genome.fa.s16.2.7.7.80.10.50.1000.168.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   

This is table  168  of  175  ( 20966 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)
50497202--50497370	18	9.8	17	78	8	162	44	12	12	30	1.79
50497202--50497417	18	12.4	17	78	11	156	42	11	12	33	1.79
50497184--50497415	17	13.1	18	73	14	103	42	10	12	34	1.77
50497752--50497803	27	2.0	27	84	3	70	59	7	5	26	1.48
50497908--50497971	9	7.1	9	76	15	53	0	21	0	78	0.76
50497928--50497960	15	2.3	15	94	5	59	0	12	0	87	0.53
50497910--50497961	12	4.5	11	81	18	61	0	17	0	82	0.66
50497910--50497972	22	2.9	22	81	11	69	0	19	0	80	0.70
50498219--50498263	13	3.5	13	85	14	67	0	26	0	73	0.84
50498225--50498264	14	2.9	13	85	7	53	0	27	0	72	0.85
50498318--50498356	17	2.3	17	86	0	51	0	46	0	53	1.00
50498995--50499834	77	10.9	77	83	7	963	36	20	15	27	1.93
50499010--50499832	158	5.3	154	86	4	1038	36	20	15	27	1.93
50499010--50499834	229	3.6	227	84	6	1020	36	20	15	27	1.93
50502320--50502408	44	2.0	44	95	0	160	30	23	8	37	1.86
50504274--50504346	36	2.0	36	100	0	146	43	10	13	31	1.79
50508102--50508300	17	11.4	16	78	15	123	42	11	13	33	1.80
50508070--50508300	35	6.6	34	80	11	211	42	10	12	33	1.78
50508803--50508839	10	3.6	10	89	7	56	0	13	0	86	0.57
50508803--50508838	11	3.3	11	92	7	56	0	11	0	88	0.50
50509091--50509134	12	3.7	12	84	9	54	0	22	0	77	0.77
50509091--50509139	12	4.1	11	82	12	53	0	24	0	75	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50509091--50509139	24	2.0	24	84	7	64	0	24	0	75	0.80
50509634--50509721	30	2.9	30	86	1	113	35	3	25	36	1.73
50521539--50521645	27	4.0	27	88	0	151	18	18	36	26	1.94
50521539--50521666	27	4.7	27	82	5	134	21	17	34	25	1.96
50521724--50521776	22	2.5	22	84	6	74	62	1	35	0	1.06
50525098--50525147	6	8.3	6	84	0	64	0	32	38	30	1.58
50526850--50526931	38	2.2	38	95	0	146	40	2	3	53	1.32
50526962--50527036	35	2.1	35	100	0	150	46	22	2	28	1.65
50527162--50527634	19	25.2	19	65	25	158	53	12	0	32	1.44
50527162--50527499	27	14.1	26	71	24	264	53	12	1	32	1.47
50527114--50527508	49	8.5	46	76	17	238	53	13	1	31	1.47
50527162--50527514	114	3.0	114	83	11	402	53	13	1	32	1.47
50527115--50527499	48	8.1	48	78	14	379	52	13	1	32	1.48
50527257--50527499	97	2.5	96	92	2	409	53	11	1	32	1.45
50527553--50527639	41	2.0	47	74	14	71	52	12	0	34	1.39
50527800--50527831	14	2.2	15	94	5	57	0	40	0	59	0.97
50527797--50527834	14	2.8	14	81	18	53	0	39	0	60	0.97
50531717--50531746	13	2.3	13	100	0	60	40	16	10	33	1.82
50540268--50540305	20	2.0	20	89	5	60	47	10	0	42	1.38
50541165--50541220	29	1.9	29	92	0	94	30	19	19	30	1.97
50546263--50546297	17	2.1	17	89	10	54	22	8	2	65	1.34
50548130--50548178	22	2.2	22	85	0	62	57	6	0	36	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50553996--50554053	20	2.9	20	77	10	73	29	24	13	32	1.94
50556533--50556572	10	4.0	10	83	9	55	87	12	0	0	0.54
50556887--50556919	12	2.8	12	86	13	50	81	3	0	15	0.80
50557603--50558137	134	4.0	130	79	9	485	27	25	20	27	1.99
50557976--50558620	46	14.3	46	65	13	241	30	23	19	26	1.98
50557927--50558604	136	5.0	135	96	1	1202	30	23	19	26	1.98
50557682--50558582	406	2.2	397	88	3	1268	28	24	19	27	1.99
50557664--50558604	272	3.5	270	89	3	1307	29	24	19	26	1.99
50558573--50559756	132	9.0	132	95	0	1951	29	26	16	27	1.97
50560864--50560909	15	3.1	15	84	9	67	4	13	0	82	0.81
50560879--50560917	20	1.9	21	89	5	62	5	12	2	79	1.00
50561361--50561420	11	5.5	11	79	11	61	3	8	1	86	0.74
50561361--50561420	10	5.7	10	81	16	68	3	8	1	86	0.74
50561361--50561417	16	3.5	16	80	17	64	3	8	1	85	0.77
50561363--50561420	23	2.5	22	81	8	71	3	8	1	86	0.76
50564658--50564691	15	2.3	15	89	0	50	58	8	14	17	1.61
50565286--50565380	38	2.5	37	78	13	97	36	12	1	49	1.48
50571172--50571218	24	2.0	24	82	0	58	38	25	12	23	1.90
50572628--50572662	18	2.1	17	89	10	54	34	31	0	34	1.58
50573666--50573864	83	2.4	83	81	3	213	30	9	18	41	1.81
50574903--50574959	24	2.3	25	80	14	82	45	5	17	31	1.71
50587029--50587064	17	2.1	18	89	5	56	41	2	2	52	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50589487--50589533	21	2.2	21	77	7	51	48	21	2	27	1.61
50597016--50597053	18	2.1	18	85	9	51	13	15	47	23	1.81
50609872--50609937	32	2.1	32	100	0	132	37	3	21	37	1.69
50610869--50610908	20	2.0	21	85	5	55	45	15	10	30	1.78
50614145--50614200	6	8.8	6	79	11	58	30	0	1	67	1.01
50614145--50614195	13	3.9	13	80	10	52	31	0	1	66	1.03
50614145--50614202	19	3.1	19	82	5	64	32	0	1	65	1.03
50617922--50617946	12	2.1	12	100	0	50	48	0	8	44	1.32
50636900--50637301	199	2.0	200	95	0	716	29	16	26	27	1.97
50641892--50641958	31	2.2	31	86	2	91	47	1	2	47	1.26
50643459--50643517	11	5.4	11	79	0	55	66	13	6	13	1.44
50645716--50645774	26	2.3	26	79	5	66	47	0	5	47	1.24
50648536--50648578	6	6.8	6	81	7	50	44	16	20	18	1.87
50648562--50648694	45	3.0	45	89	6	200	41	21	18	19	1.91
50648547--50648694	45	3.2	49	80	16	147	41	20	18	19	1.91
50652240--50652271	13	2.5	13	100	0	64	9	37	0	53	1.34
50655023--50656268	210	5.9	210	84	3	1601	30	17	18	33	1.93
50656279--50656770	144	3.4	144	81	1	619	25	20	21	32	1.97
50670963--50671063	25	4.0	25	97	0	184	49	6	18	24	1.72
50673217--50673258	22	2.0	22	90	4	68	14	35	7	42	1.73
50673985--50674022	17	2.4	16	86	8	51	28	7	13	50	1.69
50675351--50675376	11	2.4	11	100	0	52	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50676336--50676391	21	2.7	21	81	16	55	41	0	1	57	1.09
50676342--50676395	22	2.3	24	75	21	60	40	0	1	57	1.09
50676825--50676865	6	6.8	6	100	0	82	17	34	17	31	1.93
50677638--50677703	31	2.1	31	91	0	105	40	7	13	37	1.73
50679988--50680172	46	4.0	46	86	2	264	37	9	23	29	1.86
50680869--50680921	21	2.6	19	73	23	54	33	1	3	60	1.26
50681370--50681404	6	5.8	6	100	0	70	17	34	17	31	1.93
50682123--50682147	13	1.9	13	100	0	50	40	8	8	44	1.63
50682207--50682266	9	6.6	9	83	9	68	65	0	3	31	1.09
50683205--50683319	54	2.1	56	90	4	180	49	13	14	21	1.78
50684590--50684652	31	2.0	31	93	0	108	42	7	11	38	1.70
50690086--50692087	210	9.6	209	93	1	3348	29	17	19	33	1.95
50692243--50692848	144	4.2	144	99	0	1176	26	20	22	30	1.98
50692243--50692944	288	2.4	288	92	2	1081	26	21	21	30	1.98
50695207--50695244	17	2.4	16	86	8	51	28	7	13	50	1.69
50696007--50696072	31	2.1	31	88	0	96	42	7	12	37	1.71
50698364--50698502	46	3.0	46	88	0	206	37	10	23	28	1.88
50699200--50699264	22	3.1	21	77	18	64	36	3	3	56	1.30
50699742--50699788	17	2.6	19	83	12	55	59	0	0	40	0.97
50701837--50701915	39	2.0	39	100	0	158	24	17	30	27	1.97
50703204--50705717	210	12.0	209	94	1	4303	29	18	19	33	1.95
50706069--50706329	144	1.8	144	82	3	337	26	23	19	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50709843--50709897	29	2.0	27	89	7	83	29	0	7	63	1.21
50711995--50712019	12	2.1	12	100	0	50	40	8	24	28	1.83
50716549--50716574	6	4.3	6	100	0	52	34	34	15	15	1.89
50734073--50734206	65	2.1	65	97	0	250	35	8	19	37	1.82
50756958--50757020	33	1.9	33	81	12	76	58	0	3	38	1.14
50756966--50757040	33	2.3	32	80	8	82	60	1	1	37	1.14
50766341--50766367	7	3.9	7	100	0	54	74	0	0	25	0.83
50766558--50766609	4	13.0	4	85	0	59	67	1	7	23	1.27
50771666--50772047	188	2.0	186	86	4	536	32	10	14	42	1.80
50778895--50778923	3	9.7	3	100	0	58	65	0	0	34	0.93

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   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175