genome.fa.s9.2.7.7.80.10.50.1000.15.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: chr9
Parameters: 2 7 7 80 10 50 1000
Length:  38630433

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   92   93   94   95   96   
          97   

This is table  15  of  97  ( 11551 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)
7233747--7233811	32	2.0	32	96	0	121	38	6	38	16	1.74
7234968--7235071	2	51.0	2	83	9	113	46	2	3	46	1.36
7238315--7238390	16	4.9	16	75	4	66	46	0	2	51	1.15
7238317--7238359	20	2.2	20	83	8	52	44	0	2	53	1.13
7238320--7238387	31	2.3	29	80	9	77	45	0	2	51	1.16
7241572--7241625	2	27.5	2	92	3	92	51	0	0	48	1.00
7245507--7245554	14	3.4	14	77	11	53	60	14	2	22	1.45
7245510--7245559	16	3.4	16	73	21	54	60	12	2	26	1.43
7245507--7245561	28	2.0	28	96	0	101	61	12	1	23	1.40
7254819--7254862	2	22.5	2	81	4	54	0	45	2	52	1.13
7261014--7261066	16	3.2	16	76	15	54	79	0	11	9	0.94
7262032--7262083	21	2.5	21	81	6	61	28	13	25	32	1.93
7263191--7263281	43	2.1	44	85	6	123	37	9	6	46	1.63
7263205--7263292	43	2.0	43	82	8	106	40	11	7	39	1.70
7270776--7270827	24	2.2	24	82	6	61	51	0	1	46	1.12
7275359--7275408	23	2.3	21	89	6	73	0	58	0	42	0.98
7288911--7288952	19	2.2	19	83	8	50	52	0	2	45	1.13
7291041--7291082	22	2.0	22	86	9	61	19	7	11	61	1.52
7296737--7296787	20	2.8	18	78	16	52	60	11	0	27	1.31
7301487--7301555	2	34.5	2	94	5	122	49	0	0	49	1.01
7306541--7306581	21	2.0	21	85	4	57	31	7	7	53	1.56
7306552--7306597	21	2.2	21	92	0	74	26	10	4	58	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7309682--7309715	3	11.3	3	100	0	68	35	0	0	64	0.94
7315413--7315724	63	5.0	63	84	8	370	51	1	8	37	1.43
7315656--7315706	24	2.2	24	85	3	68	56	0	5	37	1.23
7325077--7325111	17	2.0	18	88	5	54	11	20	0	68	1.20
7337603--7337730	42	3.0	42	72	9	114	21	15	42	21	1.89
7337932--7337962	5	6.2	5	96	0	53	25	0	54	19	1.44
7340787--7340816	2	15.0	2	100	0	60	50	0	0	50	1.00
7349384--7349548	26	6.6	26	77	9	146	27	10	22	39	1.86
7349403--7349540	46	2.8	48	78	9	118	28	9	21	39	1.85
7349392--7349525	72	1.9	72	80	3	162	27	8	22	41	1.84
7349537--7349611	21	3.6	21	94	0	123	21	14	26	37	1.92
7349597--7349666	26	2.7	26	88	0	104	25	12	24	37	1.91
7349646--7349756	23	4.8	23	78	9	84	26	11	27	35	1.91
7349787--7349842	21	2.6	22	72	11	62	46	19	8	25	1.79
7350295--7350386	46	2.0	46	100	0	184	54	15	8	21	1.68
7351161--7351250	30	3.0	30	93	0	162	28	13	32	25	1.93
7353988--7354022	17	2.1	17	88	0	52	14	8	5	71	1.29
7360769--7360815	17	2.9	16	81	12	51	2	34	0	63	1.06
7374569--7374608	21	1.9	21	89	0	62	7	12	12	67	1.41
7376532--7376591	30	2.1	29	81	6	68	30	6	23	40	1.80
7384067--7384091	13	1.9	13	100	0	50	48	8	0	44	1.32
7385148--7385177	15	2.1	14	93	6	51	13	36	6	40	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7386995--7387100	26	4.1	26	75	4	90	32	17	12	37	1.87
7391589--7391621	2	16.5	2	100	0	66	51	0	0	48	1.00
7419675--7419719	15	3.1	15	79	20	51	24	4	0	71	1.05
7420041--7420105	24	2.7	23	81	9	78	32	3	1	63	1.19
7424278--7424340	27	2.3	27	94	2	108	23	22	11	42	1.85
7426470--7426770	160	1.9	159	94	2	532	34	18	14	32	1.91
7426841--7426884	17	2.4	20	82	17	60	84	2	11	2	0.81
7433203--7433259	25	2.3	25	79	14	64	50	5	3	40	1.42
7449809--7449846	20	1.9	20	88	0	58	0	52	0	47	1.00
7449995--7450045	4	12.8	4	100	0	102	50	23	0	25	1.49
7450777--7450807	3	10.3	3	92	0	53	32	35	0	32	1.58
7455311--7455359	21	2.2	23	82	7	57	48	0	6	44	1.27
7455187--7455582	218	1.8	218	89	0	630	47	4	6	41	1.49
7457885--7457949	14	4.6	14	74	22	55	43	1	0	55	1.09
7458248--7458375	67	1.9	68	91	1	213	40	3	4	50	1.42
7458251--7458352	23	4.5	22	70	17	75	40	4	3	50	1.43
7458272--7458365	22	4.2	22	68	17	68	39	3	4	52	1.37
7458508--7458546	17	2.2	17	86	9	51	43	5	0	51	1.24
7458306--7458766	212	2.1	216	86	7	636	41	5	4	48	1.46
7464647--7464782	66	2.1	66	95	0	245	37	19	12	30	1.89
7465973--7466011	20	1.9	21	89	5	62	74	7	17	0	1.05
7468260--7468306	11	4.5	11	79	15	55	19	0	6	74	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7468259--7468306	21	2.3	21	92	7	80	18	0	6	75	1.01
7468281--7468335	27	2.0	29	85	7	78	29	0	3	67	1.08
7468281--7468318	13	2.8	14	84	8	51	26	0	2	71	1.00
7468555--7468604	26	1.9	26	88	8	75	38	0	0	62	0.96
7468557--7468614	28	2.2	26	81	12	64	44	0	0	55	0.99
7468552--7468614	32	2.0	32	81	12	76	42	0	0	57	0.99
7468993--7469026	16	2.1	16	88	5	50	58	5	0	35	1.22
7483548--7483572	2	12.5	2	100	0	50	52	0	48	0	1.00
7486162--7486194	17	1.9	17	93	0	57	60	0	12	27	1.32
7489460--7489489	10	3.0	10	90	0	51	63	6	10	20	1.47
7491405--7491444	15	2.8	15	79	20	50	67	0	0	32	0.91
7492525--7492555	2	15.5	2	100	0	62	51	0	0	48	1.00
7498284--7498741	218	2.1	216	82	5	546	41	5	5	47	1.50
7501334--7501393	8	7.4	8	73	16	52	51	0	0	48	1.00
7520537--7520577	21	1.9	22	85	5	57	24	4	12	58	1.53
7523062--7523103	22	1.9	22	100	0	84	33	19	4	42	1.72
7523769--7523828	22	2.7	22	78	0	66	30	6	16	46	1.73
7524541--7524623	33	2.5	33	82	5	87	26	4	1	67	1.18
7524569--7524634	14	4.9	14	73	15	50	28	1	0	69	0.97
7524599--7524718	24	4.3	27	71	21	79	30	3	0	65	1.08
7524649--7524717	32	2.2	32	87	12	106	28	2	0	68	1.04
7525124--7525172	15	3.4	15	83	5	57	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7531520--7531559	12	3.3	12	83	13	55	37	0	0	62	0.95
7531749--7531792	21	2.0	21	82	8	52	77	2	11	9	1.08
7535900--7535974	39	1.9	38	86	2	105	32	1	1	65	1.09
7535942--7536048	55	1.9	57	85	11	150	30	3	0	64	1.17
7535995--7536083	33	2.7	34	85	13	116	31	2	0	66	1.04
7536028--7536086	20	2.9	21	77	10	68	33	1	0	64	1.04
7537579--7537637	26	2.2	27	81	6	75	20	28	22	28	1.98
7539187--7539266	42	2.0	41	85	7	110	41	21	13	23	1.89
7539647--7539692	18	2.6	18	85	0	56	50	19	6	23	1.71
7554895--7555030	69	2.0	69	82	5	168	32	19	29	19	1.96
7559012--7559042	8	3.9	8	95	0	53	51	0	6	41	1.27
7569127--7569179	23	2.3	23	100	0	106	54	11	22	11	1.67
7569521--7569622	29	3.5	29	93	0	159	48	9	26	15	1.76
7569534--7569613	14	5.3	17	64	27	63	47	11	27	13	1.77
7569871--7569978	35	3.1	35	84	5	121	19	16	19	44	1.87
7570420--7570556	67	2.0	67	94	0	238	35	16	27	20	1.94
7571968--7572018	25	2.2	22	82	10	57	41	0	11	47	1.40
7592829--7592881	24	2.2	24	83	3	63	47	3	47	1	1.31
7599063--7599087	12	2.1	12	100	0	50	28	0	32	40	1.57
7602866--7602914	24	2.0	25	84	7	66	18	4	10	67	1.36
7604092--7604121	15	2.0	15	93	0	51	30	0	0	70	0.88
7604531--7604628	42	2.3	42	85	3	126	43	14	21	20	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7604596--7604690	42	2.3	42	83	7	113	41	11	23	24	1.87
7604632--7604788	70	2.2	70	88	4	237	42	10	21	26	1.85
7604632--7604806	70	2.5	68	82	9	221	43	9	22	24	1.83
7607255--7607300	2	23.5	2	95	4	85	50	0	0	50	1.00
7607275--7607357	39	2.1	38	80	8	87	48	4	3	42	1.42
7608788--7608880	40	2.4	39	84	7	118	45	20	5	29	1.73
7624913--7625152	113	2.1	111	86	3	320	20	16	21	41	1.90
7624902--7625152	37	6.7	37	86	3	324	20	16	21	41	1.90
7625169--7625209	2	20.5	2	100	0	82	51	0	0	48	1.00
7634756--7634809	24	2.2	24	90	0	81	53	0	1	44	1.11

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   92   93   94   95   96   
          97