genome.fa.s11.2.7.7.80.10.50.1000.175.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  175  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)
52280402--52280453	19	2.7	20	85	8	72	40	0	0	59	0.97
52280687--52280728	19	2.2	19	87	8	59	33	2	0	64	1.07
52284203--52284258	18	3.0	18	78	14	51	53	1	3	41	1.29
52284543--52284580	15	2.5	16	87	12	62	36	0	0	63	0.95
52284782--52284830	23	2.1	23	81	7	55	28	4	2	65	1.22
52287460--52287611	26	5.8	26	85	1	162	18	15	30	35	1.92
52287457--52287616	52	3.1	52	80	0	185	20	15	30	34	1.93
52287457--52287616	78	2.1	78	82	0	194	20	15	30	34	1.93
52288739--52288816	29	2.7	29	79	0	93	20	34	21	23	1.97
52295709--52295751	21	2.0	21	95	0	77	34	11	13	39	1.82
52298462--52298505	23	1.9	23	90	0	70	13	27	22	36	1.92
52318265--52318330	3	24.0	3	71	22	56	36	0	1	62	1.05
52318263--52318333	8	8.8	8	81	9	90	36	0	1	61	1.05
52318532--52318572	13	3.2	13	86	3	57	70	0	29	0	0.87
52319318--52319374	28	2.0	30	86	10	84	54	1	12	31	1.48
52330447--52330501	26	2.1	27	82	3	67	58	1	9	30	1.40
52339840--52339877	19	2.0	20	94	5	69	39	5	18	36	1.73
52341887--52341930	19	2.6	16	82	13	52	75	0	2	22	0.92
52344434--52344494	22	2.7	22	87	2	77	49	1	1	47	1.21
52344470--52344509	16	2.5	16	87	0	53	50	2	5	42	1.37
52344520--52344659	59	2.4	59	96	0	262	38	4	10	47	1.57
52344641--52344668	9	3.1	9	100	0	56	32	0	10	57	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52354136--52354180	23	2.0	24	86	8	67	20	8	2	68	1.27
52354364--52354470	16	6.4	17	68	18	55	67	6	0	26	1.15
52354390--52354442	16	3.3	16	70	19	56	66	9	0	24	1.21
52354372--52354448	32	2.4	32	100	0	154	66	7	0	25	1.19
52354391--52354446	18	3.3	18	68	27	59	67	8	0	23	1.18
52364801--52364908	44	2.5	44	87	3	148	33	29	14	22	1.94
52368906--52368943	18	2.0	20	90	10	62	76	5	0	18	0.97
52374015--52374059	22	2.0	23	82	4	56	60	2	0	37	1.09
52377822--52377863	21	2.0	20	86	13	59	28	7	4	59	1.44
52378008--52378192	63	2.9	63	80	0	217	47	12	8	31	1.72
52384753--52384794	14	2.9	15	82	7	50	26	2	7	64	1.32
52385164--52385206	23	2.0	21	86	9	59	72	0	9	18	1.11
52393684--52393724	17	2.5	17	80	4	57	43	2	0	53	1.13
52404176--52404213	19	2.1	19	90	5	60	23	0	10	65	1.23
52404597--52404643	3	15.7	3	86	8	69	34	2	0	63	1.06
52404600--52404637	14	2.8	14	96	4	69	34	0	0	65	0.93
52404596--52404651	20	2.7	21	83	8	62	32	5	0	62	1.18
52406611--52406644	17	1.9	17	88	5	50	26	14	0	58	1.36
52411850--52412151	144	2.1	144	90	1	471	35	18	22	23	1.96
52415314--52415362	24	2.1	23	84	3	62	46	4	2	46	1.33
52417699--52417771	21	3.5	21	69	3	58	20	26	32	20	1.97
52427549--52427864	158	2.0	159	88	3	476	32	14	16	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52428365--52428395	15	2.1	15	100	0	62	19	38	0	41	1.51
52429378--52429416	18	2.2	18	95	0	69	35	23	7	33	1.83
52429672--52429701	3	10.0	3	100	0	60	33	0	0	66	0.92
52429947--52429972	3	8.7	3	100	0	52	30	34	0	34	1.58
52431184--52431274	29	3.1	29	84	3	76	57	30	1	10	1.41
52431227--52431283	15	3.9	15	81	4	71	49	38	0	12	1.41
52431196--52431281	29	2.9	29	85	1	109	51	36	1	11	1.46
52437101--52437389	143	2.0	143	95	0	515	41	9	20	28	1.83
52441701--52441774	37	2.0	37	100	0	148	45	18	16	18	1.85
52441968--52442126	82	1.9	82	100	0	318	37	23	6	33	1.80
52453525--52453612	20	4.3	20	80	8	97	45	9	7	37	1.65
52453525--52453612	40	2.1	41	83	8	108	45	9	7	37	1.65
52453532--52453649	60	2.0	60	85	6	159	44	12	9	33	1.75
52453969--52454053	42	2.0	42	97	0	161	42	21	12	23	1.87
52460980--52461009	6	5.0	6	100	0	60	16	16	16	50	1.79
52466036--52466079	21	2.0	22	82	4	54	59	2	4	34	1.30
52466086--52466110	12	2.1	12	100	0	50	68	0	0	32	0.90
52466241--52466269	3	9.7	3	100	0	58	68	0	0	31	0.89
52466701--52466736	18	1.9	19	88	5	56	36	0	8	55	1.30
52470459--52470497	18	2.2	18	90	0	60	17	17	15	48	1.81
52472679--52472736	29	2.0	29	96	0	107	46	6	8	37	1.61
52473322--52473365	16	2.8	15	77	12	52	50	2	0	47	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52476771--52476834	26	2.6	24	77	18	60	60	4	4	29	1.37
52477950--52478000	25	2.0	25	100	0	102	27	19	17	35	1.94
52480203--52480256	18	2.8	19	80	11	65	61	0	1	37	1.07
52480211--52480256	18	2.4	20	85	7	69	58	0	2	39	1.10
52481996--52482187	91	2.1	91	86	4	273	31	25	10	32	1.90
52482817--52483001	50	3.7	50	85	0	235	20	28	22	28	1.99
52482817--52482996	100	1.8	100	86	0	261	20	29	22	27	1.98
52486213--52486666	229	2.0	228	80	9	517	35	20	11	33	1.88
52490257--52490496	42	5.7	42	93	1	383	32	22	20	24	1.97
52490798--52490847	21	2.4	21	79	0	64	2	46	18	34	1.60
52494623--52494856	9	25.8	9	76	6	213	31	2	16	49	1.60
52497575--52497659	42	2.0	42	82	11	102	44	34	0	21	1.52
52497716--52497767	25	2.0	26	85	3	70	46	21	5	26	1.74
52498512--52498739	113	2.0	114	92	0	377	25	26	16	31	1.96
52498840--52499130	114	2.6	114	96	0	521	25	26	16	31	1.96
52499961--52500004	23	1.9	23	81	9	54	52	0	4	43	1.22
52504033--52504069	19	1.9	19	88	0	56	35	5	0	59	1.20
52504122--52504192	37	1.9	37	88	5	108	32	4	0	63	1.14
52507474--52507505	15	2.1	15	94	0	55	87	3	0	9	0.64
52508890--52509148	45	5.8	45	82	3	263	28	24	23	23	2.00
52508872--52509140	89	3.0	89	83	1	315	29	23	23	23	1.99
52509155--52509983	131	6.3	131	89	0	1255	30	19	23	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52510019--52510163	44	3.3	44	78	1	121	33	21	20	24	1.97
52511982--52512065	43	1.9	43	83	9	107	33	4	0	61	1.17
52518994--52519037	20	2.1	22	83	8	56	56	13	0	29	1.38
52526783--52526828	24	1.9	24	90	0	74	47	4	6	41	1.49
52528803--52528848	24	1.9	24	90	0	74	47	4	6	41	1.49
52529051--52529097	24	2.0	24	95	0	85	36	2	6	55	1.37
52530938--52530976	16	2.4	16	86	0	51	53	5	7	33	1.51
52530918--52530977	18	3.5	17	75	9	50	53	5	8	33	1.53
52531233--52531276	10	4.4	10	80	11	54	75	6	0	18	1.02
52531307--52531372	30	2.2	29	81	7	80	33	19	4	42	1.72
52531656--52531696	21	2.0	21	90	4	66	70	7	17	4	1.28
52531975--52532004	15	1.9	16	93	6	53	56	0	43	0	0.99
52532005--52532064	21	2.9	21	81	16	63	81	1	8	8	0.93
52532007--52532064	27	2.2	26	78	9	64	82	1	6	8	0.90
52532183--52532218	19	2.0	18	89	10	56	77	13	8	0	0.98
52532662--52532699	20	1.9	20	88	0	58	36	13	7	42	1.73
52532816--52532861	17	2.6	17	83	12	58	30	15	8	45	1.76
52532951--52532985	18	1.9	18	94	0	61	37	11	11	40	1.77
52532952--52533373	17	22.8	18	66	20	110	32	11	10	45	1.74
52532997--52533061	35	1.9	33	87	6	94	32	7	9	50	1.63
52533161--52533448	17	16.1	17	68	14	116	32	13	10	43	1.77
52533212--52533363	70	2.2	69	85	4	209	30	12	12	44	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52533343--52533381	18	2.2	18	85	0	51	41	12	10	35	1.77
52537155--52537204	9	5.7	9	79	11	50	70	0	6	24	1.10
52537172--52537235	21	3.2	19	76	12	56	62	0	4	32	1.16
52542204--52542638	144	3.0	143	76	9	470	33	17	20	28	1.95
52547452--52547492	21	2.0	21	85	0	55	58	9	4	26	1.50
52548302--52548405	10	11.3	9	69	22	58	70	0	29	0	0.88
52548302--52548399	4	24.8	4	73	20	50	70	0	29	0	0.88
52548291--52548436	28	5.4	28	70	19	96	67	0	32	0	0.91
52548312--52548374	5	13.4	5	75	8	53	66	0	33	0	0.92
52548292--52548436	38	4.0	37	77	18	146	66	0	33	0	0.92

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