genome.fa.s13.2.7.7.80.10.50.1000.195.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  195  of  199  ( 23770 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)
56764360--56764392	16	2.0	17	94	5	59	48	12	6	33	1.65
56765942--56765975	2	16.5	2	93	6	59	47	0	2	50	1.16
56783190--56783236	22	2.1	22	84	7	60	55	6	10	27	1.58
56783953--56784014	22	3.1	22	60	26	55	22	14	11	51	1.74
56790027--56790051	9	2.8	9	100	0	50	56	12	12	20	1.67
56790746--56791339	150	3.9	151	90	4	932	33	11	13	42	1.79
56791995--56792034	17	2.2	18	86	13	55	75	0	2	22	0.93
56792579--56792608	3	10.0	3	100	0	60	0	33	0	66	0.92
56792920--56792991	30	2.3	30	88	4	99	44	1	1	52	1.18
56792993--56793023	16	1.9	16	93	0	53	48	0	0	51	1.00
56793588--56793636	25	1.9	26	83	4	64	40	8	4	46	1.52
56794224--56794252	10	2.7	11	94	5	51	75	10	3	10	1.15
56805701--56805725	13	1.9	13	100	0	50	0	16	0	84	0.63
56806246--56806274	2	14.5	2	100	0	58	48	0	0	51	1.00
56806582--56806782	109	1.8	110	88	7	311	44	18	13	23	1.85
56807594--56807806	113	1.9	113	91	0	345	36	18	14	30	1.91
56810099--56810153	13	4.2	13	74	19	51	47	1	1	49	1.23
56810094--56810159	28	2.3	29	94	5	118	46	1	3	48	1.26
56810111--56810166	16	3.6	16	71	24	57	42	3	3	50	1.37
56811377--56811430	21	2.6	20	77	16	56	75	0	16	7	1.01
56811381--56811444	30	2.1	31	85	2	85	76	0	17	6	0.98
56811396--56811440	19	2.6	16	83	13	54	82	0	13	4	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56824836--56825067	120	1.9	118	85	3	313	38	19	18	23	1.93
56824829--56825067	59	4.0	59	86	3	309	38	19	18	23	1.93
56836507--56836559	22	2.5	21	78	9	54	32	0	5	62	1.19
56838445--56838497	19	2.7	19	91	2	88	35	0	1	62	1.06
56842956--56842981	4	6.5	4	100	0	52	76	0	0	23	0.78
56849091--56849178	27	3.4	26	70	13	65	54	5	4	35	1.45
56849106--56849190	28	3.2	27	65	27	65	49	3	5	41	1.44
56851884--56851948	31	2.1	31	82	5	78	50	7	3	38	1.47
56854008--56854044	19	2.0	19	89	5	58	40	0	5	54	1.24
56854023--56854080	20	3.1	19	83	9	75	43	0	6	50	1.29
56856052--56856896	60	14.1	60	86	0	1035	21	9	41	27	1.84
56856016--56856896	30	29.4	30	79	0	765	21	9	40	28	1.84
56862335--56863239	48	18.9	48	90	0	1227	23	3	50	21	1.65
56862335--56863239	192	4.7	192	90	0	1353	23	3	50	21	1.65
56863224--56863561	48	7.0	48	92	0	487	23	2	50	22	1.63
56863005--56863458	219	2.1	219	90	0	701	23	3	50	22	1.65
56863663--56864036	48	7.8	48	82	1	417	24	4	50	20	1.66
56863662--56864036	144	2.6	144	86	0	534	24	4	50	20	1.66
56863868--56863942	21	3.0	26	64	20	61	21	8	49	21	1.75
56868197--56868313	60	2.0	60	87	3	173	26	4	51	17	1.64
56868236--56868457	48	4.6	48	81	3	243	29	4	47	18	1.67
56868256--56868457	96	2.1	96	89	1	307	29	4	46	19	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56868352--56868433	27	3.3	26	65	19	66	32	6	42	18	1.75
56868429--56868478	21	2.4	21	86	6	66	22	0	60	18	1.37
56868378--56868526	69	2.2	69	90	2	228	28	3	49	18	1.63
56868333--56868574	117	2.1	117	88	1	351	28	3	48	19	1.66
56868280--56868622	165	2.1	165	85	1	454	28	3	48	19	1.65
56868255--56868661	213	1.9	213	85	2	566	28	4	48	19	1.67
56868878--56868957	24	3.3	24	66	19	67	23	5	56	15	1.59
56868900--56869078	27	7.3	27	62	21	97	23	5	51	19	1.68
56868447--56869210	48	16.0	48	85	1	879	26	5	49	19	1.69
56869482--56869582	30	3.4	30	77	0	94	18	5	49	25	1.70
56869428--56869519	48	1.9	48	81	0	112	21	7	53	17	1.68
56872194--56872237	23	1.9	23	86	9	63	47	11	2	38	1.52
56872409--56872464	2	28.0	2	100	0	112	50	0	0	50	1.00
56877017--56877048	14	2.3	14	94	0	55	62	0	0	37	0.95
56878026--56878064	8	4.9	8	87	12	62	61	0	0	38	0.96
56878787--56878856	33	2.1	33	100	0	140	45	5	0	48	1.26
56882287--56882316	2	15.0	2	100	0	60	50	0	0	50	1.00
56886530--56886564	18	1.9	18	88	0	52	34	0	8	57	1.29
56889865--56890471	210	2.9	205	80	6	593	40	7	14	37	1.74
56900210--56900243	18	1.9	18	88	5	52	29	0	5	64	1.17
56901758--56901804	16	2.9	16	78	6	51	34	2	0	63	1.06
56902788--56902823	18	2.0	19	89	10	58	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56902900--56903066	89	1.9	90	86	3	239	38	15	8	37	1.78
56902908--56903153	89	2.8	88	79	7	225	39	17	9	34	1.82
56904143--56904185	21	2.0	21	95	0	77	41	6	27	23	1.80
56909438--56909464	3	9.0	3	100	0	54	66	0	33	0	0.92
56924343--56924368	3	8.7	3	100	0	52	69	0	30	0	0.89
56931692--56931735	21	2.0	22	91	4	72	36	0	0	63	0.95
56932368--56932400	4	8.2	4	100	0	66	75	0	0	24	0.80
56942220--56942257	19	2.0	19	89	0	58	36	5	5	52	1.47
56968650--56968676	2	13.5	2	100	0	54	51	0	48	0	1.00
56969532--56969605	29	2.6	29	95	0	130	35	18	9	36	1.84
56969535--56969631	29	3.3	29	85	0	77	39	17	10	32	1.84
56971392--56971465	31	2.4	31	71	8	78	41	16	18	22	1.89
56972152--56972233	33	2.5	33	76	7	87	40	19	3	36	1.69
56973573--56973612	19	2.1	19	85	0	53	32	0	5	62	1.17
56977432--56977697	137	1.9	138	87	2	392	51	10	12	25	1.72
56993480--56993522	20	2.2	20	100	0	86	18	13	30	37	1.90
56996445--56996484	21	2.0	21	85	5	55	42	7	7	42	1.61
56997912--56997971	31	2.0	30	86	3	84	46	6	11	35	1.67
57005754--57005924	66	2.6	65	90	3	261	34	4	11	50	1.57
57005876--57005931	28	2.0	28	89	3	85	35	3	10	50	1.55
57006712--57006763	16	3.2	16	91	0	77	30	0	34	34	1.58
57006744--57006838	45	2.1	44	88	1	136	32	6	27	33	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57006997--57007036	16	2.6	16	88	11	57	50	0	0	50	1.00
57006982--57007273	120	2.4	120	89	3	430	49	4	2	43	1.36
57007097--57007148	15	3.6	15	80	12	56	53	1	0	44	1.11
57007289--57007495	90	2.3	90	91	4	326	49	3	1	45	1.30
57007358--57007500	46	3.1	44	70	16	121	48	4	1	44	1.32
57007410--57007454	17	2.8	16	83	12	56	55	0	0	44	0.99
57007411--57007460	18	3.0	17	85	8	59	56	2	0	42	1.11
57011157--57011213	30	2.0	29	86	6	80	52	1	1	43	1.21
57017683--57017745	29	2.1	30	82	8	76	44	6	6	42	1.55
57017692--57017769	29	2.6	29	78	8	77	44	8	8	37	1.67
57020264--57020346	29	2.8	29	85	5	85	42	16	10	30	1.83
57020281--57020346	31	2.2	31	91	5	109	45	18	10	25	1.81
57024560--57024611	9	5.9	8	86	10	59	38	25	11	25	1.89
57024567--57024611	18	2.5	18	88	0	72	37	26	11	24	1.89
57024652--57024677	8	3.2	8	100	0	52	57	0	0	42	0.98
57024776--57024805	13	2.3	13	100	0	60	16	0	43	40	1.48
57025582--57025677	31	3.1	31	80	0	120	16	5	17	60	1.53
57030373--57030405	2	16.5	2	100	0	66	51	0	0	48	1.00
57036253--57036317	34	1.9	34	96	0	121	29	15	12	43	1.83
57040915--57040971	22	2.6	22	74	0	60	49	0	0	50	1.00
57041353--57041402	20	2.4	22	80	12	61	58	0	0	42	0.98
57047262--57047297	18	1.9	18	88	5	54	50	2	0	47	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57048811--57048835	4	6.2	4	100	0	50	24	24	28	24	2.00
57060681--57060706	10	2.6	10	100	0	52	26	0	19	53	1.45
57063828--57063852	12	2.1	12	100	0	50	32	0	16	52	1.44
57065404--57065445	22	2.0	21	85	4	57	52	9	4	33	1.55
57074790--57074819	1	30.0	1	93	0	51	0	0	3	96	0.21
57081721--57081745	10	2.5	10	100	0	50	68	8	0	24	1.16
57081699--57081798	23	4.3	22	71	12	76	57	2	3	38	1.26
57081951--57081984	7	4.9	7	96	0	59	41	0	2	55	1.15
57081985--57082014	7	4.3	7	100	0	60	13	0	0	86	0.57
57082220--57082254	3	11.7	3	100	0	70	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   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199