genome.fa.s17.2.7.7.80.10.50.1000.174.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  174  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)
52845959--52845983	8	3.1	8	100	0	50	24	0	24	52	1.48
52850811--52850835	13	1.9	13	100	0	50	0	8	0	92	0.40
52853156--52853238	41	2.0	41	95	0	148	33	18	10	37	1.85
52853522--52853570	25	2.0	25	88	8	73	34	20	26	18	1.95
52853578--52853681	50	2.1	50	83	3	129	34	18	25	22	1.96
52853608--52853744	25	5.4	25	76	8	107	35	19	25	19	1.96
52855481--52855526	20	2.3	20	85	10	60	54	2	0	43	1.12
52855476--52855531	18	3.1	18	80	10	60	57	1	0	41	1.09
52860549--52860610	31	2.0	31	93	0	106	29	17	17	35	1.93
52868392--52868437	23	2.0	22	83	4	56	17	10	13	58	1.62
52879263--52879289	9	3.0	9	100	0	54	44	0	11	44	1.39
52892799--52892876	21	3.8	21	69	19	65	32	24	14	29	1.94
52902934--52903011	40	2.0	40	84	0	102	32	28	14	25	1.94
52904852--52905100	50	4.8	50	84	4	275	20	29	23	26	1.99
52904851--52905100	100	2.4	104	87	6	348	21	29	23	26	1.99
52905195--52905226	13	2.5	13	94	0	55	56	12	0	31	1.37
52905434--52905493	30	2.0	29	87	3	84	30	21	3	45	1.68
52906032--52906089	25	2.3	25	77	16	66	3	24	5	67	1.27
52906052--52906097	14	3.1	14	84	6	56	4	17	4	73	1.15
52906101--52906145	5	9.0	5	83	16	58	57	0	0	42	0.98
52906102--52906144	19	2.3	19	92	8	70	58	0	0	41	0.98
52912492--52912525	17	2.0	17	88	0	50	50	8	2	38	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52914597--52914670	30	2.4	30	81	2	85	29	24	4	41	1.73
52922269--52922323	3	18.0	3	75	17	51	60	3	1	34	1.25
52922269--52922330	14	4.3	13	76	15	52	61	3	1	33	1.22
52922301--52922352	22	2.4	21	84	9	68	61	5	3	28	1.37
52928055--52928108	19	2.8	19	94	0	90	37	11	16	35	1.84
52929141--52929165	9	2.8	9	100	0	50	24	0	8	68	1.16
52929442--52929636	98	2.0	98	96	0	363	28	10	25	35	1.89
52935013--52936061	132	7.9	131	93	1	1706	27	18	23	29	1.98
52935629--52935948	44	7.3	44	65	15	124	28	17	25	29	1.97
52936290--52936343	19	2.8	19	94	0	90	37	11	16	35	1.84
52936303--52936366	19	3.0	22	86	8	80	37	6	17	39	1.75
52936332--52936376	23	2.0	23	86	4	65	33	4	15	46	1.66
52937727--52937755	5	6.0	5	92	8	51	0	37	0	62	0.96
52945459--52948741	657	5.0	657	99	0	6498	30	19	16	33	1.94
52949819--52950033	32	6.7	32	79	5	186	36	20	20	21	1.95
52950077--52950136	27	2.2	27	82	11	70	30	25	25	20	1.99
52950204--52950285	24	3.5	23	83	5	92	50	25	4	19	1.68
52953948--52954202	83	3.1	83	97	0	483	48	9	3	38	1.55
52971175--52971220	23	2.0	23	95	0	83	45	0	6	47	1.28
52972408--52972459	19	2.7	20	82	11	63	53	7	0	38	1.30
52973152--52973180	14	2.1	14	93	6	51	44	0	0	55	0.99
52976190--52976269	41	2.0	41	83	14	103	37	1	2	58	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52976183--52976261	10	7.9	10	70	16	56	35	0	3	60	1.15
52979232--52979328	33	2.8	35	72	20	89	44	3	1	51	1.24
52983008--52983047	20	2.0	20	85	9	55	17	35	0	47	1.48
52985907--52985938	16	2.0	16	100	0	64	37	25	12	25	1.91
52990242--52990309	29	2.4	28	73	7	64	50	7	10	32	1.64
52990679--52990756	38	2.1	38	97	0	147	55	12	7	24	1.63
52991650--52991713	29	2.2	30	85	2	85	46	7	9	35	1.65
52994045--52994660	315	2.0	315	92	2	1040	38	14	11	35	1.83
52994593--52994727	67	2.0	67	100	0	270	36	7	11	44	1.69
53000704--53001001	27	11.0	27	93	1	472	35	22	20	21	1.96
53007133--53007179	24	2.0	24	86	0	67	12	36	34	17	1.87
53012248--53012330	43	1.9	43	85	0	112	37	7	13	42	1.72
53019889--53019944	29	1.9	29	85	0	76	35	8	19	35	1.83
53023790--53023826	12	2.9	13	84	8	58	10	5	5	78	1.08
53024504--53024540	3	12.0	3	88	5	56	35	2	0	62	1.10
53028144--53028170	6	4.5	6	100	0	54	85	0	0	14	0.61
53029541--53029571	5	6.2	5	100	0	62	41	0	0	58	0.98
53029812--53029851	16	2.4	17	87	8	64	62	2	0	35	1.09
53061928--53062332	52	8.1	51	81	10	489	34	14	22	28	1.93
53061914--53062333	98	4.3	98	95	0	741	34	14	22	28	1.93
53062296--53062515	37	6.0	37	94	1	372	37	16	21	24	1.93
53067154--53067183	15	1.9	16	93	6	53	0	30	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53070788--53070812	12	2.1	12	100	0	50	24	36	24	16	1.94
53070971--53071046	9	8.4	9	82	0	98	34	19	9	36	1.84
53071046--53071155	37	3.0	37	91	0	175	46	14	5	33	1.68
53071069--53071132	20	3.3	20	68	12	62	43	18	6	31	1.75
53071399--53071443	7	6.3	7	79	5	54	55	13	15	15	1.69
53071600--53071630	16	1.9	16	93	0	53	35	6	12	45	1.68
53085310--53085405	49	1.9	51	83	6	126	59	2	6	32	1.34
53094597--53094632	4	9.0	4	100	0	72	50	25	0	25	1.50
53096953--53097020	31	2.2	31	84	2	84	38	2	0	58	1.13
53096958--53097033	31	2.3	33	72	21	79	38	2	0	59	1.12
53108510--53108548	15	2.4	16	83	12	53	12	7	0	79	0.93
53108538--53108601	19	3.2	20	65	8	58	31	10	0	57	1.33
53108520--53108601	40	2.0	40	100	0	164	26	9	0	63	1.25
53108911--53109007	44	2.2	45	83	9	119	31	4	27	36	1.76
53109283--53109317	18	2.0	17	88	5	52	54	0	0	45	0.99
53109403--53109437	18	2.0	17	88	5	52	54	0	0	45	0.99
53109144--53109702	120	4.7	120	98	0	1086	49	5	0	43	1.31
53109523--53109557	18	2.0	17	88	5	52	54	0	0	45	0.99
53109643--53109677	18	2.0	17	88	5	52	54	0	0	45	0.99
53109676--53109718	16	2.8	16	92	3	70	41	16	0	41	1.48
53113761--53113798	19	2.0	19	89	0	58	81	10	5	2	0.94
53114947--53115004	28	2.1	27	81	12	66	15	3	3	77	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53114970--53115002	17	1.9	17	88	11	50	18	0	3	78	0.87
53114968--53115006	9	4.6	8	81	12	51	15	0	2	82	0.79
53114947--53115015	16	4.2	16	72	9	50	13	5	2	78	1.05
53124628--53124679	26	2.0	26	85	7	70	26	7	7	57	1.54
53124628--53124679	25	2.0	27	82	14	65	26	7	7	57	1.54
53126548--53126582	4	8.8	4	100	0	70	51	22	0	25	1.48
53130365--53130426	31	2.0	31	93	0	106	43	11	11	33	1.76
53138874--53138956	22	3.8	21	76	13	62	62	6	0	31	1.19
53138880--53138941	22	2.6	24	80	19	76	64	3	0	32	1.09
53139021--53139075	16	3.6	16	80	9	78	74	3	1	20	1.06
53139002--53139100	30	3.0	32	85	11	130	69	3	6	21	1.24
53139623--53139714	19	4.8	19	89	0	130	38	14	8	39	1.77
53142790--53142842	22	2.4	22	93	3	88	52	1	0	45	1.11
53145542--53145586	23	2.0	23	95	0	81	28	20	15	35	1.93
53153132--53153191	25	2.3	27	80	8	70	40	0	3	56	1.16
53153552--53153601	16	3.2	16	72	13	50	48	2	2	48	1.24
53157062--53157123	23	2.7	23	82	2	79	59	0	4	35	1.19
53157045--53157125	20	3.7	20	72	23	65	59	0	3	37	1.15
53165259--53165380	23	5.3	23	87	0	181	22	20	26	31	1.98
53165261--53165380	46	2.6	46	93	0	204	21	20	26	30	1.98
53167129--53167170	18	2.4	18	92	4	68	47	0	2	50	1.14
53168924--53168954	16	2.0	16	93	6	55	58	0	19	22	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53170571--53170664	21	4.5	21	69	0	62	19	7	52	21	1.70
53175365--53175412	18	2.6	18	93	3	78	64	0	2	33	1.05
53176800--53177449	321	2.1	312	90	4	1002	54	9	8	27	1.60
53176800--53177449	158	4.1	157	90	6	983	54	9	8	27	1.60
53178321--53178426	9	12.0	9	74	17	55	60	1	3	33	1.26
53178322--53178365	17	2.5	17	82	13	54	61	0	2	36	1.09
53178501--53178551	3	16.7	3	84	11	68	60	0	0	39	0.97
53179765--53179808	13	3.4	13	78	12	54	68	6	0	25	1.14
53179648--53180176	159	3.3	159	93	1	871	54	8	8	28	1.61
53180378--53180484	51	2.2	48	80	8	117	25	7	3	63	1.37

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