genome.fa.s16.2.7.7.80.10.50.1000.18.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  18  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)
4889298--4889337	18	2.2	18	86	0	53	42	0	0	57	0.98
4889095--4889402	121	2.6	120	93	1	519	40	1	4	52	1.34
4889583--4889673	45	2.0	44	85	2	119	35	28	5	30	1.80
4889652--4889721	16	4.4	16	90	0	113	31	35	1	31	1.67
4892681--4892730	19	2.5	20	74	6	57	24	4	8	64	1.38
4894334--4894779	126	3.6	125	90	1	653	30	15	23	30	1.95
4896041--4896078	20	1.9	20	89	10	60	55	5	2	36	1.37
4897013--4897112	51	2.0	51	86	4	139	45	2	26	27	1.65
4897090--4897146	11	5.1	11	84	2	69	45	1	29	22	1.63
4897072--4897146	33	2.2	34	81	9	91	45	1	28	25	1.62
4897093--4897146	22	2.4	23	87	6	83	46	1	27	24	1.63
4897313--4897410	39	2.5	40	79	1	117	19	25	29	25	1.98
4898748--4898798	13	3.9	13	72	10	50	37	5	21	35	1.78
4900570--4900634	31	2.1	31	85	8	87	55	10	10	23	1.65
4901901--4902636	308	2.4	308	80	8	795	34	15	10	39	1.82
4908851--4908902	25	2.1	25	100	0	104	28	34	17	19	1.94
4909058--4909097	13	3.1	13	82	10	55	55	12	15	17	1.70
4912607--4912642	18	2.1	17	89	5	54	16	30	38	13	1.88
4913603--4913642	18	2.2	18	86	0	53	42	2	20	35	1.65
4918020--4918091	22	3.2	21	70	14	63	44	11	16	27	1.82
4917996--4918092	46	2.1	46	94	0	167	42	11	18	27	1.85
4917995--4918075	24	3.5	24	72	13	78	41	11	18	28	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4918011--4918084	24	3.2	24	70	14	73	43	14	14	27	1.85
4919292--4919337	22	2.1	22	84	8	58	58	8	2	30	1.40
4921363--4921429	25	2.4	27	78	16	75	19	4	4	71	1.20
4922122--4922153	15	2.1	15	94	0	55	37	6	6	50	1.53
4923027--4923061	16	2.1	17	89	5	54	37	0	5	57	1.23
4931362--4931406	18	2.4	18	81	3	54	37	20	2	40	1.65
4933738--4933766	12	2.4	12	100	0	58	41	0	0	58	0.98
4935301--4935388	45	2.0	45	86	8	126	22	14	18	44	1.86
4936085--4936118	17	1.9	18	88	5	52	38	0	26	35	1.57
4942334--4942411	21	3.7	21	87	0	111	52	15	15	16	1.75
4944475--4944499	3	8.3	3	100	0	50	32	0	0	68	0.90
4949826--4949858	13	2.6	13	90	4	50	81	0	12	6	0.85
4950837--4951140	132	2.3	132	88	3	441	28	18	25	27	1.98
4951212--4951306	44	2.2	44	86	3	129	28	17	26	27	1.98
4952304--4952345	16	2.6	16	100	0	84	11	54	28	4	1.57
4952768--4952825	3	19.3	3	96	0	107	32	1	0	65	1.03
4954423--4954480	6	8.8	6	77	20	55	18	3	1	75	1.03
4960559--4960603	22	2.0	22	82	4	54	37	0	2	60	1.09
4973487--4973511	11	2.3	11	100	0	50	8	0	0	92	0.40
4981476--4981512	20	2.0	20	89	10	60	43	5	10	40	1.63
4984046--4984164	57	2.1	58	88	1	177	43	3	4	48	1.38
4984051--4984184	57	2.4	56	81	8	155	43	2	5	48	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4989944--4989972	14	2.0	15	93	6	51	20	13	3	62	1.46
4990090--4990123	14	2.4	14	90	0	50	14	0	2	82	0.79
4993972--4994024	17	3.1	17	75	24	58	67	0	32	0	0.91
4994104--4994155	17	3.2	16	82	17	63	78	0	21	0	0.74
4994085--4994157	26	2.8	25	86	12	94	76	0	23	0	0.78
4994223--4994271	19	2.5	20	80	12	57	30	42	26	0	1.55
4999760--4999813	27	2.0	27	100	0	108	25	3	29	40	1.73
4999888--4999917	10	3.0	10	100	0	60	40	0	20	40	1.52
5001599--5001640	18	2.5	17	85	11	59	76	2	4	16	1.07
5001599--5001656	16	3.5	16	81	11	64	72	3	5	18	1.18
5001726--5001769	12	3.6	12	84	12	54	72	0	2	25	0.96
5001718--5001781	13	5.0	13	83	12	64	71	3	1	23	1.08
5001876--5001907	14	2.3	14	94	0	55	75	3	0	21	0.95
5005703--5005729	14	1.9	14	100	0	54	22	3	14	59	1.51
5014185--5014211	14	1.9	14	100	0	54	33	0	0	66	0.92
5015321--5015625	101	3.0	101	94	0	520	36	11	25	26	1.90
5017393--5017437	19	2.4	19	85	7	56	35	2	6	55	1.38
5017448--5017514	18	3.6	18	72	23	57	34	4	8	52	1.53
5023625--5024046	88	4.8	88	89	1	648	29	27	22	20	1.98
5023876--5024019	45	3.2	45	67	7	132	29	26	25	19	1.99
5024035--5024364	44	7.6	44	69	7	242	27	22	23	26	1.99
5024078--5024306	43	5.3	43	69	6	183	24	24	23	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5024015--5024372	87	4.1	87	91	0	563	28	22	23	25	1.99
5024381--5024484	44	2.4	44	80	3	111	29	21	20	28	1.98
5024868--5024901	14	2.5	14	85	4	52	29	35	14	20	1.93
5025752--5025796	24	1.9	24	90	4	74	26	6	0	66	1.16
5025752--5025794	11	3.7	11	79	11	50	25	4	0	69	1.07
5031198--5031236	19	2.1	19	90	4	62	35	15	15	33	1.89
5031619--5031663	21	2.3	19	84	7	54	55	28	0	15	1.41
5031638--5031675	13	2.8	14	88	4	51	50	28	0	21	1.49
5031699--5031851	7	21.9	7	71	12	82	47	33	0	18	1.50
5031700--5031851	14	10.9	14	74	10	96	47	33	0	19	1.50
5031699--5031754	29	1.9	29	85	0	76	42	39	0	17	1.50
5031799--5031854	20	2.8	20	91	2	85	57	25	0	17	1.41
5031707--5031851	63	2.3	62	77	13	136	47	33	0	19	1.50
5032479--5032769	50	5.7	50	88	2	393	22	29	21	26	1.99
5036498--5036526	13	2.3	13	94	5	51	31	3	20	44	1.68
5036480--5036508	14	2.0	15	93	6	51	24	0	20	55	1.44
5037591--5037900	64	5.0	63	70	15	196	37	5	14	42	1.68
5037635--5037904	63	4.3	62	69	15	189	36	5	15	42	1.70
5037549--5037904	187	1.9	188	94	1	624	37	4	15	42	1.67
5038235--5038366	41	3.2	41	91	2	203	25	16	25	33	1.96
5038235--5038461	41	5.5	42	84	6	161	26	17	26	29	1.98
5044228--5044256	13	2.3	13	94	5	51	31	3	20	44	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5044210--5044238	14	2.0	15	93	6	51	24	0	20	55	1.44
5045435--5045486	19	2.7	19	71	14	52	34	0	13	51	1.41
5045273--5045623	184	1.9	186	93	1	607	37	5	15	41	1.70
5045313--5045573	63	4.2	62	69	16	164	37	5	13	42	1.69
5045313--5045619	64	5.0	62	70	15	188	37	5	14	41	1.70
5045273--5045693	184	2.3	185	86	6	559	36	5	16	42	1.71
5045957--5046144	41	4.6	40	81	7	132	26	18	27	27	1.98
5048349--5048377	12	2.4	12	100	0	58	58	0	6	34	1.25
5058229--5058281	20	2.8	18	78	18	54	58	0	0	41	0.98
5058228--5058287	32	1.9	31	90	6	95	58	0	0	41	0.98
5058277--5058328	18	2.9	17	75	11	50	61	3	1	32	1.25
5058228--5058326	37	2.9	33	80	15	89	58	2	1	38	1.16
5059421--5059483	30	2.1	31	93	3	110	28	26	6	38	1.81
5059433--5059478	15	3.0	16	68	12	51	26	28	6	39	1.81
5063821--5063874	27	2.0	27	85	0	72	24	24	16	35	1.95
5064076--5064135	30	2.0	31	90	3	95	25	20	6	48	1.73
5067933--5068316	45	8.4	45	71	9	220	31	18	21	28	1.97
5068520--5068559	21	2.0	19	90	9	62	70	17	0	12	1.18
5070619--5070661	21	2.0	21	86	0	59	51	6	25	16	1.69
5073252--5073393	57	2.4	59	82	9	173	27	23	26	23	2.00
5076593--5076631	21	1.9	19	85	10	51	46	0	5	48	1.24
5077689--5077718	15	2.0	15	93	0	51	63	6	6	23	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5081085--5081156	27	2.6	28	76	10	87	27	34	29	8	1.86
5081425--5081645	82	2.8	77	78	11	234	33	4	11	50	1.59
5081425--5081645	40	5.6	41	70	18	134	33	4	11	50	1.59
5085151--5085196	12	3.8	12	88	0	56	8	28	36	26	1.86
5086817--5087877	157	6.9	154	86	7	1335	29	10	8	51	1.66
5086817--5088066	457	2.8	451	85	8	1571	29	10	8	51	1.66
5086817--5088066	309	4.1	301	83	9	1486	29	10	8	51	1.66
5087740--5088009	132	2.1	131	85	5	359	27	12	10	49	1.74
5088440--5088486	5	9.4	5	77	9	51	0	34	0	65	0.93
5088434--5088478	20	2.2	20	96	0	81	0	35	0	64	0.94

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