genome.fa.s25.2.7.7.80.10.50.1000.10.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   

This is table  10  of  214  ( 25680 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)
3013086--3013144	19	3.1	19	76	9	66	20	16	20	42	1.89
3015048--3015087	20	2.0	20	90	0	62	30	10	10	50	1.69
3015796--3015836	21	2.0	21	85	9	57	51	0	4	43	1.23
3016717--3016769	18	2.9	18	77	5	54	75	15	0	9	1.04
3016717--3016756	19	2.2	19	86	4	55	75	15	0	10	1.05
3021497--3021536	9	4.4	9	84	12	55	30	10	20	40	1.85
3026902--3026936	11	3.1	11	91	4	52	31	0	0	68	0.90
3026902--3026941	12	3.3	13	83	13	50	35	0	0	65	0.93
3027053--3027115	30	2.1	30	90	0	99	58	14	3	23	1.50
3027395--3027434	20	2.0	20	85	9	55	37	12	7	42	1.71
3027943--3028010	23	3.2	20	71	20	50	51	7	0	41	1.30
3033766--3033807	21	2.0	21	95	0	75	38	11	14	35	1.83
3035967--3036041	27	2.8	27	84	8	98	17	20	37	25	1.94
3036058--3036098	19	2.2	19	90	0	64	29	0	19	51	1.47
3036309--3036360	19	2.8	19	94	5	90	38	0	11	50	1.39
3036498--3036561	8	7.4	8	73	16	56	48	18	0	32	1.49
3036501--3036553	18	2.8	19	83	11	65	49	20	0	30	1.50
3036058--3036565	260	1.9	262	96	0	939	45	9	4	39	1.58
3036524--3036580	27	2.1	27	90	0	87	49	14	1	35	1.53
3036616--3036714	49	2.0	48	92	1	162	33	1	13	52	1.47
3036696--3036767	8	8.4	8	71	14	54	36	1	15	47	1.54
3036922--3036988	27	2.5	27	90	0	98	17	31	17	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3044635--3044773	40	3.5	40	76	11	144	31	24	15	28	1.96
3045909--3045941	16	2.1	16	94	0	57	0	27	0	72	0.85
3060851--3060946	29	3.2	29	72	18	106	46	4	2	46	1.33
3060844--3060956	61	1.9	59	96	3	208	47	4	1	46	1.33
3061923--3061948	4	6.5	4	100	0	52	26	0	0	73	0.84
3069146--3069198	16	3.2	16	78	5	52	39	7	0	52	1.30
3069551--3069581	15	2.1	15	100	0	62	45	0	0	54	0.99
3072673--3072897	90	2.5	89	90	2	337	39	21	16	22	1.92
3075134--3075192	22	2.7	22	70	0	55	18	8	8	64	1.46
3075225--3075284	30	2.0	30	96	0	111	25	3	15	56	1.54
3075406--3075431	11	2.4	11	100	0	52	73	0	0	26	0.84
3075697--3075730	14	2.5	14	85	4	52	64	0	0	35	0.94
3077332--3077392	30	2.0	31	81	9	72	44	0	3	52	1.17
3083051--3083086	16	2.2	16	90	0	54	38	2	8	50	1.47
3084384--3084411	9	3.1	9	100	0	56	78	0	0	21	0.75
3088536--3088561	8	3.2	8	100	0	52	61	0	0	38	0.96
3088823--3088865	16	2.6	16	85	10	52	46	2	0	51	1.13
3088821--3088867	15	3.1	15	82	14	53	51	2	0	46	1.13
3092746--3092796	13	3.9	13	89	0	75	25	11	23	39	1.89
3093380--3093423	22	2.0	22	86	4	63	43	4	11	40	1.61
3099988--3100033	20	2.3	20	81	7	58	36	17	8	36	1.81
3104805--3104843	12	3.2	13	85	14	64	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3113143--3113605	229	2.0	229	99	0	908	30	12	22	34	1.91
3126834--3127031	41	4.8	41	89	0	297	30	29	21	18	1.97
3127179--3127506	47	6.6	47	72	15	228	38	15	6	39	1.73
3127136--3127375	98	2.5	96	91	2	390	40	15	5	39	1.71
3127232--3127520	157	1.8	159	89	4	458	39	14	6	39	1.72
3138382--3138505	46	2.8	46	91	3	200	27	22	16	33	1.96
3138382--3138579	37	4.8	45	84	10	207	26	21	16	35	1.94
3138468--3138606	37	3.8	37	95	0	233	25	21	13	38	1.90
3146036--3146159	46	2.8	45	91	6	198	27	22	16	33	1.95
3146121--3146297	37	4.8	37	95	0	300	26	20	13	38	1.90
3151954--3151990	17	2.2	17	90	0	56	35	10	5	48	1.61
3158193--3158411	84	2.6	83	83	7	278	36	18	9	35	1.83
3158787--3158882	9	9.9	10	75	13	78	36	1	1	61	1.10
3158787--3158849	19	3.4	19	79	14	69	34	1	1	61	1.15
3158800--3158891	10	9.5	10	70	11	50	34	0	2	63	1.07
3158800--3158906	19	5.7	18	72	13	74	31	0	1	65	1.10
3158787--3158897	48	2.3	47	81	7	118	33	0	1	63	1.11
3158799--3158906	29	3.8	28	78	8	103	32	0	1	64	1.10
3158837--3158893	10	5.9	10	77	6	55	31	0	1	66	1.02
3160631--3160862	93	2.5	93	81	7	244	32	10	18	38	1.85
3161386--3161492	39	2.8	38	83	8	119	46	19	5	28	1.72
3161379--3161505	19	6.6	19	74	7	87	44	19	7	27	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3161523--3161548	13	2.0	13	100	0	52	53	23	0	23	1.46
3161404--3161564	19	8.7	19	70	12	102	47	22	3	26	1.67
3168548--3168632	33	2.5	33	79	12	91	51	9	11	27	1.69
3168683--3168895	52	4.1	52	75	10	150	43	12	13	30	1.81
3168699--3168900	35	5.7	35	72	10	144	43	12	13	30	1.81
3168716--3168887	90	1.9	89	84	5	231	43	13	13	29	1.83
3168532--3168900	18	21.4	18	70	15	194	45	11	12	30	1.77
3168940--3169001	17	3.6	16	79	12	70	38	12	14	33	1.84
3168532--3169001	18	27.3	17	66	19	153	44	11	13	30	1.78
3169313--3169370	10	6.0	9	77	15	62	1	18	0	79	0.82
3169312--3169370	20	3.1	18	80	19	75	1	20	0	77	0.85
3169391--3169440	24	2.2	23	89	7	75	6	30	42	22	1.77
3169628--3169705	20	3.9	20	80	14	90	0	21	0	78	0.76
3169628--3169716	14	6.8	13	78	16	87	0	22	0	77	0.77
3169628--3169710	27	3.0	26	75	10	76	0	21	0	78	0.75
3169630--3169713	33	2.6	33	85	5	102	0	22	0	77	0.77
3169628--3169713	6	14.3	6	77	11	79	0	22	0	77	0.76
3170243--3170401	29	5.4	29	77	8	133	39	4	24	31	1.75
3170243--3170401	59	2.7	58	76	9	162	39	4	24	31	1.75
3170243--3170379	29	4.7	29	77	13	136	39	2	24	32	1.70
3170755--3172573	163	11.5	163	90	4	2300	35	20	16	27	1.94
3171575--3172568	76	12.9	76	89	5	1224	34	21	17	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3173459--3173492	17	1.9	18	88	5	52	0	8	8	82	0.85
3178795--3179223	35	12.5	35	70	11	225	46	10	12	30	1.76
3178795--3178980	69	2.7	71	84	5	231	45	11	12	30	1.77
3178794--3179223	18	25.0	18	70	14	232	46	10	12	30	1.76
3179285--3179343	17	3.4	16	75	13	55	40	11	11	35	1.79
3179287--3179347	18	3.5	17	74	14	61	39	11	13	36	1.80
3179659--3179717	10	6.0	10	82	9	68	1	18	0	79	0.81
3179658--3179717	20	3.1	18	80	17	75	1	20	0	78	0.84
3179819--3179875	13	4.2	13	76	8	60	0	26	8	64	1.22
3179823--3179874	25	2.2	23	86	6	68	0	25	5	69	1.10
3179984--3180063	6	12.3	6	82	11	70	0	23	0	76	0.79
3179984--3180051	14	5.0	14	75	17	54	0	22	0	77	0.76
3179984--3180060	27	2.9	27	81	11	79	0	23	0	76	0.78
3179991--3180057	33	2.1	32	88	2	98	0	23	0	76	0.79
3180615--3180727	29	3.9	29	77	13	106	39	2	26	30	1.70
3189347--3189488	71	2.0	71	100	0	284	36	12	15	35	1.86
3195608--3195650	19	2.2	19	84	16	52	53	0	4	41	1.21
3198529--3198571	22	2.0	22	90	0	68	37	18	27	16	1.92
3201289--3201344	27	2.1	27	86	0	76	42	14	17	25	1.87
3210172--3210232	31	2.0	31	93	0	104	16	27	22	32	1.96
3219138--3219313	58	3.2	56	79	12	211	28	22	14	34	1.94
3219093--3219313	51	4.2	51	84	6	277	28	22	14	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3219239--3219276	14	2.7	14	87	0	58	23	28	7	39	1.83
3224865--3225173	44	6.6	44	77	16	300	31	15	23	29	1.95
3224872--3225175	51	6.3	51	85	8	404	31	14	24	29	1.95
3225592--3225680	30	3.0	30	82	9	110	33	22	3	40	1.71
3225595--3225752	29	5.4	30	72	13	114	32	23	5	39	1.76
3226073--3226139	35	1.9	35	87	6	100	76	10	13	0	1.03
3226253--3226317	4	15.8	4	76	17	62	73	1	23	1	1.00
3226253--3226331	31	2.6	30	82	9	88	73	1	24	1	0.98
3226254--3226317	23	2.9	22	86	11	78	75	1	21	1	0.98
3226258--3226317	19	3.0	19	79	13	66	75	1	21	1	0.99

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   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214