2.1	39	95	0	146	25	21	20	31	1.98
3093396--3093616	112	2.0	112	95	0	397	34	17	13	34	1.89
3099427--3099465	14	2.7	15	88	7	55	38	2	0	58	1.12
3101840--3101882	11	3.8	12	79	14	56	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3102698--3102750	22	2.5	22	75	9	56	67	5	0	26	1.12
3102871--3102913	7	5.9	7	80	20	52	69	0	2	27	1.00
3102868--3102918	17	3.4	15	77	15	52	72	0	1	25	0.95
3102867--3102927	30	2.2	29	85	11	83	67	0	1	31	1.01
3105260--3105297	19	2.1	19	90	5	60	68	0	0	31	0.90
3105366--3105402	18	2.0	20	89	10	60	48	0	0	51	1.00
3105713--3105765	22	2.4	21	78	9	52	50	0	0	49	1.00
3106364--3106411	2	24.0	2	95	0	87	47	0	2	50	1.12
3113874--3113913	20	2.1	19	85	4	53	65	0	0	35	0.93
3117576--3117601	2	13.0	2	100	0	52	50	0	0	50	1.00
3117797--3117828	12	2.4	14	90	10	50	37	0	0	62	0.95
3122534--3122583	7	7.1	7	86	0	64	52	4	0	44	1.20
3123971--3124092	61	2.0	61	98	0	235	40	8	7	44	1.62
3124310--3124399	45	2.0	47	84	8	123	48	2	0	48	1.13
3125073--3125098	2	13.0	2	100	0	52	50	50	0	0	1.00
3125654--3125733	17	4.6	17	71	18	58	33	3	0	62	1.13
3126063--3126160	21	4.6	21	70	20	60	48	0	3	47	1.17
3128151--3128200	26	2.0	24	84	7	64	34	0	2	64	1.05
3129594--3129656	18	3.4	19	77	12	69	58	3	1	36	1.23
3129706--3129798	46	2.0	46	95	0	168	32	11	11	44	1.78
3133179--3133222	22	1.9	24	81	9	56	59	6	18	15	1.58
3134779--3134831	15	3.1	17	81	10	56	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3134804--3134856	24	2.2	23	81	15	63	62	0	0	37	0.96
3134796--3134831	17	2.1	17	89	5	54	61	0	0	38	0.96
3134811--3134875	24	2.6	26	85	11	91	61	0	0	38	0.96
3134804--3134886	42	1.9	45	82	7	109	60	0	1	38	1.05
3134847--3134885	19	2.1	19	90	4	62	61	0	2	35	1.10
3135170--3135215	19	2.6	18	80	19	60	45	0	0	54	0.99
3135228--3135270	15	2.8	16	75	10	54	60	4	0	34	1.17
3135364--3135400	19	2.0	18	89	5	56	56	0	0	43	0.99
3137195--3137276	28	2.8	30	76	16	82	56	1	7	35	1.35
3137223--3137283	29	2.1	29	87	3	88	59	0	8	32	1.27
3137549--3137577	5	5.8	5	100	0	58	0	37	0	62	0.96
3140856--3140880	1	25.0	1	100	0	50	0	0	100	0	0.00
3141175--3141233	19	3.3	18	84	13	77	45	0	0	54	0.99
3141180--3141238	17	3.4	17	77	13	59	44	0	0	55	0.99
3141188--3141254	23	3.1	22	84	14	79	40	0	0	59	0.97
3141195--3141254	11	5.4	11	78	11	68	40	0	0	60	0.97
3141635--3141659	13	1.9	13	100	0	50	56	0	8	36	1.29
3145178--3145240	26	2.5	26	78	17	69	58	3	0	38	1.14
3145149--3145228	27	2.8	27	77	11	72	56	6	2	35	1.38
3151194--3151243	26	1.9	26	95	0	91	28	12	20	40	1.87
3151311--3151350	17	2.4	17	87	4	64	55	0	0	45	0.99
3153045--3153123	29	2.9	28	78	9	74	45	3	1	49	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3154363--3154408	24	1.9	24	86	0	65	43	26	6	23	1.78
3158835--3158880	24	1.9	24	86	0	65	43	26	6	23	1.78
3161101--3161125	13	1.9	13	100	0	50	56	8	8	28	1.57
3162302--3162349	24	2.0	24	88	4	71	64	0	0	35	0.94
3162299--3162359	28	2.2	28	80	14	72	62	0	0	37	0.96
3162299--3162387	34	2.5	35	82	12	103	59	0	0	40	0.97
3162310--3162364	28	2.0	28	85	7	76	63	0	0	36	0.95
3162342--3162388	25	1.9	24	82	4	58	55	0	0	44	0.99
3162648--3162682	18	2.0	17	88	5	52	48	0	0	51	1.00
3165088--3165133	23	2.0	23	82	0	56	39	0	0	60	0.97

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   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45