genome.fa.s10.2.7.7.80.10.50.1000.133.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  133  of  202  ( 24201 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)
41229179--41229208	14	2.1	14	100	0	60	30	0	43	26	1.55
41240802--41240836	16	2.1	17	89	5	54	37	0	51	11	1.38
41251611--41251662	24	2.2	24	89	0	77	50	9	3	36	1.54
41256020--41256071	24	2.2	24	89	0	77	50	9	3	36	1.54
41263651--41263707	28	2.0	28	100	0	114	47	17	10	24	1.79
41264013--41264096	42	2.0	42	86	2	116	23	27	2	46	1.65
41264733--41264799	22	3.0	22	93	0	107	25	25	14	34	1.94
41265594--41265638	20	2.3	19	81	11	54	48	4	20	26	1.68
41268319--41268357	18	2.2	19	86	9	55	20	0	10	69	1.17
41277415--41277454	21	1.9	21	85	10	55	15	10	27	47	1.77
41278795--41278828	17	2.1	16	88	5	50	76	14	0	8	1.01
41283332--41283701	205	1.8	205	83	5	498	30	23	19	27	1.98
41284065--41284105	13	3.1	14	86	6	50	21	7	24	46	1.77
41284164--41284215	25	2.0	26	85	10	72	25	1	23	50	1.60
41284280--41284356	7	11.0	7	77	0	73	16	0	37	45	1.48
41284482--41284520	15	2.5	16	84	16	55	61	0	2	35	1.10
41285514--41285574	16	3.8	16	80	8	70	63	3	6	26	1.34
41285810--41285871	24	2.6	24	85	7	74	30	41	1	25	1.65
41290456--41290566	21	5.3	21	93	0	177	31	22	45	0	1.59
41291007--41291088	43	1.9	43	87	5	121	34	19	18	28	1.95
41291060--41291240	43	4.2	42	80	9	172	23	23	20	32	1.98
41292840--41292872	14	2.3	15	94	5	59	69	0	0	30	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41292839--41292880	14	3.0	13	86	13	57	64	0	0	35	0.94
41297475--41297517	2	21.5	2	100	0	86	0	48	0	51	1.00
41299140--41299164	13	1.9	13	100	0	50	24	0	0	76	0.80
41304411--41304455	16	2.8	15	78	15	54	73	0	2	24	0.95
41304411--41304457	17	2.8	17	87	6	60	72	0	4	23	1.02
41305356--41305400	15	2.9	16	80	9	58	53	4	15	26	1.61
41316359--41316388	14	2.1	15	93	6	53	46	13	6	33	1.69
41317621--41317659	14	2.5	16	88	12	55	35	2	0	61	1.10
41318044--41318119	35	2.2	36	83	9	95	36	1	0	61	1.04
41318044--41318133	36	2.6	36	79	8	89	40	2	0	57	1.11
41320675--41321270	296	2.0	295	91	0	967	34	15	23	26	1.94
41322673--41322874	101	2.0	101	95	0	359	28	25	18	28	1.98
41328041--41328069	12	2.3	13	94	5	51	20	6	6	65	1.40
41334847--41334872	13	2.0	13	100	0	52	30	15	30	23	1.95
41339216--41339252	19	1.9	19	89	10	58	51	8	0	40	1.32
41340714--41340795	18	4.4	18	68	22	62	45	8	4	41	1.56
41340865--41340899	18	1.9	18	88	0	52	34	8	2	54	1.46
41352915--41352945	2	15.5	2	100	0	62	51	0	0	48	1.00
41355547--41355575	2	14.5	2	100	0	58	48	0	0	51	1.00
41357197--41357297	3	33.7	3	85	0	139	31	3	1	62	1.25
41359092--41359125	16	2.1	16	88	0	50	20	14	20	44	1.87
41369790--41369820	14	2.2	14	94	0	53	61	6	6	25	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41370187--41370248	28	2.3	27	83	5	72	33	6	1	58	1.34
41377726--41377765	19	2.0	21	85	9	57	62	7	0	30	1.23
41384511--41384566	28	2.0	28	100	0	112	50	14	10	25	1.75
41385283--41385333	3	17.0	3	100	0	102	0	33	0	66	0.92
41386646--41386761	61	2.0	60	84	5	155	48	5	3	43	1.42
41388455--41388482	14	2.0	14	100	0	56	21	14	7	57	1.61
41390279--41390328	8	5.3	9	78	21	50	48	0	8	44	1.32
41393511--41393551	18	2.2	18	86	8	55	39	9	9	41	1.71
41403601--41403635	16	2.2	16	94	0	61	42	5	11	40	1.65
41404869--41404921	21	2.4	22	84	12	65	35	3	9	50	1.53
41411997--41412065	25	2.8	25	84	0	93	30	21	18	28	1.97
41413273--41413308	12	3.0	12	87	0	54	22	33	27	16	1.95
41414385--41414445	30	2.0	30	90	0	95	32	16	4	45	1.68
41414934--41415044	36	3.1	36	80	1	125	38	33	11	16	1.85
41414977--41415093	35	3.3	35	82	1	144	41	29	14	15	1.87
41420169--41420214	20	2.1	21	80	15	58	76	4	8	10	1.15
41422843--41422967	62	2.0	63	96	1	234	44	12	20	22	1.85
41423153--41423191	6	6.5	6	90	0	51	0	48	0	51	1.00
41423135--41423197	24	2.5	24	82	7	72	3	46	1	49	1.27
41429448--41429491	18	2.5	17	82	7	52	61	0	0	38	0.96
41432556--41432618	18	3.5	18	70	8	65	50	1	38	9	1.44
41433088--41433136	25	2.0	25	100	0	98	32	12	16	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41434824--41434895	33	2.2	33	79	0	81	47	2	26	23	1.65
41436853--41436885	6	5.3	6	96	3	57	45	0	51	3	1.16
41437086--41437141	13	4.5	13	82	13	82	48	14	0	37	1.44
41439024--41439061	19	2.2	17	86	13	51	50	5	21	23	1.69
41440621--41440657	9	4.1	9	92	0	65	29	10	13	45	1.77
41445801--41445838	3	12.7	3	88	0	58	63	2	34	0	1.09
41446135--41446180	23	2.0	24	87	12	69	47	2	4	45	1.34
41446237--41446266	15	1.9	16	93	6	53	40	6	6	46	1.56
41446757--41446870	10	11.4	10	69	16	51	57	2	1	37	1.23
41446906--41447074	86	1.9	89	88	7	256	38	23	8	29	1.85
41451348--41451397	21	2.4	21	93	0	82	22	18	30	30	1.97
41451363--41451436	21	3.5	21	83	7	78	24	21	24	29	1.99
41459588--41459704	41	2.9	41	92	2	164	31	27	17	23	1.97
41465438--41465606	25	6.8	25	73	12	132	17	27	16	38	1.91
41465438--41465561	50	2.5	50	92	4	196	18	27	15	38	1.91
41468048--41468090	20	2.2	20	86	0	59	39	6	11	41	1.68
41475820--41475851	13	2.5	13	94	0	55	28	18	18	34	1.95
41477067--41477146	31	2.6	31	84	5	92	33	8	15	42	1.77
41477092--41477155	30	2.2	29	82	2	74	34	10	12	42	1.78
41477292--41477377	31	2.9	30	78	3	93	34	15	13	36	1.87
41478934--41478994	7	8.6	7	72	16	54	39	1	0	59	1.08
41479090--41479126	17	2.1	18	90	5	58	32	43	0	24	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41479120--41479205	37	2.3	37	96	4	156	29	30	0	40	1.57
41480270--41480324	28	1.9	28	85	3	74	61	5	5	27	1.40
41481905--41481964	28	2.2	28	90	3	95	36	15	18	30	1.91
41482254--41482285	3	10.7	3	100	0	64	34	0	31	34	1.58
41501218--41501575	44	8.0	44	74	12	164	31	17	21	29	1.96
41501409--41501575	88	1.9	88	81	0	199	31	16	23	28	1.96
41504723--41504937	31	7.0	31	76	9	199	45	15	5	33	1.68
41504731--41504981	92	2.7	92	92	3	409	46	14	5	33	1.69
41511545--41511703	46	3.4	45	77	7	131	35	11	23	30	1.90
41514024--41514057	5	6.8	5	100	0	68	41	17	0	41	1.50
41514835--41514964	65	2.0	65	100	0	260	33	6	16	43	1.73
41521612--41521663	26	1.9	26	84	7	68	48	5	15	30	1.68
41528761--41528819	24	2.5	24	78	10	66	61	16	0	22	1.35
41530849--41530941	48	1.9	48	84	0	123	26	24	19	29	1.98
41530946--41531069	58	2.1	59	77	7	137	20	25	22	31	1.98
41534205--41534233	10	3.0	10	95	5	51	51	0	10	37	1.36
41534454--41534568	37	3.1	37	78	9	153	17	13	32	36	1.89
41534443--41534599	74	2.1	74	96	0	287	15	12	31	40	1.84
41534470--41534606	37	3.7	36	76	9	116	17	12	31	38	1.87
41535777--41535818	21	2.0	20	86	4	57	23	21	23	30	1.99
41538434--41538468	13	2.7	13	90	0	52	17	14	40	28	1.88
41542441--41543046	186	3.3	185	88	3	875	24	26	7	41	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41542825--41542864	20	1.9	22	85	10	57	22	32	2	42	1.67
41543362--41543390	14	2.0	15	93	6	51	55	0	44	0	0.99
41549688--41549837	50	2.9	51	78	12	162	34	13	22	30	1.92
41549963--41550299	60	5.6	60	82	2	354	32	13	24	29	1.94
41550110--41550208	31	3.3	31	66	25	84	27	16	26	30	1.96
41549967--41550299	180	1.9	180	84	2	454	32	13	25	28	1.94
41552011--41552399	146	2.7	146	82	2	399	29	15	29	25	1.96
41552593--41552670	27	2.9	28	75	12	72	32	17	29	20	1.96
41556599--41556650	3	17.3	3	100	0	104	32	0	0	67	0.91
41557223--41557251	2	14.5	2	100	0	58	51	0	0	48	1.00

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