genome.fa.s4.2.7.7.80.10.50.1000.41.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: chr4
Parameters: 2 7 7 80 10 50 1000
Length:  31929104

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   

This is table  41  of  82  ( 9773 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)
15223393--15223438	21	2.2	21	85	11	60	69	0	30	0	0.89
15224499--15224530	2	16.0	2	100	0	64	50	0	0	50	1.00
15224902--15224957	25	2.2	25	87	6	78	28	19	26	25	1.99
15226360--15226421	26	2.4	26	94	0	106	32	40	3	24	1.71
15226656--15226736	42	1.9	42	94	0	144	22	34	22	20	1.97
15231910--15231949	2	20.0	2	100	0	80	50	0	0	50	1.00
15231883--15232017	68	2.0	67	98	0	252	42	8	5	42	1.60
15231976--15232017	2	21.0	2	100	0	84	50	0	0	50	1.00
15235398--15235430	13	2.5	13	95	0	57	24	18	24	33	1.97
15267629--15267724	42	2.4	41	81	6	115	37	10	16	35	1.83
15268085--15268112	2	14.0	2	100	0	56	50	0	0	50	1.00
15283939--15284079	74	1.9	74	94	0	246	40	6	8	44	1.60
15290931--15290970	20	2.0	20	85	0	53	15	37	7	40	1.75
15291039--15291074	2	18.0	2	100	0	72	0	50	0	50	1.00
15291841--15291913	37	2.0	37	91	0	119	31	10	35	21	1.88
15291960--15291994	2	17.5	2	100	0	70	48	0	0	51	1.00
15292126--15292200	30	2.5	30	95	0	132	30	22	21	25	1.99
15295111--15295143	2	16.5	2	100	0	66	51	0	0	48	1.00
15300740--15300772	15	2.3	15	89	5	50	6	6	57	30	1.47
15305302--15305413	36	3.1	36	83	7	147	40	3	8	48	1.50
15305384--15305429	22	2.1	22	87	0	65	32	6	13	47	1.68
15308690--15308718	14	2.0	15	93	6	51	27	0	3	68	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15316681--15316746	30	2.2	31	83	8	82	37	9	12	40	1.74
15319511--15319554	21	2.1	21	86	0	61	34	25	6	34	1.82
15336296--15336336	19	2.2	20	82	13	59	51	0	2	46	1.14
15336697--15336787	2	45.0	2	86	2	128	52	1	0	45	1.08
15336685--15336777	24	3.9	24	85	5	73	54	1	1	41	1.14
15337319--15337392	33	2.1	34	78	14	80	31	12	27	29	1.92
15337644--15337698	25	2.2	24	87	6	74	43	14	27	14	1.84
15340649--15340860	72	2.9	72	87	2	291	38	14	18	28	1.90
15341036--15341225	71	2.7	71	80	1	202	30	21	27	21	1.98
15343659--15343769	57	1.9	57	96	0	204	36	12	11	38	1.80
15356358--15356395	12	3.1	13	88	7	53	0	26	2	71	1.00
15356358--15356394	18	2.1	18	89	0	56	0	27	2	70	1.01
15365941--15365970	2	15.0	2	92	0	51	53	46	0	0	1.00
15368232--15368345	22	5.2	22	78	2	104	25	10	19	44	1.82
15368335--15368413	23	3.5	22	84	6	88	24	8	29	37	1.85
15368427--15368494	21	3.2	21	85	2	91	44	17	11	26	1.83
15368425--15368496	22	3.3	22	82	3	101	44	16	11	27	1.82
15368533--15368574	22	1.9	22	90	0	66	40	16	7	35	1.76
15369284--15369551	133	2.0	134	88	2	396	36	7	14	41	1.74
15371917--15371972	29	1.9	29	85	7	78	32	8	3	55	1.48
15371957--15372022	31	2.2	31	88	2	98	28	3	7	60	1.39
15372086--15372151	33	2.0	33	82	5	80	42	7	13	36	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15390425--15390461	18	2.1	18	90	5	58	75	0	0	24	0.80
15391708--15391763	29	1.9	29	96	0	103	23	10	23	42	1.85
15398732--15398761	15	2.0	15	93	0	51	50	0	0	50	1.00
15404042--15404073	16	2.0	16	100	0	64	31	6	25	37	1.81
15406335--15406359	2	12.5	2	100	0	50	52	0	0	48	1.00
15407088--15407127	21	1.9	21	90	10	64	52	15	10	22	1.71
15413381--15413405	6	4.2	6	100	0	50	0	0	36	64	0.94
15420746--15420784	20	2.0	20	89	0	60	38	7	5	48	1.54
15421358--15421390	17	1.9	17	93	0	57	54	33	0	12	1.37
15425683--15425729	22	2.1	22	96	0	85	42	4	0	53	1.20
15425689--15425746	21	2.7	21	83	5	62	43	1	0	55	1.10
15434511--15434538	3	9.3	3	100	0	56	32	0	32	35	1.58
15435733--15435772	21	1.9	21	84	0	53	47	0	7	45	1.31
15435806--15436466	338	2.0	339	84	5	883	45	6	7	41	1.57
15437226--15437261	3	12.0	3	100	0	72	66	0	0	33	0.92
15441603--15441640	17	2.1	19	90	9	62	55	0	2	42	1.14
15442334--15442683	64	5.4	67	80	8	198	39	14	9	36	1.78
15442351--15448779	254	25.3	254	99	0	12486	37	15	11	35	1.84
15495559--15495605	20	2.3	20	85	3	58	55	0	6	38	1.26
15520890--15520945	26	2.2	26	93	0	94	44	0	21	33	1.52
15520904--15520955	26	2.0	26	88	0	77	46	1	19	32	1.61
15521058--15521099	5	8.0	5	86	7	57	23	16	2	57	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15521059--15521100	21	2.0	21	90	9	68	23	14	4	57	1.56
15521133--15521430	72	4.0	72	79	9	299	14	22	16	46	1.84
15527497--15527528	12	2.7	12	95	0	55	28	34	3	34	1.73
15533954--15534021	30	2.3	30	89	0	100	48	5	32	13	1.66
15534008--15534042	18	1.9	18	88	11	54	51	2	31	14	1.57
15534769--15534806	21	1.9	20	84	10	51	39	0	10	50	1.37
15536481--15536543	30	2.1	29	88	2	90	31	20	15	31	1.94
15537839--15537915	2	37.5	2	77	14	68	41	3	2	50	1.34
15540816--15540847	15	2.2	14	94	5	55	46	0	0	53	1.00
15542776--15542827	2	28.0	2	85	14	76	48	0	0	51	1.00
15542775--15542827	20	2.6	21	94	5	92	49	0	0	50	1.00
15542778--15542827	18	2.8	18	96	0	91	48	0	0	52	1.00
15543443--15543469	14	1.9	14	100	0	54	66	7	3	22	1.33
15544910--15544947	20	1.9	20	89	10	60	23	0	34	42	1.55
15549784--15549945	81	2.0	80	98	1	315	34	8	4	51	1.54
15549934--15549984	25	2.0	26	84	3	68	27	1	0	70	0.98
15551631--15551666	18	2.0	18	100	0	72	16	33	5	44	1.71
15552543--15552580	20	1.9	20	88	0	58	23	0	7	68	1.16
15553168--15553204	19	1.9	19	94	0	65	29	0	27	43	1.55
15556516--15556859	172	2.0	171	99	0	679	41	20	15	22	1.90
15564180--15564204	13	1.9	13	100	0	50	48	8	0	44	1.32
15565428--15565473	20	2.3	20	80	0	56	43	19	4	32	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15571457--15571503	15	3.1	15	84	0	58	51	17	2	29	1.57
15572899--15572923	13	1.9	13	100	0	50	48	8	0	44	1.32
15578529--15578569	15	2.7	16	92	7	68	48	19	4	26	1.69
15579963--15579987	13	1.9	13	100	0	50	48	8	0	44	1.32
15581116--15581168	28	1.9	27	85	11	72	26	16	20	35	1.94
15600953--15600995	20	2.1	21	86	4	61	30	20	6	41	1.79
15605299--15605337	21	1.9	21	94	5	71	30	25	10	33	1.89
15606396--15606429	17	2.0	17	100	0	68	23	11	5	58	1.55
15613031--15613162	43	3.1	44	78	4	153	25	16	35	22	1.95
15623660--15623697	15	2.4	16	82	8	51	60	0	0	39	0.97
15623828--15623877	9	5.4	9	86	13	59	76	0	0	24	0.80
15625584--15625619	2	18.0	2	88	0	54	0	50	0	50	1.00
15631038--15631067	15	2.0	15	93	0	51	36	20	10	33	1.86
15632695--15632729	17	2.1	17	94	0	61	57	0	8	34	1.29
15636309--15636345	2	18.5	2	100	0	74	0	0	48	51	1.00
15643402--15643461	23	2.6	23	94	0	102	33	41	1	23	1.64
15643471--15643572	43	2.4	43	85	3	134	17	36	20	25	1.94
15659648--15659672	13	1.9	13	100	0	50	28	0	0	72	0.86
15659906--15659945	18	2.2	18	86	0	53	52	12	2	32	1.52
15673198--15673232	2	18.0	2	94	5	63	51	0	0	48	1.00
15674408--15674521	40	2.8	40	82	2	138	14	36	5	42	1.69
15674555--15674697	37	3.6	39	75	15	116	14	34	8	42	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15677306--15677330	2	12.5	2	100	0	50	48	0	0	52	1.00
15679766--15679967	40	4.9	40	84	3	242	20	1	18	58	1.46
15680588--15680648	32	1.9	32	93	0	104	36	13	11	39	1.80
15687477--15687502	3	8.7	3	100	0	52	65	0	34	0	0.93
15691170--15691200	8	3.8	8	95	4	53	77	0	22	0	0.77
15691444--15691520	35	2.2	35	92	0	127	42	19	19	18	1.89
15691805--15691885	29	2.8	28	85	7	99	19	25	8	45	1.79
15692105--15692129	13	1.9	13	100	0	50	20	32	0	48	1.50
15692670--15692734	31	2.1	31	91	5	105	47	7	4	40	1.53
15693788--15693824	19	1.9	19	100	0	74	27	0	29	43	1.55

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