NFAR.fasta.2.7.7.80.10.50.500.4.html

Tandem Repeats Finder Program written by:

Gary Benson
Department of Biomathematical Sciences
Mount Sinai School of Medicine
Version 4.00

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: NFA 2003-09-04
Parameters: 2 7 7 80 10 50 500
Length:  6021225

Tables:   1   2   3   4   5   6   7   

This is table  4  of  7  ( 836 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)
1929609--1929680	15	4.9	14	81	6	63	8	38	36	16	1.79
1929606--1929680	30	2.5	30	84	0	96	8	38	37	16	1.78
1935738--1935787	18	2.8	18	87	0	73	4	34	42	20	1.70
1948306--1948352	15	3.1	15	90	0	76	8	19	57	14	1.63
1949713--1949742	15	2.0	15	93	0	51	6	40	23	30	1.80
1967412--1967460	15	3.3	15	83	11	64	26	20	32	20	1.97
1972636--1972660	9	2.8	9	100	0	50	0	44	56	0	0.99
1987929--1987963	13	2.7	13	86	0	52	22	31	40	5	1.78
2023273--2023547	77	3.6	77	94	1	471	5	36	39	18	1.73
2034879--2034913	18	1.9	18	88	0	52	11	60	14	14	1.60
2035048--2035112	15	4.3	15	77	14	71	15	46	27	10	1.79
2035426--2035512	45	1.9	45	90	0	138	22	36	33	6	1.81
2035432--2035512	21	3.7	21	72	18	67	22	37	33	7	1.82
2035441--2035512	24	3.1	24	67	25	64	23	36	33	6	1.82
2035517--2035558	15	2.8	15	96	0	75	19	45	28	7	1.76
2035549--2035578	15	2.0	15	93	0	51	13	43	33	10	1.77
2046193--2046270	27	2.9	28	85	11	92	8	33	57	0	1.30
2049512--2049551	12	2.9	14	85	14	57	10	30	37	22	1.87
2054220--2054282	17	3.6	17	89	4	99	15	22	52	9	1.72
2059479--2059512	16	2.1	16	94	0	59	5	23	55	14	1.61
2085504--2085547	21	2.0	23	86	8	65	9	45	36	9	1.68
2090321--2090372	15	3.5	15	89	0	86	25	26	48	0	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2094833--2094892	27	2.2	28	82	8	79	6	36	46	10	1.64
2096110--2096138	15	1.9	15	100	0	58	13	44	41	0	1.44
2148219--2148257	21	1.9	20	89	5	60	20	33	41	5	1.74
2149769--2149801	13	2.5	13	95	0	57	18	15	51	15	1.77
2161016--2161053	16	2.4	16	86	8	51	23	15	21	39	1.92
2161704--2161743	20	2.0	20	85	0	53	5	50	40	5	1.46
2169270--2169318	15	2.9	18	73	17	59	12	32	46	8	1.71
2186196--2186223	12	2.3	12	100	0	56	14	35	42	7	1.73
2231894--2231953	30	2.0	29	84	12	77	10	33	45	11	1.74
2276698--2276737	18	2.2	18	86	8	55	7	27	47	17	1.74
2288894--2288926	17	2.0	17	88	5	50	21	12	57	9	1.62
2291897--2291930	10	3.3	10	84	8	50	8	32	58	0	1.29
2298590--2298647	24	2.4	24	79	0	71	8	18	48	24	1.76
2304145--2304176	16	2.0	16	100	0	64	18	25	37	18	1.94
2304147--2304184	16	2.4	16	90	0	58	21	26	31	21	1.98
2304186--2304220	14	2.5	14	100	0	70	8	31	34	25	1.86
2304181--2304240	14	4.1	14	86	4	57	11	31	35	21	1.90
2362373--2362403	15	2.1	15	100	0	62	0	22	51	25	1.48
2397607--2397633	14	1.9	14	100	0	54	14	44	33	7	1.73
2399129--2399158	9	3.3	9	95	0	51	0	20	46	33	1.51
2433644--2433678	18	1.9	18	88	0	52	17	42	40	0	1.49
2445953--2445994	21	2.0	20	86	4	57	7	61	26	4	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2459278--2459306	12	2.5	12	94	5	51	13	55	24	6	1.63
2463371--2463443	15	4.7	15	79	5	83	13	39	27	19	1.89
2486706--2486735	15	1.9	16	93	6	53	6	53	40	0	1.27
2504290--2504340	19	2.7	19	96	3	95	3	13	54	27	1.56
2515076--2515115	15	2.7	14	81	11	53	20	30	37	12	1.89
2515276--2515313	15	2.5	15	91	0	67	15	31	36	15	1.90
2527919--2527968	16	3.0	17	94	5	93	12	18	52	18	1.75
2562940--2562968	14	2.0	15	93	6	51	10	34	34	20	1.87
2587696--2587747	15	3.5	15	86	0	77	23	38	23	15	1.92
2602513--2602547	18	1.9	18	88	0	52	14	45	31	8	1.75
2604398--2604423	13	2.0	13	100	0	52	7	53	30	7	1.57
2615994--2616038	23	2.0	23	82	8	56	15	37	35	11	1.83
2629998--2630039	18	2.2	19	83	8	50	9	30	47	11	1.72
2632885--2632911	14	1.9	14	100	0	54	0	44	55	0	0.99
2682613--2682653	21	2.0	20	90	4	64	17	34	39	9	1.82
2692800--2692839	21	1.9	21	84	0	53	22	32	40	5	1.76
2703213--2703255	21	2.0	21	86	0	59	23	51	16	9	1.73
2709868--2709907	20	2.1	19	85	4	53	2	52	42	2	1.28
2743238--2743284	24	2.0	24	82	0	58	4	27	38	29	1.76
2746673--2746707	15	2.2	16	90	5	54	2	51	40	5	1.40
2758242--2758279	18	2.2	17	90	4	58	5	42	39	13	1.66
2786297--2786538	78	3.1	78	98	0	459	12	33	45	9	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2789831--2789865	14	2.5	14	100	0	70	14	37	40	8	1.76
2799406--2799446	21	1.9	22	85	5	57	12	31	56	0	1.36
2799699--2799739	21	1.9	22	85	5	57	17	41	36	4	1.71
2799920--2799967	21	2.3	21	82	13	55	12	52	33	2	1.51
2802390--2802428	18	2.1	18	80	9	51	0	28	48	23	1.51
2807286--2807360	15	5.0	15	88	0	114	16	32	40	12	1.84
2821079--2821125	24	1.9	25	82	4	60	17	44	34	4	1.68
2850319--2850352	17	1.9	17	88	5	50	2	23	41	32	1.69
2878169--2878244	27	2.8	27	95	2	134	9	17	56	17	1.65
2878612--2878653	15	2.8	16	82	10	61	14	33	42	9	1.78
2880033--2880087	24	2.3	24	81	6	67	7	34	47	10	1.66
2891806--2891892	18	4.8	18	80	5	86	3	49	24	22	1.65
2891806--2891892	36	2.4	36	84	3	104	3	49	24	22	1.65
2891826--2891917	18	5.1	18	80	7	71	3	46	27	22	1.67
2891867--2891919	18	2.9	18	88	5	72	1	41	32	24	1.66
2933903--2933958	28	2.0	27	82	3	67	10	35	44	8	1.71
2948098--2948151	18	3.0	18	86	0	81	0	29	33	37	1.58
2954458--2954492	18	2.1	16	89	10	52	5	42	42	8	1.59
2954481--2954540	27	2.2	27	85	11	79	8	43	40	8	1.65
2960227--2960266	21	1.9	21	85	10	55	7	37	45	10	1.66
2971218--2971251	15	2.3	15	90	5	52	17	32	32	17	1.94
2994709--2994757	17	2.6	20	75	18	59	8	34	57	0	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2994716--2994754	17	2.3	17	90	0	60	10	33	56	0	1.33
3029120--3029162	22	2.0	22	90	0	68	18	32	32	16	1.93
3035764--3035797	16	2.1	16	94	0	59	20	41	23	14	1.89
3038713--3038759	18	2.6	19	76	10	53	0	27	59	12	1.34
3080781--3080815	17	2.1	17	94	0	61	34	20	37	8	1.83
3085872--3085912	15	2.7	15	88	0	55	12	26	43	17	1.84
3086011--3086053	21	2.0	21	82	8	52	11	44	25	18	1.84
3098221--3098265	15	3.1	14	87	6	54	6	31	40	22	1.80
3109657--3109694	19	2.1	19	85	5	51	5	47	42	5	1.48
3110776--3110806	15	2.1	15	93	0	53	25	45	19	9	1.81
3152401--3152435	18	1.9	18	88	0	52	34	34	31	0	1.58
3155000--3155212	63	3.4	63	81	0	255	8	42	37	11	1.72
3155897--3155949	21	2.5	21	87	6	72	16	39	35	7	1.78
3183959--3184238	75	3.7	75	99	0	542	12	46	30	10	1.76
3218220--3218267	24	2.0	24	87	0	69	16	41	25	16	1.89
3270530--3270580	12	4.2	12	76	20	52	19	39	39	1	1.63
3290335--3290377	21	2.0	22	82	13	54	9	46	30	13	1.75
3295107--3295150	22	2.0	21	83	12	54	4	52	31	11	1.57
3296080--3296136	18	3.2	18	78	9	71	15	33	33	17	1.92
3312924--3313349	27	15.6	27	82	5	392	7	46	34	11	1.69
3313433--3313474	15	2.8	15	85	0	66	0	33	50	16	1.46
3316081--3316117	15	2.5	15	87	12	51	0	35	54	10	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3321680--3321739	15	4.0	15	75	16	52	8	53	35	3	1.48
3325005--3325029	12	2.1	12	100	0	50	16	44	40	0	1.47
3342430--3342472	21	2.0	22	86	4	61	0	55	32	11	1.36
3354240--3354279	15	2.6	15	84	4	53	15	50	25	10	1.74
3355653--3355732	30	2.9	26	78	12	88	5	47	33	13	1.65
3355756--3355854	33	3.1	32	77	16	107	5	40	36	18	1.72
3356899--3356927	14	2.0	15	93	6	51	0	51	34	13	1.42
3375603--3375636	15	2.3	15	94	0	59	14	52	32	0	1.42
3376959--3376985	10	2.7	10	100	0	54	0	18	33	48	1.49
3386820--3386859	18	2.3	18	86	4	55	0	25	50	25	1.50

Tables:   1   2   3   4   5   6   7