genome.fa.s6.2.7.7.80.10.50.1000.93.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: Chr1
Parameters: 2 7 7 80 10 50 1000
Length:  35726063

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   98   99   100   101   102   103   104   105   106   107   108   109   

This is table  93  of  109  ( 13028 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)
29560994--29561024	15	2.1	15	100	0	62	35	12	19	32	1.90
29561555--29561588	18	1.9	18	88	5	52	20	32	38	8	1.84
29562814--29562860	24	2.0	24	82	0	58	31	6	27	34	1.82
29572268--29572306	18	2.2	18	90	9	62	28	15	20	35	1.93
29574427--29574469	15	2.7	16	82	10	52	34	0	0	65	0.93
29575486--29575536	16	3.0	17	77	8	50	49	0	0	50	1.00
29580668--29580720	22	2.4	22	87	0	70	22	28	18	30	1.98
29581176--29581546	192	1.9	192	93	0	634	25	13	24	36	1.92
29583557--29585816	44	50.6	44	77	4	1687	32	16	20	30	1.94
29583557--29585795	89	25.0	89	84	4	1857	32	16	20	30	1.94
29586698--29586729	15	2.2	15	94	5	57	65	0	3	31	1.08
29588624--29588661	19	1.9	19	89	5	58	76	5	13	5	1.13
29589557--29589616	27	2.2	26	80	13	68	18	5	5	71	1.23
29589735--29589769	3	11.7	3	93	0	61	65	2	0	31	1.07
29589768--29589796	3	9.7	3	100	0	58	34	0	0	65	0.93
29590606--29590651	14	3.1	14	81	12	56	65	4	0	30	1.12
29592093--29592132	20	2.0	21	90	5	64	25	0	5	70	1.08
29592484--29592550	33	2.0	35	82	5	84	41	0	5	52	1.26
29594810--29594865	29	1.9	29	85	0	76	37	12	10	39	1.78
29596186--29596250	31	2.1	31	82	5	78	64	7	1	26	1.29
29598580--29598624	17	2.6	17	85	0	63	48	17	8	24	1.75
29605607--29605901	40	7.8	39	66	15	136	38	22	18	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29605527--29605899	75	5.0	75	83	2	446	38	21	18	20	1.93
29605647--29605851	35	5.6	35	66	19	103	40	22	17	20	1.92
29610288--29610330	21	2.0	21	86	4	59	37	2	2	58	1.24
29626216--29626249	3	11.3	3	100	0	68	32	0	0	67	0.91
29626248--29626281	3	11.3	3	100	0	68	0	0	32	67	0.91
29626333--29626386	23	2.4	23	84	6	76	42	11	1	44	1.50
29635043--29635086	23	1.9	23	85	0	61	40	6	13	38	1.71
29636816--29636840	12	2.1	12	100	0	50	16	8	24	52	1.70
29645426--29645454	3	9.7	3	100	0	58	0	31	0	68	0.89
29660793--29660844	24	2.2	24	92	0	86	51	9	1	36	1.46
29664708--29664759	24	2.2	24	89	0	77	51	11	1	34	1.49
29666792--29666819	2	14.0	2	100	0	56	50	0	0	50	1.00
29673650--29673676	2	13.5	2	100	0	54	51	0	0	48	1.00
29673797--29673887	42	2.2	42	85	0	119	26	17	35	20	1.95
29674522--29674573	21	2.4	22	83	6	61	30	1	1	65	1.14
29697897--29697950	25	2.3	24	81	12	67	55	7	1	35	1.39
29699891--29699921	8	3.9	8	95	0	53	25	0	6	67	1.14
29706284--29706367	33	2.8	29	79	13	96	27	15	7	50	1.70
29706289--29706353	33	2.0	33	93	0	112	27	12	7	52	1.66
29706916--29706976	21	3.0	19	81	11	59	40	3	1	54	1.27
29718867--29718925	31	1.9	30	82	3	73	32	10	13	44	1.77
29727260--29727567	151	2.0	152	91	1	503	49	10	9	30	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29727533--29727572	22	1.9	20	85	10	53	60	7	7	25	1.50
29728406--29728440	3	12.0	3	87	6	54	71	28	0	0	0.86
29732961--29732999	20	2.0	20	100	0	78	30	25	17	25	1.97
29735989--29736027	6	6.7	6	94	5	71	82	0	0	17	0.68
29736609--29736708	24	4.2	24	71	5	76	20	10	44	26	1.82
29736729--29737024	144	2.1	144	98	0	565	16	12	41	29	1.85
29736956--29737108	36	4.3	36	82	3	168	18	14	39	27	1.90
29737128--29737210	42	2.0	42	87	0	121	14	18	39	27	1.89
29737187--29737226	15	2.7	15	100	0	80	10	37	30	22	1.87
29737152--29737267	57	2.0	57	86	0	160	13	21	37	27	1.91
29739868--29739914	22	2.1	23	88	4	69	42	0	2	55	1.12
29742310--29742352	18	2.4	17	80	7	50	60	2	2	34	1.22
29747387--29747432	10	4.5	10	80	20	51	63	6	2	28	1.31
29751324--29751369	24	1.9	24	95	0	83	50	4	28	17	1.65
29754113--29754227	57	2.0	57	93	0	194	28	24	11	35	1.90
29754398--29754464	23	2.9	23	93	0	116	26	29	4	38	1.76
29760108--29760222	25	4.6	25	75	10	110	24	26	19	29	1.98
29760113--29760222	49	2.2	50	85	4	143	23	26	20	30	1.98
29770376--29770582	50	4.2	49	63	24	121	54	6	3	36	1.43
29770301--29770595	146	2.0	147	99	0	583	53	6	3	36	1.44
29778444--29778541	36	2.8	34	82	15	112	46	9	6	37	1.61
29778441--29778520	20	4.2	19	69	16	58	43	8	6	41	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29778620--29778659	21	2.0	20	90	5	62	45	7	5	42	1.54
29778687--29779009	17	17.8	17	67	15	150	45	10	13	31	1.77
29778670--29778833	37	4.4	37	77	11	165	44	9	13	32	1.76
29778683--29778829	73	2.0	74	85	2	197	44	9	11	34	1.73
29778835--29779004	18	9.4	18	70	12	80	45	10	13	30	1.77
29778958--29779009	19	2.7	20	77	19	65	44	11	13	30	1.79
29778739--29779009	38	7.4	37	72	15	115	45	10	13	30	1.77
29779747--29779784	4	9.8	4	83	16	53	0	23	0	76	0.79
29779733--29779781	19	2.4	19	86	10	62	0	24	0	75	0.80
29779733--29779784	7	7.0	7	84	6	50	0	25	0	75	0.81
29779730--29779784	23	2.3	23	84	9	67	0	25	0	74	0.82
29780260--29780321	30	2.1	31	81	6	74	37	8	22	32	1.83
29780673--29780697	13	1.9	13	100	0	50	16	0	8	76	1.02
29780768--29781310	155	3.5	153	84	6	664	34	20	16	27	1.95
29780756--29781310	233	2.4	231	84	4	717	34	20	16	27	1.95
29780768--29781310	78	7.0	78	86	5	670	34	20	16	27	1.95
29783022--29783059	19	2.0	20	94	5	69	23	0	2	73	0.95
29784599--29784635	19	1.9	19	89	10	58	54	10	10	24	1.67
29785578--29785607	15	2.1	15	93	6	53	26	6	0	66	1.16
29793156--29793343	78	2.4	78	91	2	310	42	12	7	37	1.72
29793638--29793696	31	1.9	31	85	0	82	38	3	8	49	1.50
29796192--29797471	45	28.8	45	80	3	1248	31	21	15	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29798500--29798538	19	2.1	19	95	0	69	25	23	10	41	1.86
29799287--29799326	21	1.9	21	85	10	55	57	0	15	27	1.38
29801219--29801265	19	2.5	20	86	6	62	44	8	19	27	1.79
29801700--29801734	16	2.2	16	89	0	52	42	22	17	17	1.88
29807690--29807756	31	2.1	32	84	13	86	50	0	1	47	1.10
29807885--29807962	31	2.5	31	81	12	88	46	1	0	52	1.08
29816462--29816540	39	2.0	39	100	0	158	35	7	22	34	1.83
29822787--29822813	1	27.0	1	100	0	54	100	0	0	0	0.00
29823956--29824024	31	2.2	31	84	5	86	34	13	8	43	1.74
29828919--29828993	31	2.5	30	80	18	84	45	0	10	44	1.38
29836374--29836399	7	3.7	7	100	0	52	26	0	15	57	1.38
29837048--29837082	18	1.9	18	88	0	52	25	34	8	31	1.86
29837628--29837710	35	2.4	35	85	2	114	45	36	0	18	1.49
29837594--29837770	64	2.9	61	84	8	227	46	32	0	20	1.55
29837594--29837765	29	5.6	29	85	10	209	47	32	0	20	1.51
29837767--29837968	55	3.6	56	85	7	270	35	11	5	46	1.65
29838785--29838809	11	2.3	11	100	0	50	8	16	28	48	1.74
29840582--29840810	126	1.8	126	93	1	397	31	22	16	29	1.96
29841663--29842068	188	2.1	189	83	9	502	24	11	19	44	1.84
29843880--29843919	17	2.4	17	87	8	55	57	12	0	30	1.36
29854736--29854795	30	2.0	30	83	3	77	35	26	1	36	1.67
29854743--29854800	30	2.0	29	93	3	98	31	27	1	39	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29861573--29861849	98	2.8	98	98	0	536	37	23	11	27	1.89
29865501--29865533	6	5.8	6	86	13	52	0	0	12	87	0.53
29865490--29865533	22	2.0	22	86	4	61	2	2	9	86	0.75
29865500--29865536	12	3.2	12	77	14	51	0	0	10	89	0.49
29867624--29868011	194	2.0	194	100	0	776	37	30	13	18	1.90
29868806--29868837	14	2.1	16	88	11	50	37	0	12	50	1.41
29873211--29873250	9	4.4	9	80	0	53	50	2	0	47	1.14
29877209--29877269	31	2.0	31	83	6	79	34	9	16	39	1.82
29878432--29878472	3	13.3	3	94	5	73	65	0	0	34	0.93
29878587--29878636	21	2.4	22	80	10	59	56	2	4	38	1.30

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   98   99   100   101   102   103   104   105   106   107   108   109