genome.fa.s5.2.7.7.80.10.50.1000.20.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:  30015117

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   

This is table  20  of  85  ( 10117 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)
6595907--6595961	17	3.5	15	81	16	58	29	0	1	69	0.99
6598720--6598954	32	7.4	32	80	2	249	37	20	21	20	1.94
6598957--6599010	26	2.1	26	85	0	72	37	22	22	18	1.95
6598998--6599061	27	2.4	27	80	12	71	29	23	26	20	1.99
6599126--6599207	24	3.5	24	77	12	80	50	21	6	21	1.71
6599142--6599212	23	3.0	23	81	2	70	49	23	7	19	1.73
6600488--6600535	21	2.3	21	78	7	53	29	27	27	16	1.97
6601094--6601151	28	2.0	29	86	3	82	41	13	8	36	1.76
6601345--6601668	71	4.6	71	81	1	353	33	21	22	23	1.98
6601401--6601676	36	7.8	36	72	5	202	33	21	22	22	1.97
6602426--6602461	3	13.0	3	83	16	51	27	0	0	72	0.85
6602426--6602461	5	6.5	6	93	6	51	27	0	0	72	0.85
6617025--6617212	40	4.7	40	88	3	252	34	17	30	17	1.93
6617025--6617208	80	2.3	80	88	0	278	34	16	30	17	1.93
6617048--6617195	20	7.4	20	64	11	79	35	18	31	14	1.91
6621505--6621591	23	3.7	23	84	1	84	11	22	24	41	1.87
6644004--6644098	47	2.0	47	95	0	172	40	17	11	30	1.86
6649910--6649990	18	4.8	17	79	11	78	44	19	8	27	1.80
6649928--6649999	17	4.4	17	76	13	78	50	16	9	23	1.75
6649944--6649995	14	3.4	14	76	19	59	50	17	7	25	1.72
6661608--6661654	19	2.5	18	89	3	67	29	10	8	51	1.66
6662660--6662686	10	2.7	10	100	0	54	62	11	7	18	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6663983--6664035	25	2.1	25	82	0	61	39	24	20	15	1.91
6664008--6664206	41	4.8	40	80	6	177	34	25	21	19	1.96
6664008--6664206	82	2.4	82	75	3	202	34	25	21	19	1.96
6673939--6674003	32	2.0	32	93	0	112	38	12	18	30	1.88
6674444--6674468	13	1.9	13	100	0	50	32	0	4	64	1.12
6675182--6675206	13	1.9	13	100	0	50	32	4	0	64	1.12
6676700--6676782	38	2.2	38	97	0	157	21	15	15	46	1.83
6691601--6691636	18	2.1	18	94	5	65	33	30	0	36	1.58
6695899--6695937	19	2.1	19	100	0	78	20	5	10	64	1.44
6701993--6702273	146	1.9	147	91	2	467	39	10	20	29	1.86
6702271--6702328	30	1.9	30	82	6	73	36	6	27	29	1.83
6702681--6702837	50	3.0	50	85	5	197	24	20	30	24	1.98
6714435--6714554	49	2.4	50	76	6	129	30	20	25	25	1.99
6716218--6716283	33	2.0	33	100	0	132	36	6	18	39	1.75
6716567--6716645	33	2.4	33	95	2	142	64	2	15	17	1.40
6721589--6721767	76	2.4	76	83	1	216	32	19	21	26	1.97
6721642--6721759	40	3.0	40	70	9	109	33	20	20	26	1.97
6728726--6728759	17	2.0	17	94	0	59	14	23	14	47	1.82
6732880--6732940	17	3.5	17	88	4	86	55	9	0	34	1.33
6735523--6735608	45	1.9	45	95	0	154	51	17	12	18	1.76
6749098--6749213	61	1.9	59	85	3	160	54	3	3	38	1.34
6762326--6762376	18	2.9	17	82	5	66	19	5	1	72	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6762326--6762375	6	8.3	6	81	0	55	18	6	2	74	1.12
6764824--6764933	41	2.7	41	88	2	168	33	21	21	22	1.97
6765908--6765955	25	1.9	25	100	0	96	33	8	0	58	1.28
6767955--6768006	19	2.7	19	79	5	61	25	0	3	71	1.03
6767955--6768003	6	7.8	6	80	8	53	20	0	4	75	0.96
6768304--6768354	25	2.0	26	88	3	77	52	5	1	39	1.37
6775798--6775834	12	3.1	12	100	0	74	43	16	24	16	1.87
6776406--6776445	21	2.0	21	85	5	55	30	0	25	45	1.54
6778854--6778890	15	2.4	16	82	13	51	62	0	2	35	1.10
6782864--6782892	6	4.8	6	100	0	58	17	31	34	17	1.93
6806656--6806719	29	2.2	30	80	5	76	34	7	17	40	1.78
6806665--6806722	29	2.0	29	89	0	89	37	10	17	34	1.84
6808373--6808421	16	3.1	16	81	0	71	36	8	34	20	1.82
6809022--6809082	28	2.2	28	85	5	81	50	3	0	45	1.17
6808997--6809173	91	1.9	91	88	2	266	46	3	2	47	1.34
6809022--6809164	44	3.2	42	67	20	101	46	3	2	47	1.31
6813411--6813650	50	4.8	50	97	0	453	41	24	10	24	1.86
6820041--6820075	18	1.9	18	88	11	54	48	0	0	51	1.00
6824306--6824332	11	2.5	11	100	0	54	81	11	0	7	0.87
6827031--6827060	13	2.3	13	100	0	60	46	6	6	40	1.56
6827709--6827799	36	2.5	36	80	8	96	51	4	4	39	1.42
6840698--6840758	30	2.0	31	84	9	81	60	1	3	34	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6850678--6850738	30	2.0	31	84	9	81	60	1	3	34	1.23
6860720--6860750	9	3.4	9	90	0	53	25	12	22	38	1.90
6861951--6861976	5	5.2	5	100	0	52	23	19	19	38	1.93
6862066--6862091	5	5.2	5	100	0	52	19	19	19	42	1.90
6869690--6869746	16	3.6	16	69	9	53	21	0	21	57	1.40
6870194--6870223	15	1.9	16	93	6	53	13	0	30	56	1.37
6871375--6871478	45	2.3	45	84	3	145	29	22	6	41	1.79
6880488--6881037	272	2.0	275	87	3	788	30	22	24	22	1.99
6881169--6881246	28	2.8	28	82	9	70	11	11	3	73	1.23
6881165--6881248	30	2.9	28	78	10	89	13	10	3	72	1.24
6885918--6886004	25	3.5	25	82	1	113	19	26	24	29	1.98
6889237--6889285	20	2.5	20	80	9	57	46	0	6	46	1.27
6891356--6891441	43	2.0	43	93	4	147	24	23	24	27	2.00
6891951--6892001	24	2.1	24	92	7	86	35	19	27	17	1.94
6892046--6892100	26	2.1	27	90	6	87	40	20	23	16	1.91
6895447--6895520	36	2.1	36	86	0	103	24	13	22	39	1.90
6895536--6895570	16	2.2	16	89	0	52	62	0	17	20	1.32
6895543--6895580	16	2.4	16	82	4	51	65	0	15	18	1.27
6904556--6904586	14	2.2	14	94	0	53	45	16	12	25	1.83
6906573--6906622	21	2.3	22	79	6	57	42	0	2	56	1.11
6912819--6912847	5	5.8	5	100	0	58	20	37	0	41	1.53
6914920--6914984	22	2.9	23	70	6	71	58	9	1	30	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6915356--6915413	21	3.0	20	77	12	66	27	18	34	18	1.95
6915491--6915529	19	2.1	19	85	4	53	35	7	0	56	1.28
6915496--6915538	18	2.3	19	84	4	52	39	11	0	48	1.40
6915535--6915600	18	3.6	19	81	6	91	53	0	10	36	1.36
6915535--6915601	19	3.6	19	81	4	82	53	0	10	35	1.35
6915670--6915752	27	3.1	26	85	1	103	19	32	18	30	1.95
6915825--6915874	27	2.0	25	88	11	75	52	0	12	36	1.39
6917131--6917167	18	2.1	18	89	0	56	51	13	8	27	1.69
6917226--6917307	30	2.7	30	96	1	146	21	43	0	34	1.53
6917410--6917468	30	2.0	30	90	6	93	20	44	0	35	1.52
6929166--6929294	64	2.0	64	90	0	204	19	20	25	34	1.96
6929358--6929433	26	3.0	25	77	7	82	21	19	19	39	1.93
6929450--6929503	23	2.4	22	84	9	72	16	22	20	40	1.91
6929464--6929542	26	3.2	26	71	16	69	15	17	21	45	1.85
6930632--6930789	79	2.0	79	98	0	307	33	13	28	24	1.94
6936227--6936323	12	7.9	12	71	15	65	52	8	11	27	1.65
6936248--6936315	23	2.9	23	82	12	77	50	10	14	25	1.74
6936232--6936369	25	5.3	25	73	18	113	53	9	11	25	1.67
6936309--6936353	15	2.9	15	77	6	54	62	8	4	24	1.43
6936248--6936380	12	10.2	13	70	20	73	54	9	12	23	1.68
6939292--6939339	23	2.0	24	88	4	71	29	0	29	41	1.56
6939720--6939776	6	9.3	6	80	17	64	77	0	1	21	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6939720--6939753	11	3.1	11	87	12	52	82	0	0	17	0.67
6939721--6939797	25	3.2	25	79	15	74	72	0	3	23	1.01
6939730--6939797	25	2.7	26	78	15	79	70	0	4	25	1.05
6946536--6946601	23	2.8	23	80	15	73	50	9	15	25	1.73
6949487--6949527	22	1.9	22	90	5	66	31	0	7	60	1.24
6952244--6952281	4	9.5	4	100	0	76	0	23	0	76	0.79
6953204--6953304	40	2.5	40	83	3	132	32	21	21	23	1.98
6953325--6953542	118	1.8	118	87	3	323	29	18	24	27	1.98
6953908--6954178	7	38.7	7	71	5	118	19	1	31	46	1.61
6954040--6954096	22	2.6	22	91	0	87	19	3	42	35	1.68

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