genome.fa.s11.2.7.7.80.10.50.1000.105.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  105  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)
30568833--30568974	75	1.9	75	91	2	232	45	10	12	31	1.76
30569048--30569362	130	2.4	130	83	5	362	41	6	6	44	1.57
30568953--30569367	138	3.1	137	80	6	479	40	7	6	45	1.59
30580893--30581361	42	11.2	42	85	0	578	27	19	23	28	1.98
30580903--30581360	84	5.5	84	91	0	682	27	19	23	29	1.98
30598580--30598613	15	2.3	15	100	0	68	38	0	26	35	1.57
30606643--30607010	183	2.0	183	91	0	592	22	27	18	31	1.97
30610248--30610314	29	2.4	28	80	9	82	26	1	11	59	1.41
30618942--30618980	17	2.2	18	86	13	55	53	7	7	30	1.57
30619681--30619833	56	2.8	55	81	3	173	27	15	22	34	1.94
30619699--30619832	55	2.4	56	83	3	173	28	14	21	35	1.92
30619689--30619843	83	1.9	84	83	6	208	25	16	21	36	1.94
30619699--30619833	28	4.9	28	82	5	166	28	14	21	36	1.92
30638161--30638208	19	2.6	18	83	6	60	64	0	8	27	1.22
30638160--30638208	25	2.0	25	83	0	62	65	0	8	26	1.20
30639459--30639568	44	2.5	44	77	5	116	30	24	20	25	1.99
30639577--30639685	44	2.5	44	78	1	121	25	21	18	34	1.96
30639444--30639685	128	1.9	128	81	3	299	26	22	20	30	1.98
30639666--30639787	44	2.7	45	80	13	128	25	26	18	30	1.98
30640055--30640295	99	2.4	100	88	0	340	26	21	21	30	1.98
30640083--30640263	50	3.6	49	73	3	182	25	19	21	32	1.97
30646981--30647015	18	1.9	18	88	0	52	57	2	5	34	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30647253--30647301	25	2.0	25	87	0	71	67	0	6	26	1.14
30650272--30650320	22	2.3	21	82	6	55	48	2	0	48	1.12
30650634--30650677	20	2.2	20	87	4	61	50	0	2	47	1.13
30651030--30651075	15	2.8	17	77	12	51	63	0	4	32	1.14
30662563--30662606	21	2.0	22	82	4	54	25	6	36	31	1.82
30673162--30673200	11	3.5	11	89	0	51	23	2	41	33	1.68
30675439--30675485	22	2.1	22	88	0	67	27	12	2	57	1.47
30691386--30691615	110	2.1	110	88	3	347	31	13	23	32	1.93
30691544--30691796	91	2.8	91	95	0	445	30	13	21	35	1.91
30696774--30696964	50	3.8	50	85	1	249	26	23	28	21	1.99
30696779--30697003	49	4.5	50	82	3	224	28	23	26	22	1.99
30696779--30697003	99	2.3	98	81	4	256	28	23	26	22	1.99
30700239--30700597	20	18.0	19	67	12	175	35	18	30	15	1.92
30700285--30700598	80	3.9	80	90	2	481	36	18	29	16	1.92
30700279--30700596	40	8.0	40	88	4	421	36	17	30	15	1.92
30715569--30715719	29	5.4	29	75	12	147	23	27	11	37	1.89
30715584--30715630	22	2.2	22	96	3	87	17	34	12	36	1.87
30715602--30715724	29	4.2	29	81	4	149	26	27	11	34	1.91
30715602--30715741	29	4.8	29	79	5	131	26	27	10	35	1.89
30717239--30717279	21	2.0	21	95	0	73	51	9	12	26	1.70
30721599--30721877	140	2.0	140	96	0	513	35	13	13	37	1.84
30724566--30724611	16	3.1	15	87	9	60	52	8	8	30	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30724575--30724611	16	2.3	16	95	0	65	48	8	10	32	1.67
30728480--30728562	35	2.4	34	71	11	80	65	0	1	33	1.01
30731076--30731269	41	4.7	41	91	0	280	19	22	30	27	1.97
30731673--30731701	14	2.0	15	93	6	51	31	0	34	34	1.58
30731917--30731962	7	6.6	7	79	0	56	15	0	47	36	1.45
30731917--30731962	21	2.2	21	92	0	74	15	0	47	36	1.45
30732096--30732160	7	9.1	7	77	3	58	18	0	40	41	1.51
30733285--30733322	16	2.3	17	95	4	69	2	13	21	63	1.42
30734187--30734216	2	15.0	2	100	0	60	50	0	0	50	1.00
30736593--30736648	27	2.1	27	83	6	69	26	8	1	62	1.35
30736832--30737042	43	4.9	42	82	6	201	22	15	31	30	1.95
30742007--30742075	21	3.3	21	65	15	61	49	10	5	34	1.61
30742009--30742092	42	2.0	42	100	0	168	47	11	7	33	1.68
30742007--30742083	21	3.7	21	66	13	59	50	11	6	31	1.64
30743194--30743262	20	3.5	19	80	7	75	50	11	15	21	1.76
30744575--30744602	14	2.0	14	100	0	56	28	7	14	50	1.69
30749784--30749845	27	2.4	25	81	5	70	50	0	3	46	1.17
30751759--30751787	12	2.3	13	94	5	51	0	10	0	89	0.48
30752818--30752860	10	4.2	10	80	13	52	72	0	6	20	1.08
30752833--30752883	14	3.8	13	75	12	50	76	0	5	17	0.98
30752831--30752884	17	3.6	16	76	18	62	77	0	5	16	0.94
30759872--30759981	56	1.9	55	83	5	130	40	7	18	33	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30759891--30760001	56	2.0	56	80	3	125	43	9	16	31	1.79
30762848--30762905	22	2.7	21	82	12	64	27	20	18	32	1.97
30763426--30763558	68	2.0	68	86	3	187	44	3	9	43	1.51
30771390--30771425	19	2.0	17	89	10	54	22	0	22	55	1.44
30780193--30780241	21	2.3	22	82	7	64	36	4	4	55	1.38
30780204--30780248	21	2.2	21	84	4	56	35	4	4	55	1.40
30783756--30783790	18	1.9	17	88	11	52	42	5	0	51	1.25
30788178--30788224	16	3.0	16	78	9	53	48	2	6	42	1.40
30796397--30796472	24	3.2	24	83	3	100	43	6	26	23	1.78
30797455--30797520	24	2.8	24	88	0	87	40	6	27	25	1.79
30797849--30797903	15	3.7	15	82	4	67	60	0	0	40	0.97
30797849--30797916	30	2.2	30	84	7	93	60	1	0	38	1.06
30807457--30807492	18	2.0	18	88	0	54	30	5	2	61	1.33
30813096--30813145	14	3.5	14	76	15	50	26	6	0	68	1.13
30813346--30813373	7	4.0	7	100	0	56	85	0	14	0	0.59
30822316--30822374	18	3.4	18	78	17	63	25	8	1	64	1.31
30822327--30822365	15	2.5	15	84	15	53	25	7	0	66	1.18
30825446--30825485	21	1.9	21	84	0	53	57	5	7	30	1.48
30840939--30840968	12	2.6	11	94	5	51	76	0	23	0	0.78
30842126--30842211	21	4.0	22	74	18	72	16	20	25	37	1.93
30842138--30842195	21	2.7	22	84	10	75	13	22	29	34	1.93
30846840--30846871	12	2.6	13	85	14	50	81	18	0	0	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30848079--30848128	23	2.2	23	85	0	64	20	22	18	40	1.92
30848114--30848159	21	2.1	21	84	8	56	17	26	21	34	1.95
30848125--30848170	21	2.2	21	88	0	65	17	26	23	32	1.97
30852219--30852329	28	4.0	28	81	4	127	36	11	21	30	1.89
30855533--30855584	25	2.1	25	85	0	68	48	15	15	21	1.81
30856498--30856941	50	8.9	50	90	0	640	20	30	21	26	1.98
30856996--30857077	42	2.0	41	85	2	110	29	21	19	29	1.98
30863946--30863987	18	2.3	18	91	0	66	30	14	28	26	1.95
30870449--30870485	6	6.2	6	100	0	74	16	16	0	67	1.23
30880980--30881034	28	1.9	29	88	3	85	29	10	10	49	1.72
30881098--30881127	15	1.9	16	93	6	53	43	0	0	56	0.99
30890075--30890154	27	3.0	27	88	0	124	23	17	18	40	1.91
30893848--30893941	47	2.0	47	97	0	179	25	17	15	41	1.89
30894597--30894723	41	3.2	39	85	7	177	39	1	0	58	1.13
30894655--30894724	10	7.1	10	78	12	74	44	1	0	54	1.09
30894615--30894724	11	10.9	11	72	22	66	40	1	0	57	1.16
30894626--30894689	30	2.1	30	82	5	76	34	3	1	60	1.22
30901384--30901450	34	1.9	35	84	3	91	46	13	8	31	1.74
30901419--30901458	14	2.9	14	84	0	53	42	17	7	32	1.77
30904416--30904503	27	3.3	27	88	0	131	32	38	14	13	1.86
30905840--30905892	13	4.1	13	80	9	72	37	7	18	35	1.80
30916850--30916915	20	3.3	20	68	16	55	19	33	13	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30917833--30917894	20	3.1	20	88	0	88	9	22	19	48	1.78
30921398--30921472	26	2.9	26	84	5	100	38	10	17	33	1.84
30922207--30922238	2	16.0	2	93	0	55	46	0	0	53	1.00
30932117--30932149	15	2.3	15	89	5	50	75	3	12	9	1.14
30933854--30933927	36	2.1	36	100	0	148	64	5	18	10	1.43
30945769--30946004	42	5.6	42	75	13	207	23	17	25	33	1.96
30945768--30946004	85	2.8	84	83	4	282	23	17	25	33	1.96
30945805--30945958	43	3.6	43	82	7	181	24	17	25	32	1.97
30953716--30953773	25	2.3	24	77	8	62	24	5	13	56	1.57
30958905--30958954	26	1.9	26	100	0	100	16	22	34	28	1.95

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