genome.fa.s3.2.7.7.80.10.50.1000.17.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: chr3
Parameters: 2 7 7 80 10 50 1000
Length:  36364294

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   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  17  of  91  ( 10898 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)
5414617--5414906	122	2.4	122	87	3	413	26	16	30	27	1.97
5416487--5416603	54	2.2	54	80	4	121	29	6	24	38	1.81
5423305--5423329	2	12.5	2	100	0	50	52	48	0	0	1.00
5423329--5423377	2	24.5	2	100	0	98	51	0	0	48	1.00
5424767--5424797	2	15.5	2	93	0	53	54	0	0	45	0.99
5426545--5426625	33	2.4	34	83	6	112	50	9	7	32	1.63
5426997--5427034	19	2.0	19	94	0	67	55	0	0	44	0.99
5434973--5435036	2	31.0	2	87	6	92	46	0	4	46	1.23
5442389--5442766	204	1.8	204	86	1	542	44	9	11	34	1.73
5445048--5445085	19	2.0	19	94	0	67	42	28	0	28	1.56
5448164--5448195	2	16.0	2	100	0	64	50	0	0	50	1.00
5449668--5449864	85	2.3	86	83	4	240	40	8	10	40	1.71
5451384--5451490	21	4.9	21	71	18	58	33	7	50	8	1.61
5451383--5451469	37	2.5	35	83	10	101	33	9	50	6	1.61
5452457--5452506	21	2.5	20	84	9	59	70	2	4	24	1.15
5452474--5452517	16	2.8	16	83	13	56	75	0	2	22	0.92
5456515--5456891	206	1.8	205	87	0	565	45	8	12	33	1.71
5458801--5458829	2	14.5	2	100	0	58	51	0	0	48	1.00
5464744--5465201	229	2.0	229	100	0	916	36	14	19	29	1.91
5467719--5467793	36	2.1	36	100	0	150	40	14	13	32	1.85
5468626--5468709	24	3.5	25	73	14	95	34	7	10	47	1.66
5468617--5468709	48	1.9	48	95	0	168	33	8	10	47	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5474117--5474151	10	3.4	10	96	4	61	40	25	2	31	1.70
5475961--5476002	2	21.0	2	100	0	84	50	0	0	50	1.00
5495422--5495448	8	3.4	8	100	0	54	77	0	11	11	0.99
5495423--5495477	23	2.5	22	76	5	56	72	0	12	14	1.12
5498426--5498450	13	1.9	13	100	0	50	48	8	0	44	1.32
5499695--5499732	20	1.9	20	94	0	67	42	21	7	28	1.81
5500136--5500184	19	2.6	19	87	6	64	36	2	2	59	1.21
5500458--5500544	43	2.0	43	95	0	156	29	1	25	43	1.62
5503019--5503073	28	2.0	28	85	0	74	20	1	18	60	1.46
5505933--5506015	29	2.7	31	85	7	116	38	16	13	31	1.87
5505933--5506028	29	3.3	28	83	11	88	36	17	12	33	1.88
5524088--5524146	30	2.0	30	89	0	91	50	1	3	44	1.28
5524815--5524878	29	2.3	27	78	10	67	51	1	1	45	1.20
5525033--5525137	52	2.0	52	92	3	176	38	12	4	44	1.63
5527417--5527451	17	2.1	17	94	0	61	65	14	0	20	1.26
5541484--5541531	2	24.0	2	100	0	96	50	0	0	50	1.00
5542292--5542346	22	2.6	21	80	11	67	27	3	0	69	1.05
5543438--5543470	3	11.3	3	93	6	59	30	0	0	69	0.88
5543471--5543922	38	11.8	37	81	6	420	42	19	14	24	1.88
5543471--5543922	75	5.9	75	81	7	453	42	19	14	24	1.88
5555905--5555971	27	2.5	25	76	11	71	23	5	0	70	1.09
5556263--5556308	4	11.8	4	78	21	53	21	0	0	78	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5557181--5557277	51	1.9	51	97	0	185	6	42	16	35	1.73
5557366--5557407	20	2.1	20	86	0	57	19	54	14	11	1.70
5558750--5558788	12	3.2	12	85	3	51	61	2	10	25	1.41
5561242--5561284	2	21.5	2	100	0	86	48	0	0	51	1.00
5568864--5568930	6	11.2	6	72	12	57	14	29	1	53	1.50
5568895--5568945	15	3.4	14	75	20	50	13	31	5	49	1.66
5568883--5568946	30	2.2	28	80	17	78	14	28	4	53	1.60
5568894--5568953	30	2.0	30	93	6	104	13	31	5	50	1.63
5574878--5575044	45	3.8	45	78	9	184	32	16	19	30	1.94
5575007--5575068	24	2.6	24	86	0	88	38	20	16	24	1.92
5574923--5575191	108	2.5	106	83	7	296	35	19	18	26	1.95
5575090--5575176	24	3.6	24	90	0	120	41	21	12	24	1.88
5575163--5575219	21	2.7	21	91	0	96	19	17	31	31	1.95
5575139--5575283	66	2.2	66	91	0	227	28	20	22	28	1.98
5575233--5575284	21	2.5	21	96	0	95	26	25	17	30	1.97
5575273--5575339	29	2.2	29	86	7	89	38	13	13	34	1.84
5576396--5576440	2	22.5	2	100	0	90	48	0	0	51	1.00
5589093--5589152	30	2.1	30	84	6	79	40	21	6	31	1.79
5589667--5589706	10	4.0	10	84	12	55	80	0	20	0	0.72
5589666--5589697	17	1.9	16	93	6	55	84	0	15	0	0.63
5589732--5589780	19	2.5	20	87	6	66	75	2	22	0	0.90
5589722--5589780	26	2.3	26	81	0	73	74	1	23	0	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5590193--5590410	118	1.9	116	86	1	310	39	14	12	33	1.84
5592012--5592041	2	15.0	2	100	0	60	50	0	0	50	1.00
5597292--5597358	35	1.9	35	82	14	86	22	13	37	26	1.91
5598806--5598865	28	2.1	28	96	0	111	30	5	16	48	1.67
5602004--5602074	32	2.2	33	94	2	126	28	1	19	50	1.56
5604831--5605047	109	2.0	108	100	0	425	35	11	7	46	1.67
5616279--5616324	20	2.3	20	88	7	67	32	4	17	45	1.68
5616369--5616421	28	1.9	27	88	3	79	30	18	22	28	1.98
5616369--5616427	28	2.1	28	84	6	75	30	20	23	25	1.98
5625281--5625732	175	2.6	174	80	6	482	28	26	14	30	1.95
5625281--5625772	176	2.8	175	79	4	544	28	26	15	30	1.96
5626782--5626865	41	2.0	41	88	4	125	30	21	13	34	1.91
5632317--5632705	99	4.0	98	81	5	414	32	13	12	40	1.83
5638272--5638304	2	16.5	2	100	0	66	51	0	0	48	1.00
5641351--5641414	28	2.2	29	83	2	76	45	18	6	29	1.74
5643207--5643343	61	2.2	61	84	5	195	21	17	37	23	1.94
5661835--5662226	52	7.4	52	77	6	317	21	13	18	46	1.82
5661835--5662135	105	2.8	106	82	3	354	20	12	18	48	1.80
5661881--5662226	161	2.2	153	83	7	399	21	13	18	46	1.83
5667151--5667177	6	4.5	6	100	0	54	48	0	33	18	1.49
5670202--5670285	43	2.0	43	85	4	116	26	17	34	21	1.96
5673869--5673909	21	2.1	19	86	9	55	60	9	0	29	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5679923--5679963	21	2.1	19	86	9	55	60	9	0	29	1.28
5680534--5680838	116	2.6	117	87	2	443	37	15	15	32	1.89
5703511--5703563	27	2.0	27	92	0	88	32	13	22	32	1.92
5706223--5706261	14	2.9	14	85	14	55	10	23	7	58	1.56
5710042--5710131	24	3.7	24	80	1	90	38	15	27	17	1.90
5716888--5716928	18	2.3	18	87	8	57	75	0	4	19	0.98
5717152--5717190	13	3.2	12	86	13	53	74	0	2	23	0.94
5722689--5722719	16	1.9	16	93	0	53	22	0	16	61	1.34
5729058--5729087	16	1.9	16	93	6	53	63	3	33	0	1.11
5730243--5730384	39	3.6	39	90	1	205	25	14	34	26	1.94
5742784--5742829	11	3.5	13	77	17	51	73	2	4	19	1.10
5742781--5742846	25	2.6	24	83	7	69	71	3	6	19	1.21
5745175--5745567	198	2.0	198	88	1	590	30	17	19	33	1.95
5756525--5756559	2	17.0	2	88	5	52	45	2	0	51	1.16
5762513--5762562	5	10.2	5	78	4	57	0	24	2	74	0.93
5771701--5771755	21	2.6	21	94	0	92	40	21	16	21	1.91
5777103--5777160	28	2.1	28	93	0	98	22	5	22	50	1.69
5783524--5783781	43	6.1	43	82	6	276	27	18	31	21	1.97
5783553--5783781	83	2.7	86	85	8	324	27	17	32	21	1.96
5786354--5786421	25	2.7	25	84	4	84	47	8	13	30	1.73
5787591--5787634	20	2.2	20	83	0	52	31	6	18	43	1.76
5787843--5787872	15	2.0	15	93	0	51	43	6	3	46	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5804295--5804319	2	12.5	2	100	0	50	52	0	0	48	1.00
5806013--5806109	4	21.5	4	69	19	50	0	31	2	65	1.04
5806036--5806090	10	5.7	10	77	14	62	0	38	1	60	1.08
5806036--5806090	19	2.8	20	71	17	62	0	38	1	60	1.08
5806020--5806108	29	3.2	28	87	6	119	0	32	2	65	1.05
5808002--5808052	18	2.6	19	87	9	68	47	13	9	29	1.75
5808047--5808136	20	4.7	20	68	15	64	57	2	0	40	1.11
5808313--5808376	18	3.6	18	86	0	83	48	17	10	23	1.78
5825540--5825690	71	2.1	71	97	0	284	23	14	20	41	1.89
5825650--5825924	131	2.1	131	91	1	435	27	16	17	38	1.91

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   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91