genome.fa.s4.2.7.7.80.10.50.1000.47.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  47  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)
17368469--17368521	24	2.2	24	89	0	79	39	18	16	24	1.91
17371990--17372023	16	2.1	16	88	0	50	11	8	41	38	1.73
17372415--17372443	6	4.8	6	100	0	58	86	0	0	13	0.58
17388557--17388610	27	2.0	27	82	7	65	33	20	25	20	1.97
17393328--17393367	20	2.0	20	90	0	62	17	12	47	22	1.81
17393362--17393592	111	2.1	111	90	0	365	31	20	38	9	1.84
17394219--17394251	16	2.0	17	88	5	50	63	0	9	27	1.24
17394532--17394566	3	11.7	3	87	0	52	68	0	2	28	1.04
17394530--17394605	9	8.4	9	72	20	52	72	2	3	21	1.13
17394896--17394983	3	31.7	3	74	21	61	70	1	1	27	1.01
17394896--17394983	8	10.6	9	73	23	61	70	1	1	27	1.01
17394895--17394982	29	2.9	29	82	17	92	70	1	1	27	1.01
17394915--17394960	23	1.9	23	86	8	65	69	2	0	28	1.00
17395080--17395145	24	2.8	24	76	0	69	71	3	4	21	1.18
17396133--17396162	15	2.1	15	93	6	53	13	6	13	66	1.43
17407143--17407431	37	7.6	37	80	5	301	23	13	20	43	1.86
17407136--17407404	76	3.5	75	86	3	378	24	13	20	42	1.87
17407147--17407426	113	2.5	115	85	4	381	23	13	20	43	1.86
17408041--17408267	111	2.0	111	88	1	339	29	21	39	10	1.86
17408207--17408320	58	2.0	58	92	0	192	29	21	42	7	1.79
17408211--17408339	58	2.2	59	86	4	181	33	19	40	6	1.78
17408899--17408931	16	2.0	17	88	5	50	63	0	9	27	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17409215--17409249	3	11.7	3	87	0	52	68	0	2	28	1.04
17409582--17409642	14	4.7	14	71	22	53	67	1	0	31	1.01
17409577--17409639	23	2.6	23	75	14	65	68	1	0	30	0.99
17409581--17409662	37	2.2	37	83	10	105	69	1	1	28	1.03
17409621--17409665	18	2.5	17	85	7	54	73	0	2	24	0.95
17409605--17409664	10	6.2	9	75	19	50	73	0	1	25	0.93
17409764--17409835	25	2.9	26	71	8	69	68	2	5	23	1.24
17413275--17413366	45	2.0	45	93	4	159	45	4	6	42	1.49
17418514--17418550	2	18.5	2	100	0	74	48	0	51	0	1.00
17433308--17433340	7	4.7	7	96	0	57	69	0	27	3	1.03
17436103--17436132	15	2.0	15	93	0	51	26	3	0	70	1.03
17436376--17436413	17	2.2	18	85	4	51	21	2	2	73	1.07
17436672--17436724	3	17.3	3	79	11	54	24	3	0	71	1.02
17436672--17436725	13	4.1	13	79	11	56	24	3	0	72	1.01
17437971--17438023	21	2.5	21	81	0	61	15	9	52	22	1.70
17439854--17439906	16	3.3	15	87	12	70	3	15	0	81	0.83
17439854--17439907	9	6.2	9	72	14	51	3	14	0	81	0.82
17439853--17439907	25	2.3	24	84	6	67	3	16	0	80	0.86
17439853--17439909	24	2.4	24	80	14	64	3	19	0	77	0.92
17443555--17443581	3	9.0	3	100	0	54	66	0	33	0	0.92
17447207--17447284	37	2.1	37	95	2	140	21	16	2	58	1.49
17447345--17447384	17	2.3	17	87	12	55	30	2	0	67	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17450078--17450115	16	2.3	17	86	4	51	76	0	2	21	0.91
17450077--17450119	17	2.5	17	82	17	54	76	0	2	20	0.89
17450425--17450467	11	4.2	10	82	11	52	69	2	9	18	1.26
17450623--17451135	275	1.9	275	92	0	875	30	10	41	17	1.83
17452105--17452146	7	5.9	7	85	2	57	83	2	0	14	0.75
17452103--17452146	21	2.0	22	91	4	72	81	4	0	13	0.83
17452285--17452351	23	3.1	20	74	21	64	70	1	2	25	1.10
17464444--17464770	37	8.8	37	86	3	415	21	15	21	41	1.89
17464894--17464931	16	2.3	17	86	4	51	76	0	5	18	0.97
17464893--17464950	17	3.3	17	77	20	57	75	0	8	15	1.02
17465436--17465977	277	2.0	276	91	1	870	30	10	42	17	1.83
17467058--17467099	7	5.9	7	85	2	57	83	2	0	14	0.75
17467056--17467099	21	2.0	22	91	4	72	81	4	0	13	0.83
17467238--17467304	23	3.1	20	74	21	64	70	1	1	26	1.05
17467247--17467297	17	3.1	17	77	8	52	70	1	0	27	0.98
17467211--17467297	14	6.6	13	68	9	52	68	1	4	25	1.15
17469267--17469326	30	1.9	32	86	6	88	21	11	3	63	1.42
17469724--17469766	14	2.9	14	77	12	50	34	18	20	25	1.96
17473938--17474264	39	8.4	39	84	1	440	14	18	19	48	1.82
17474836--17474867	16	2.0	16	93	0	55	28	6	15	50	1.68
17481303--17481381	40	2.0	40	84	0	104	21	18	21	37	1.94
17485739--17485878	31	4.5	31	92	0	217	24	20	19	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17489403--17489853	118	3.8	117	87	3	584	21	20	27	30	1.98
17489395--17489876	236	2.0	235	85	2	662	21	20	28	29	1.98
17503736--17503938	31	6.6	30	90	3	289	37	19	18	24	1.94
17504277--17504330	27	2.0	27	96	0	99	25	31	12	29	1.93
17504687--17504826	71	2.0	71	81	0	163	27	30	16	25	1.97
17504726--17504778	24	2.2	24	86	0	70	24	28	20	26	1.99
17504752--17504920	47	3.6	47	84	1	187	23	31	19	25	1.98
17505004--17505061	23	2.5	24	85	2	73	25	34	15	24	1.95
17505006--17505061	24	2.4	23	84	3	67	26	35	14	23	1.93
17504939--17505094	58	2.7	58	79	2	161	25	35	15	23	1.94
17509940--17509977	15	2.4	16	86	8	51	28	0	0	71	0.87
17520721--17520772	17	2.9	16	76	20	50	40	11	1	46	1.51
17528932--17529002	23	3.1	23	89	0	115	18	16	26	38	1.92
17529097--17529158	22	2.8	21	73	7	52	24	9	22	43	1.83
17531039--17531152	24	4.9	24	71	10	110	30	15	30	22	1.95
17531044--17531168	24	5.3	24	72	5	67	31	16	30	22	1.95
17531026--17531183	69	2.3	69	83	4	212	31	15	30	23	1.95
17532790--17532846	26	2.3	25	87	6	80	24	10	5	59	1.51
17533079--17533266	92	2.0	92	88	2	279	29	13	23	32	1.93
17533079--17533216	46	3.0	45	65	2	114	28	12	24	34	1.92
17533103--17533239	46	3.0	45	69	2	103	30	11	24	33	1.91
17538625--17538668	19	2.3	19	100	0	88	20	27	15	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17539954--17540315	117	3.1	117	85	4	486	46	25	10	17	1.80
17540282--17540438	83	1.8	85	85	5	219	40	26	15	17	1.89
17541786--17541819	15	2.3	15	94	0	59	38	14	14	32	1.87
17541697--17541894	103	1.9	103	90	0	315	37	23	12	26	1.90
17556927--17556955	3	9.7	3	100	0	58	34	0	0	65	0.93
17557797--17557857	30	2.1	29	90	3	95	54	6	6	32	1.52
17563335--17563359	10	2.5	10	100	0	50	8	0	0	92	0.40
17584133--17584159	6	4.5	6	100	0	54	62	0	0	37	0.95
17586624--17586764	35	4.0	35	86	1	185	23	34	12	30	1.91
17586862--17586923	2	31.0	2	96	0	115	50	0	0	48	1.01
17587445--17587488	20	2.1	21	95	4	81	45	6	25	22	1.77
17594830--17594869	20	2.0	20	85	5	53	70	5	2	22	1.19
17596153--17596200	20	2.4	20	89	0	69	66	16	4	12	1.39
17599832--17599883	19	2.7	19	74	14	52	50	0	3	46	1.20
17600216--17600301	6	15.6	5	84	12	59	54	0	1	44	1.07
17600235--17600304	2	37.0	2	88	11	112	51	0	0	48	1.00
17600226--17600301	22	3.2	25	80	14	97	53	0	0	46	1.00
17600963--17601047	36	2.5	34	76	14	86	28	11	27	32	1.92
17600989--17601073	36	2.4	34	83	11	93	28	16	23	31	1.96
17601203--17601253	5	10.6	5	85	10	63	78	1	17	1	0.94
17601240--17601296	27	2.1	28	93	3	98	52	17	22	7	1.68
17603458--17603507	21	2.4	21	96	0	91	28	20	12	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17609858--17609891	18	1.9	17	88	5	50	0	29	5	64	1.17
17614489--17614607	37	3.2	37	88	4	177	25	36	9	28	1.87
17615217--17615247	2	15.5	2	93	0	53	0	45	0	54	0.99
17615439--17615477	20	2.0	20	85	5	53	43	12	30	12	1.81
17621581--17621620	20	2.0	21	90	5	64	70	7	2	20	1.24
17621610--17621655	20	2.5	19	86	10	60	65	2	0	32	1.05
17621617--17621659	16	2.7	16	79	10	52	65	4	0	30	1.13
17625098--17625149	10	5.0	10	77	13	52	26	5	21	46	1.74
17641868--17641944	23	3.5	23	78	10	97	45	14	12	27	1.81
17642404--17642437	17	2.0	17	100	0	68	17	29	0	52	1.45

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