genome.fa.s11.2.7.7.80.10.50.1000.169.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   

This is table  169  of  210  ( 25152 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)
50778023--50778051	2	14.5	2	100	0	58	51	0	0	48	1.00
50782894--50782995	51	2.0	51	98	0	195	34	7	23	34	1.84
50782908--50782988	25	3.2	25	64	10	65	37	7	22	33	1.82
50783064--50783088	13	1.9	13	100	0	50	36	0	8	56	1.29
50787037--50787148	42	2.7	42	87	0	152	26	27	18	26	1.98
50787153--50787274	43	2.8	43	89	0	181	24	27	17	31	1.97
50787623--50787787	87	1.9	87	82	5	208	11	27	16	44	1.83
50787710--50787758	21	2.3	21	89	0	71	2	42	18	36	1.62
50795486--50795515	15	2.0	15	93	0	51	33	3	0	63	1.11
50795651--50795705	21	2.6	21	79	0	65	45	34	1	18	1.60
50795666--50795704	14	2.8	14	88	0	60	46	35	2	15	1.60
50796409--50796970	211	2.6	211	83	3	682	24	18	24	32	1.97
50797887--50797919	16	2.1	16	100	0	66	39	12	24	24	1.89
50805993--50806035	20	2.2	20	95	0	77	39	2	0	58	1.11
50809907--50810021	59	1.9	58	81	6	133	59	4	5	31	1.39
50809996--50810075	32	2.5	32	89	2	126	57	0	1	41	1.07
50810165--50810208	18	2.5	17	81	3	52	40	0	2	56	1.11
50814614--50814654	20	2.0	20	85	4	55	70	2	9	17	1.25
50815753--50815796	21	2.1	21	83	8	54	27	9	15	47	1.76
50835416--50835459	21	2.1	21	83	8	54	27	11	15	45	1.81
50835677--50835826	41	3.7	41	78	0	165	25	36	19	19	1.95
50838724--50838775	12	4.5	11	76	11	50	13	5	0	80	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50838705--50838775	21	3.2	21	81	14	90	14	7	0	78	0.94
50838708--50838773	24	2.9	24	86	6	84	15	7	0	77	0.98
50841154--50841216	32	2.0	32	96	3	119	31	9	15	42	1.79
50844390--50845032	321	2.0	320	94	2	1132	35	26	13	25	1.93
50847905--50847944	21	2.0	20	85	5	53	55	15	2	27	1.53
50854633--50854687	27	2.0	27	96	0	101	36	25	9	29	1.87
50859456--50859516	32	1.9	32	83	12	81	44	4	1	49	1.33
50859688--50859732	16	2.8	15	83	12	54	15	17	0	66	1.25
50870623--50870647	11	2.3	11	100	0	50	48	12	0	40	1.40
50875518--50875745	107	2.1	107	100	0	456	28	17	14	39	1.89
50880011--50880143	64	2.1	64	100	0	266	24	20	32	23	1.98
50880393--50880874	27	18.4	27	75	8	374	41	20	18	20	1.91
50880614--50880908	99	3.0	99	85	6	364	39	19	19	21	1.93
50882349--50882410	23	2.6	24	80	14	74	54	1	3	40	1.26
50882347--50882416	26	2.8	26	83	10	85	51	1	2	44	1.25
50882781--50882831	3	17.0	3	100	0	102	33	0	0	66	0.92
50892012--50892103	25	3.7	25	78	5	96	31	14	18	35	1.90
50892360--50892384	2	12.5	2	100	0	50	48	0	0	52	1.00
50899736--50899814	37	2.1	37	100	0	158	31	34	2	31	1.71
50901105--50901151	24	2.0	24	84	16	62	34	2	14	48	1.56
50903869--50903941	25	2.8	25	79	8	76	28	15	10	45	1.80
50905033--50905252	27	8.1	27	89	0	314	40	25	15	17	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50905058--50905282	54	4.2	54	83	3	211	40	24	16	19	1.90
50905769--50905823	28	2.0	27	85	3	74	21	23	23	30	1.99
50922089--50922191	42	2.4	43	81	1	127	33	21	16	29	1.95
50942700--50942759	27	2.2	27	85	5	77	45	16	13	25	1.84
50942750--50943167	27	15.5	27	79	2	435	36	20	20	22	1.95
50942727--50943162	54	8.1	54	87	1	543	36	20	19	22	1.95
50943185--50943270	24	3.6	24	88	0	100	22	6	23	47	1.75
50943218--50943260	11	3.7	11	76	11	50	13	6	27	51	1.67
50943339--50943396	27	2.1	27	84	12	75	20	25	20	32	1.97
50943540--50943604	22	3.0	20	72	20	51	16	16	18	47	1.83
50945709--50945958	27	9.3	26	82	5	261	20	15	21	42	1.89
50945710--50945958	54	4.6	53	84	5	304	20	15	21	42	1.89
50945710--50945958	107	2.3	107	86	3	340	20	15	21	42	1.89
50967015--50967271	27	9.5	27	79	6	236	18	15	23	43	1.87
50967005--50967284	54	5.2	52	80	5	269	18	16	22	43	1.88
50967005--50967271	81	3.3	79	79	5	261	17	15	22	43	1.87
50967005--50967284	108	2.6	108	84	5	345	18	16	22	43	1.88
50972525--50972562	18	2.1	19	90	9	62	13	7	0	78	0.94
50972525--50972562	16	2.2	19	86	13	55	13	7	0	78	0.94
50975552--50975794	43	5.7	43	90	1	355	26	17	24	31	1.97
50979333--50979382	22	2.3	22	86	3	66	28	2	4	66	1.21
50980923--50980970	23	2.1	23	84	7	62	75	10	6	8	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50992236--50992629	128	3.1	128	92	0	680	34	20	11	33	1.89
50994447--50994526	39	2.0	40	81	11	94	55	1	3	40	1.26
50995346--50995394	2	25.0	2	95	4	91	48	0	0	51	1.00
50995481--50995507	14	1.9	14	100	0	54	29	0	0	70	0.88
50997093--50997176	22	3.8	22	87	0	105	28	26	14	30	1.95
50999070--50999100	15	2.1	15	100	0	62	29	6	25	38	1.81
51001431--51001482	27	1.9	27	96	0	95	26	28	23	21	1.99
51001546--51001607	25	2.4	27	76	15	69	67	0	32	0	0.91
51001688--51001734	11	4.2	11	81	13	51	23	0	6	70	1.10
51003695--51004295	102	5.6	107	73	15	427	58	14	0	25	1.43
51003790--51004295	102	4.8	102	83	8	601	58	14	1	25	1.44
51003900--51004295	111	3.7	109	85	5	545	58	14	1	25	1.44
51003705--51004295	213	2.8	214	88	3	858	58	14	1	26	1.43
51004313--51004469	57	2.8	57	81	0	179	37	21	13	28	1.91
51005157--51005202	21	2.3	19	85	7	56	52	0	0	47	1.00
51005157--51005208	16	3.0	17	86	8	61	46	0	0	53	1.00
51016431--51016455	11	2.3	11	100	0	50	44	8	8	40	1.63
51017087--51017131	23	2.0	23	90	0	72	28	20	15	35	1.93
51020776--51020867	46	2.0	46	97	0	175	30	27	13	29	1.94
51029772--51029815	21	2.0	22	82	4	54	20	22	11	45	1.83
51044047--51044072	7	3.7	7	100	0	52	61	0	0	38	0.96
51045408--51045592	101	1.8	102	89	3	293	23	17	27	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51045408--51045592	51	3.6	51	79	5	178	23	17	27	31	1.97
51045604--51045689	45	1.9	45	92	0	145	25	17	23	33	1.96
51045731--51045777	23	2.0	22	84	15	60	42	0	21	36	1.53
51050684--51050722	19	2.1	19	85	0	51	25	5	7	61	1.44
51051496--51051544	3	16.0	3	95	4	89	65	0	0	34	0.93
51058225--51058490	142	1.9	142	85	3	374	41	19	14	24	1.89
51063809--51063891	27	3.4	23	70	16	60	45	4	1	48	1.31
51066176--51066314	61	2.3	61	76	14	133	39	5	15	40	1.69
51068810--51069004	90	2.2	91	89	1	295	27	6	14	51	1.66
51068810--51069039	90	2.6	89	85	6	267	26	5	14	53	1.62
51071555--51071612	25	2.5	22	83	10	71	27	10	0	62	1.28
51071601--51071641	14	2.8	15	88	3	57	21	7	2	68	1.26
51071687--51071748	11	6.4	11	69	27	50	29	17	0	53	1.44
51071700--51071793	28	3.4	28	86	5	136	29	14	2	53	1.53
51071679--51071748	5	13.4	5	73	19	54	27	18	0	54	1.44
51071868--51071923	17	2.9	19	80	20	64	23	14	0	62	1.31
51072173--51072219	5	8.6	5	86	13	58	17	23	0	59	1.37
51072176--51072219	17	2.6	17	96	0	79	18	25	0	56	1.41
51072173--51072219	11	4.3	10	87	12	58	17	23	0	59	1.37
51072238--51072313	21	3.3	21	72	19	71	26	13	0	60	1.33
51072245--51072339	27	3.8	25	72	18	72	24	13	1	61	1.39
51072206--51072347	48	3.1	47	84	8	168	22	14	0	62	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51072385--51072454	22	3.2	22	67	15	63	35	1	12	50	1.50
51072380--51072527	44	3.4	44	88	0	224	35	3	11	50	1.55
51075681--51075819	62	2.2	63	89	1	217	33	21	22	23	1.98
51078544--51078568	1	25.0	1	100	0	50	0	0	0	100	0.00
51082319--51082349	14	2.2	14	94	0	53	38	0	3	58	1.15
51083217--51083274	25	2.3	25	81	0	71	44	1	5	48	1.35
51083485--51083546	29	2.0	32	81	9	76	51	9	0	38	1.35
51084447--51084485	20	1.9	21	85	15	55	56	5	0	38	1.22
51085065--51085106	22	1.9	22	85	0	57	9	9	9	71	1.32
51086532--51086603	29	2.5	29	86	0	90	18	23	37	20	1.94

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   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