genome.fa.s17.2.7.7.80.10.50.1000.164.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  164  of  185  ( 22116 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)
50395904--50395929	13	2.0	13	100	0	52	23	15	0	61	1.33
50398155--50398203	21	2.3	21	96	0	89	12	42	12	32	1.79
50398812--50398838	13	2.1	13	100	0	54	44	25	7	22	1.79
50400729--50400790	20	3.2	20	81	6	74	50	1	9	38	1.45
50400734--50400794	18	3.3	18	81	4	68	50	1	9	37	1.45
50403507--50403609	51	2.0	51	100	0	206	35	15	5	42	1.71
50410123--50410187	32	2.1	30	83	11	78	30	0	6	63	1.19
50410150--50410175	13	2.0	13	100	0	52	38	0	7	53	1.30
50418255--50418294	20	1.9	22	85	10	57	7	22	2	67	1.28
50424088--50424245	79	2.0	79	94	0	280	30	8	13	47	1.72
50426156--50426512	70	5.1	70	85	0	426	28	29	19	21	1.98
50426167--50426556	140	2.8	137	80	5	410	28	29	19	21	1.98
50426156--50426542	210	1.8	210	81	2	481	28	29	19	22	1.98
50426993--50427024	15	2.2	15	94	5	57	53	6	3	37	1.42
50430231--50430273	21	2.0	23	81	9	54	32	11	11	44	1.77
50433391--50433432	15	2.8	16	82	10	52	38	9	4	47	1.57
50433520--50433567	19	2.5	20	79	6	62	37	2	0	60	1.09
50433595--50433810	89	2.5	86	82	10	249	34	8	18	38	1.81
50434471--50434509	15	2.8	13	82	14	51	43	5	12	38	1.65
50434766--50434966	35	5.8	35	84	2	262	20	22	17	39	1.92
50434765--50434966	69	2.9	69	93	0	341	20	22	17	39	1.93
50442441--50442465	3	8.3	3	100	0	50	68	0	0	32	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50443769--50443887	58	2.1	58	90	0	184	42	15	21	20	1.89
50444291--50444397	34	3.1	34	65	21	94	38	14	31	14	1.88
50447900--50447986	17	4.9	17	72	18	63	25	2	0	72	0.96
50447903--50447979	5	14.4	5	76	16	66	23	2	0	74	0.95
50447904--50447986	26	3.2	24	79	17	80	24	2	0	73	0.95
50448960--50449008	20	2.5	19	83	9	62	75	2	6	16	1.09
50449558--50449592	15	2.4	15	90	4	54	48	0	8	42	1.33
50452376--50452677	94	3.2	95	78	4	279	37	2	17	42	1.64
50452449--50452676	95	2.4	96	80	4	257	39	2	17	39	1.64
50452710--50453000	126	2.3	126	92	0	474	32	19	20	26	1.97
50455422--50455489	34	2.0	35	94	2	120	47	8	2	41	1.50
50455913--50455951	18	2.2	18	90	0	60	43	10	25	20	1.83
50456010--50456078	30	2.3	30	84	0	84	8	11	44	34	1.72
50457274--50457662	110	3.6	109	91	1	618	33	20	16	29	1.94
50458139--50458182	18	2.4	18	76	0	52	65	2	9	22	1.32
50459750--50460748	95	10.5	95	92	0	1539	30	23	17	29	1.97
50460745--50461146	88	4.6	88	93	0	651	24	24	24	26	2.00
50460745--50461044	44	6.8	44	66	11	175	23	24	26	25	2.00
50460774--50461097	44	7.4	42	63	18	115	25	24	25	25	2.00
50465959--50465998	19	2.1	19	100	0	80	47	15	22	15	1.82
50466725--50467082	110	3.3	109	93	1	617	33	20	15	30	1.94
50467126--50467165	20	2.1	18	86	13	53	57	2	15	25	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50467576--50467619	18	2.4	18	76	0	52	65	2	9	22	1.32
50473173--50473245	26	2.8	26	83	6	94	58	5	0	35	1.21
50473186--50473231	14	3.4	14	76	11	60	60	4	0	34	1.16
50478132--50478230	31	3.3	32	72	20	97	55	11	11	22	1.66
50478644--50478674	11	2.8	11	100	0	62	29	29	0	41	1.56
50480736--50480797	21	3.0	21	73	4	54	32	40	19	8	1.81
50480881--50480929	22	2.3	22	80	16	59	34	0	4	61	1.15
50480910--50481053	52	2.7	51	75	17	139	43	2	6	48	1.40
50484042--50484309	126	2.1	126	96	0	491	29	20	15	34	1.94
50484910--50484954	16	2.8	17	77	19	51	42	2	2	53	1.25
50485336--50485360	13	1.9	13	100	0	50	36	0	16	48	1.46
50485804--50485837	17	1.9	18	88	5	52	23	0	2	73	0.97
50485821--50485847	8	3.4	8	100	0	54	25	0	0	74	0.83
50485806--50485847	18	2.5	17	81	18	52	23	0	2	73	0.94
50485910--50485941	14	2.3	14	100	0	64	43	6	6	43	1.54
50486318--50486359	13	2.9	14	80	13	50	54	0	0	45	0.99
50486322--50486358	16	2.3	16	86	13	58	59	0	0	40	0.97
50486379--50486444	15	4.1	15	73	17	53	51	1	1	45	1.19
50487634--50487712	39	2.1	38	87	2	113	48	10	8	32	1.68
50487755--50487787	15	2.1	16	94	5	59	42	18	24	15	1.88
50498669--50498706	16	2.4	16	86	4	51	23	10	2	63	1.39
50499810--50499872	29	2.2	29	81	16	78	41	0	1	57	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50499831--50499890	21	2.9	21	72	22	54	38	0	1	60	1.07
50499817--50499871	28	1.9	29	85	10	78	40	0	1	58	1.09
50502754--50502812	28	2.1	29	84	12	79	1	11	6	79	0.99
50502766--50502815	22	2.4	20	78	18	57	2	6	8	84	0.86
50504933--50504979	22	2.1	22	92	0	76	31	6	2	59	1.34
50506285--50506345	12	4.9	13	71	18	58	31	0	9	59	1.30
50506383--50506478	29	3.2	28	75	17	77	30	9	17	42	1.81
50509835--50509909	33	2.5	28	76	21	87	53	26	0	20	1.46
50509847--50509909	33	1.9	33	96	0	117	50	25	0	23	1.49
50516079--50516143	30	2.1	31	86	8	89	46	13	9	30	1.75
50518761--50518876	25	4.6	24	72	11	83	19	25	19	35	1.96
50518759--50518875	50	2.3	50	80	8	139	19	24	19	35	1.95
50518836--50518894	25	2.4	25	85	5	75	20	18	20	40	1.91
50518861--50518946	25	3.4	25	71	9	68	26	23	16	33	1.95
50531203--50531242	19	2.1	19	85	0	53	7	30	10	52	1.62
50536666--50536713	23	2.0	24	84	4	62	64	0	0	35	0.94
50540943--50541086	72	2.0	72	100	0	288	40	6	11	41	1.67
50543575--50543632	28	2.1	28	100	0	116	39	17	10	32	1.83
50555500--50555533	17	2.0	17	100	0	68	29	5	11	52	1.61
50558485--50558804	162	2.0	162	91	1	525	29	26	14	29	1.95
50561328--50561361	16	2.1	17	88	5	52	20	2	0	76	0.92
50562143--50562272	21	6.3	21	88	1	165	14	20	17	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50563849--50563905	23	2.5	23	85	0	78	49	7	0	43	1.29
50563886--50563960	17	4.1	17	77	15	69	58	1	1	38	1.15
50567577--50567681	42	2.5	42	84	1	138	26	18	21	33	1.96
50569651--50569710	30	2.0	29	84	9	77	31	40	8	20	1.82
50573680--50573837	10	16.4	10	65	18	68	65	2	1	29	1.16
50573681--50573837	9	17.4	9	68	16	94	65	2	1	29	1.16
50573681--50573827	19	8.3	18	69	12	65	65	2	2	29	1.18
50573716--50573762	22	2.2	22	84	3	60	61	4	0	34	1.15
50573810--50573848	20	2.0	20	90	10	62	66	7	0	25	1.18
50573733--50573849	56	2.1	57	80	9	132	64	3	2	29	1.22
50573951--50573993	21	2.0	23	86	9	63	76	4	2	16	1.05
50574091--50574196	19	5.6	19	72	17	78	29	4	0	65	1.19
50574107--50574200	9	10.0	9	73	12	73	31	4	1	62	1.21
50574012--50574200	20	9.7	19	70	13	107	30	6	1	60	1.32
50577918--50577985	35	1.9	35	93	0	118	44	17	10	27	1.81
50578802--50578862	31	2.0	31	83	6	79	44	13	4	37	1.65
50579017--50579044	2	14.0	2	100	0	56	50	0	0	50	1.00
50581534--50581578	9	4.9	9	89	5	72	64	0	0	35	0.94
50581534--50581589	19	2.9	19	89	7	78	64	0	0	35	0.94
50581536--50581589	9	5.4	11	89	10	57	66	0	0	33	0.92
50585836--50585876	21	2.0	21	90	4	66	51	12	9	26	1.70
50586910--50587177	124	2.2	124	80	2	299	35	9	19	35	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50589848--50589888	20	2.0	21	85	4	57	70	0	14	14	1.16
50590160--50590197	19	2.1	19	85	14	53	42	5	10	42	1.62
50592663--50592708	18	2.8	18	84	15	64	0	30	41	28	1.56
50594685--50594725	20	2.0	20	95	0	73	24	7	14	53	1.66
50598504--50598553	3	17.3	3	77	8	50	28	0	6	66	1.15
50598507--50598548	9	4.8	9	85	2	59	26	0	7	66	1.17
50604338--50604405	32	2.1	32	91	0	109	38	14	17	29	1.90
50605704--50605772	28	2.5	28	87	0	93	33	0	21	44	1.53
50605795--50605863	28	2.4	28	76	9	68	36	4	23	36	1.75
50605929--50606229	156	1.9	156	90	1	478	36	13	20	28	1.91

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