genome.fa.s10.2.7.7.80.10.50.1000.79.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  79  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)
23344720--23344750	2	15.5	2	93	0	53	45	0	0	54	0.99
23345545--23345640	48	2.0	48	100	0	192	35	2	14	47	1.56
23347677--23347756	41	2.0	40	87	7	117	20	20	7	52	1.70
23350928--23351010	37	2.2	37	93	0	139	18	12	31	38	1.87
23351296--23351333	12	3.2	12	100	0	76	7	15	31	44	1.75
23351322--23351433	39	2.8	39	78	9	120	39	21	18	20	1.93
23351483--23351724	41	5.9	41	94	0	421	18	23	28	28	1.98
23353041--23353069	15	1.9	15	100	0	58	20	0	34	44	1.52
23353130--23353201	33	2.2	33	90	5	110	19	5	43	31	1.74
23353244--23353295	21	2.4	22	81	12	63	19	0	44	36	1.51
23353246--23353302	21	2.7	21	78	8	53	21	0	40	38	1.53
23354166--23354407	130	1.8	130	91	3	396	41	14	11	32	1.82
23357896--23357986	43	2.1	43	86	6	123	35	10	9	43	1.73
23358286--23358558	43	6.4	42	87	2	375	21	16	32	28	1.96
23360153--23360182	2	15.0	2	100	0	60	0	0	50	50	1.00
23362075--23362143	36	1.9	36	96	0	129	26	10	23	40	1.86
23364959--23365003	22	2.0	22	100	0	90	55	26	4	13	1.57
23368845--23368885	19	2.2	18	87	12	57	24	17	9	48	1.76
23371730--23371784	26	2.3	23	78	9	56	41	7	1	49	1.41
23372867--23372901	18	1.9	18	88	11	54	54	34	2	8	1.46
23373188--23373483	100	3.0	99	85	2	389	31	20	20	27	1.98
23373199--23373482	50	5.7	50	66	5	144	31	21	20	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23373190--23373548	100	3.6	100	83	3	384	31	20	21	26	1.98
23373948--23373982	18	1.9	18	88	11	54	54	34	2	8	1.46
23382732--23382773	20	2.1	20	95	0	75	47	0	7	45	1.30
23382800--23382851	3	17.0	3	76	11	52	30	5	1	61	1.30
23384226--23384277	26	2.0	26	100	0	104	42	11	7	38	1.70
23384235--23384289	26	2.2	25	83	6	67	45	12	3	38	1.60
23388535--23388573	20	2.0	20	100	0	78	35	25	33	5	1.78
23388785--23388827	2	21.5	2	100	0	86	48	0	0	51	1.00
23389460--23389491	17	1.9	16	93	6	55	40	6	0	53	1.26
23395475--23395508	10	3.6	9	88	11	50	29	0	11	58	1.33
23399473--23399630	56	2.8	56	99	0	307	41	10	12	35	1.77
23399625--23399846	26	7.9	28	90	6	303	28	0	23	48	1.51
23399626--23399846	30	7.9	26	89	8	271	28	0	23	48	1.51
23399626--23399846	108	2.0	112	92	6	369	28	0	23	48	1.51
23401053--23401077	7	3.6	7	100	0	50	60	12	0	28	1.32
23402012--23402067	25	2.3	25	80	14	64	62	5	0	32	1.18
23402158--23402220	29	2.2	29	91	0	99	65	0	0	34	0.93
23402254--23402304	22	2.3	21	90	9	84	35	0	35	29	1.58
23402276--23402333	30	1.9	30	92	0	98	37	0	32	29	1.58
23402253--23402355	52	2.0	52	94	0	179	37	0	32	30	1.58
23402306--23402355	22	2.3	23	89	6	77	42	0	30	28	1.56
23402773--23402811	20	2.1	19	85	9	53	61	0	12	25	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23407177--23407351	45	3.9	45	87	3	235	18	22	22	36	1.95
23408079--23408174	47	2.0	48	90	8	151	43	12	13	30	1.81
23410043--23410235	94	2.1	94	98	0	377	41	17	16	24	1.89
23411993--23412026	12	2.8	12	90	0	50	5	14	0	79	0.91
23413759--23413794	2	18.0	2	94	0	63	52	0	0	47	1.00
23415080--23415120	2	20.5	2	94	0	73	2	0	46	51	1.14
23415469--23415530	24	2.6	23	84	7	70	50	3	0	46	1.17
23416167--23416208	11	3.4	12	81	15	50	38	2	0	59	1.10
23416351--23416389	14	2.8	14	84	0	51	43	10	15	30	1.80
23416849--23416887	19	2.1	19	85	0	51	51	0	2	46	1.14
23416922--23416958	16	2.3	16	86	13	58	40	0	0	59	0.97
23416944--23416979	18	1.9	18	88	5	54	58	0	0	41	0.98
23416968--23417025	22	2.8	20	82	14	73	55	0	0	44	0.99
23419452--23419494	2	21.5	2	100	0	86	51	0	0	48	1.00
23434923--23435117	106	1.8	106	85	2	275	38	18	17	25	1.92
23436235--23436875	112	5.6	114	81	6	755	23	21	26	28	1.99
23436232--23436885	229	2.9	225	84	6	854	24	21	26	28	1.99
23437102--23437161	31	1.9	32	89	3	95	18	1	43	36	1.60
23438366--23438736	105	3.6	104	93	2	604	19	20	29	30	1.97
23443157--23443527	105	3.6	104	93	1	611	19	20	29	30	1.97
23445879--23445961	35	2.3	35	79	2	94	26	1	26	45	1.61
23445879--23445925	14	3.4	14	81	0	58	23	0	27	48	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23447663--23447694	16	2.0	16	93	0	55	28	18	6	46	1.73
23447822--23447920	52	1.9	52	93	0	171	44	5	18	32	1.71
23447831--23447913	26	3.2	26	62	13	62	40	6	21	31	1.77
23448193--23448268	36	2.1	36	95	0	134	38	7	14	39	1.75
23449188--23449441	52	5.0	52	75	16	205	46	16	3	34	1.63
23449260--23449317	21	2.8	20	82	7	71	43	13	3	39	1.61
23449322--23449358	15	2.7	14	84	15	51	56	13	0	29	1.37
23449322--23449359	7	5.6	7	82	17	53	57	13	0	28	1.36
23449302--23449372	27	2.7	27	70	10	65	49	12	1	36	1.50
23449355--23449406	22	2.4	21	87	3	68	40	19	1	38	1.63
23449230--23449433	96	2.1	95	86	7	297	47	16	1	34	1.58
23449421--23450465	9	118.4	9	72	15	694	49	16	2	32	1.58
23449472--23449525	22	2.6	22	88	11	80	55	18	0	25	1.43
23449418--23449585	92	1.8	91	81	7	205	47	20	2	29	1.65
23449542--23449713	25	6.5	25	72	13	87	47	18	2	31	1.61
23449472--23449621	67	2.2	66	81	9	171	48	20	2	29	1.61
23449809--23449852	22	2.0	23	86	4	63	54	13	0	31	1.39
23449862--23449914	8	6.0	8	77	16	52	58	13	0	28	1.35
23449809--23449916	32	3.6	30	82	9	121	53	12	0	33	1.39
23450427--23450472	7	6.0	7	90	9	56	52	17	0	30	1.45
23453938--23454006	21	3.3	21	91	4	113	37	20	40	1	1.61
23453971--23454019	12	4.3	12	75	15	59	36	22	40	0	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23454465--23454717	85	3.0	84	88	9	329	25	22	21	30	1.98
23454466--23454717	127	2.0	127	86	7	361	25	22	21	30	1.98
23454466--23454736	42	6.3	43	86	9	326	26	22	21	29	1.99
23458868--23458898	11	2.8	11	95	0	53	41	0	19	38	1.51
23462241--23462273	16	2.1	16	88	11	50	30	18	3	48	1.63
23468800--23468933	43	3.1	43	85	1	180	30	28	14	26	1.95
23470272--23470311	20	2.0	20	100	0	80	55	5	0	40	1.22
23475112--23475157	22	2.0	23	84	12	60	58	4	4	32	1.37
23480638--23480925	43	6.7	43	92	2	429	23	32	20	23	1.98
23480638--23480943	128	2.4	128	87	3	438	23	32	20	23	1.98
23480638--23480925	85	3.4	86	91	1	438	23	32	20	23	1.98
23487117--23487153	15	2.5	15	95	0	65	54	18	10	16	1.71
23488226--23488258	14	2.3	15	89	5	50	39	30	0	30	1.57
23488904--23489166	41	6.4	41	86	3	343	32	27	22	17	1.96
23488904--23489148	123	2.0	122	90	2	384	31	28	22	17	1.97
23489720--23489750	15	2.1	14	94	5	53	41	9	6	41	1.63
23490654--23490693	20	2.0	20	90	0	62	37	2	2	57	1.26
23491302--23491405	52	2.0	52	82	0	127	29	25	16	27	1.97
23493463--23493492	14	2.2	13	94	5	51	73	0	0	26	0.84
23493463--23493494	8	4.2	8	84	15	50	71	0	0	28	0.86
23494333--23494383	27	1.9	26	84	11	68	54	11	9	23	1.66
23497494--23497633	40	3.5	40	78	8	153	31	25	17	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23499648--23499689	16	2.5	17	85	14	61	30	2	4	61	1.29
23500203--23500233	5	6.2	5	100	0	62	61	0	0	38	0.96
23503194--23503367	87	2.0	87	97	0	330	26	14	16	42	1.87
23504868--23504934	32	2.1	33	82	2	82	25	2	23	47	1.66
23504360--23505184	411	2.0	410	94	0	1463	28	10	18	42	1.84
23506327--23506377	23	2.3	23	96	3	95	56	3	13	25	1.54
23509056--23509093	9	4.4	9	83	12	53	73	0	0	26	0.83
23509079--23509103	13	1.9	13	100	0	50	72	0	0	28	0.86
23510475--23510520	18	2.6	17	82	3	56	80	4	6	8	1.01
23513314--23513387	32	2.3	32	97	0	139	44	18	5	31	1.73

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