NFAR.fasta.2.7.7.80.10.50.500.5.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  5  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)
3427611--3427658	20	2.3	21	86	10	64	10	47	41	0	1.37
3428594--3428767	76	2.3	76	91	2	287	8	42	33	15	1.77
3433256--3433291	18	2.0	18	100	0	72	11	27	33	27	1.91
3444995--3445025	16	1.9	16	100	0	62	35	38	25	0	1.56
3481054--3481087	15	2.2	16	89	5	52	8	52	35	2	1.47
3626608--3626636	12	2.4	12	100	0	58	24	41	17	17	1.90
3630671--3630703	15	2.2	15	89	10	50	12	45	33	9	1.73
3634138--3634167	15	2.0	15	93	0	51	6	56	36	0	1.26
3653454--3653479	11	2.4	11	100	0	52	19	34	26	19	1.95
3677222--3677270	22	2.2	23	82	17	68	10	46	38	4	1.57
3682676--3682711	15	2.4	15	95	0	63	13	41	22	22	1.89
3684840--3684885	22	2.1	21	84	15	58	4	41	50	4	1.42
3689229--3689286	15	3.9	15	93	0	98	8	44	31	15	1.76
3691046--3691091	15	3.1	14	84	12	56	0	34	60	4	1.16
3697833--3697877	21	2.1	21	84	8	56	2	40	40	17	1.62
3700082--3700141	16	3.7	17	78	14	65	21	36	30	11	1.89
3703032--3703122	24	3.7	24	72	12	69	31	30	37	0	1.58
3703107--3703131	12	2.1	12	100	0	50	40	20	40	0	1.52
3703079--3703134	27	2.1	27	86	6	78	33	26	39	0	1.57
3726337--3726422	15	5.6	15	80	5	66	19	32	25	22	1.97
3726337--3726422	31	2.8	31	82	3	93	19	32	25	22	1.97
3734906--3734946	21	1.9	22	85	5	57	12	53	29	4	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3739647--3739676	12	2.5	12	100	0	60	10	46	36	6	1.64
3747180--3747211	15	2.1	15	100	0	64	25	46	21	6	1.74
3794924--3794950	9	3.0	9	100	0	54	33	44	22	0	1.53
3797193--3797235	16	2.7	16	100	0	86	32	32	34	0	1.58
3848286--3848314	15	1.9	15	100	0	58	0	51	41	6	1.28
3866289--3866321	16	2.2	16	89	10	52	15	60	24	0	1.35
3871646--3871680	15	2.3	15	90	0	52	14	28	57	0	1.38
3876460--3876506	24	2.0	24	83	8	60	12	34	38	14	1.85
3879440--3879495	25	2.4	23	85	8	69	17	44	26	10	1.82
3881854--3881889	15	2.4	15	95	0	63	25	63	11	0	1.27
3910836--3910882	15	3.1	15	79	11	51	0	27	65	6	1.16
3914917--3914950	15	2.3	15	95	5	61	0	47	35	17	1.48
3917423--3917596	78	2.2	78	96	0	321	10	41	31	17	1.83
3926486--3926520	18	1.9	18	88	0	52	11	40	37	11	1.77
3933565--3933676	27	4.1	27	95	1	197	21	36	27	14	1.92
3937712--3937889	24	7.4	23	65	24	91	24	46	25	3	1.70
3937646--3937918	48	5.7	48	89	2	336	24	43	27	4	1.73
3938583--3938621	21	1.9	20	84	5	51	28	38	33	0	1.57
3942065--3942089	12	2.1	12	100	0	50	28	40	32	0	1.57
3953836--3953864	15	1.9	15	100	0	58	13	31	34	20	1.92
3971216--3971250	18	1.9	18	100	0	70	17	40	37	5	1.73
3971781--3971839	15	3.9	15	95	0	91	6	25	33	33	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3975679--3975711	15	2.1	16	88	5	50	15	51	27	6	1.66
3976649--3976752	15	7.0	14	77	11	100	30	35	32	0	1.65
3976651--3976752	30	3.4	29	82	6	116	31	34	33	0	1.65
3976649--3976752	45	2.3	45	88	3	147	30	35	32	0	1.65
3993745--3993780	19	1.9	19	94	5	65	5	38	33	22	1.77
4002079--4002119	21	1.9	22	85	5	57	14	39	41	4	1.67
4021541--4021618	23	3.4	23	100	0	156	11	39	39	8	1.73
4034452--4034497	23	2.0	23	83	12	58	4	36	36	21	1.74
4042155--4042216	16	3.9	16	86	0	79	9	22	53	14	1.70
4049985--4050015	15	2.1	15	93	0	53	9	45	25	19	1.81
4070025--4070073	15	3.2	15	88	2	62	8	42	28	20	1.80
4070032--4070076	15	2.9	15	90	3	63	6	42	28	22	1.79
4081804--4081833	13	2.3	13	94	0	51	10	50	40	0	1.36
4081886--4081915	15	2.0	15	93	0	51	6	56	23	13	1.60
4082421--4082464	21	2.1	21	91	8	72	18	25	52	4	1.64
4084412--4084460	12	4.2	12	84	2	64	0	34	51	14	1.43
4087339--4087515	77	2.3	78	90	2	268	11	45	29	12	1.78
4091418--4091467	24	2.1	24	85	3	66	10	24	28	38	1.87
4091428--4091472	24	1.9	24	90	4	74	8	22	33	35	1.85
4159763--4159803	15	2.7	15	88	11	57	0	9	48	41	1.36
4178797--4178836	19	2.1	19	100	0	80	10	25	40	25	1.86
4216167--4216226	27	2.2	27	82	5	68	6	36	46	10	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4216281--4216346	27	2.4	27	90	9	100	9	39	48	3	1.50
4216281--4216361	27	3.0	26	76	7	74	7	40	49	2	1.44
4225411--4225691	83	3.4	83	96	0	510	14	38	38	7	1.76
4229844--4229879	18	2.0	18	100	0	72	27	16	38	16	1.90
4233609--4233881	78	3.5	78	96	0	501	9	37	34	18	1.84
4236535--4236567	9	3.7	9	95	0	57	15	33	42	9	1.78
4245192--4245221	14	2.1	14	100	0	60	20	26	13	40	1.89
4255571--4255601	16	2.0	16	93	6	55	12	32	48	6	1.67
4261719--4261755	18	2.1	18	94	0	65	24	54	21	0	1.45
4271292--4271325	15	2.3	15	94	0	59	5	58	8	26	1.51
4271321--4271354	15	2.3	15	100	0	68	0	44	26	29	1.55
4281306--4281341	18	2.0	18	100	0	72	33	44	22	0	1.53
4281305--4281348	18	2.6	17	86	13	65	31	40	27	0	1.56
4288134--4288175	15	2.8	15	96	0	75	7	61	23	7	1.47
4288164--4288206	18	2.4	18	84	0	50	4	62	20	11	1.46
4288195--4288307	18	6.2	18	97	1	208	4	60	18	16	1.52
4288493--4288532	21	1.9	21	84	0	53	7	52	27	12	1.66
4288415--4288632	114	1.9	114	83	3	287	10	47	27	14	1.76
4301345--4301380	18	2.0	18	88	0	54	16	41	25	16	1.89
4306752--4306797	12	4.0	12	75	18	53	8	41	39	10	1.71
4306754--4306797	21	2.1	21	91	0	70	9	40	38	11	1.73
4306760--4306804	21	2.1	21	87	0	63	11	40	37	11	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4306837--4306864	9	3.1	9	100	0	56	0	42	14	42	1.45
4314268--4314334	15	4.5	15	90	0	98	2	19	56	20	1.55
4316969--4317008	21	1.9	21	85	10	55	7	32	40	20	1.80
4317931--4317981	24	2.1	24	82	7	59	5	52	23	17	1.66
4321011--4321069	30	2.0	30	82	0	73	23	23	25	27	2.00
4327653--4327706	27	2.0	26	86	10	74	11	44	37	7	1.68
4337390--4337433	18	2.4	18	78	14	54	6	40	38	13	1.71
4354347--4354392	15	2.8	17	74	12	51	0	56	39	4	1.19
4360666--4360718	15	3.3	15	76	19	54	0	33	33	32	1.58
4360664--4360732	18	4.0	18	75	17	74	0	30	37	31	1.58
4360710--4360752	21	2.0	21	95	0	77	0	20	46	32	1.51
4360752--4360794	15	2.9	15	92	0	68	6	34	37	20	1.80
4360919--4360950	15	2.1	15	100	0	64	0	25	43	31	1.55
4360880--4360981	36	2.9	36	81	4	111	0	29	39	31	1.57
4360956--4360985	15	2.0	15	100	0	60	0	40	26	33	1.57
4373393--4373433	20	2.0	21	95	4	75	39	31	24	4	1.76
4373452--4373517	15	4.1	15	74	14	69	16	36	24	22	1.94
4373458--4373494	19	1.9	19	100	0	74	16	40	21	21	1.91
4381819--4381859	15	2.4	18	73	23	52	21	39	39	0	1.54
4381827--4381858	15	2.1	15	94	0	55	18	37	43	0	1.51
4401286--4401320	18	1.9	18	100	0	70	5	31	51	11	1.61
4404083--4404186	24	4.3	24	68	4	66	12	33	45	8	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4404243--4404441	24	8.3	24	76	2	148	21	37	37	4	1.74
4404252--4404438	72	2.6	72	81	6	200	20	36	37	4	1.74
4404243--4404441	48	4.1	48	77	6	179	21	37	37	4	1.74
4405646--4405683	20	1.9	20	84	10	51	7	31	50	10	1.66
4407385--4407421	18	2.1	18	100	0	74	10	40	43	5	1.63
4413495--4413559	22	3.0	22	90	4	105	18	53	21	6	1.66
4413479--4413576	44	2.2	44	81	3	126	17	52	22	8	1.71
4414409--4414473	16	4.1	16	85	0	85	16	27	40	15	1.89
4414406--4414471	32	2.1	32	88	0	96	16	27	39	16	1.90
4452103--4452136	15	2.3	15	94	0	59	17	35	47	0	1.48

Tables:   1   2   3   4   5   6   7