genome.fa.s9.2.7.7.80.10.50.1000.102.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: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

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   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  102  of  226  ( 27023 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)
35084417--35084458	18	2.3	18	76	11	50	59	2	26	11	1.45
35084577--35084616	19	2.1	19	100	0	80	35	0	25	40	1.56
35087027--35087323	50	5.8	50	83	3	310	21	30	22	25	1.99
35089858--35090006	54	2.8	54	76	9	160	30	16	28	24	1.96
35091126--35091167	19	2.2	19	95	0	75	42	9	16	30	1.80
35104000--35104032	16	2.0	17	88	5	50	39	3	0	57	1.14
35113925--35113969	19	2.4	19	96	0	81	40	26	11	22	1.87
35122438--35122655	73	3.0	73	94	0	373	39	22	5	32	1.76
35138732--35138770	20	2.0	20	89	0	60	46	0	5	48	1.24
35140527--35140581	7	7.6	7	88	8	83	14	1	25	58	1.47
35141465--35141703	129	1.9	129	83	3	311	30	18	22	28	1.97
35156772--35156832	6	10.2	6	96	0	104	16	3	0	80	0.84
35160072--35160123	20	2.6	20	93	0	86	46	1	30	21	1.62
35175844--35175882	20	2.0	20	90	10	62	51	30	2	15	1.57
35203770--35204005	51	4.7	51	77	6	212	30	27	16	25	1.97
35203770--35204001	101	2.3	101	83	1	268	31	26	17	25	1.97
35203762--35204039	101	2.7	99	77	6	254	30	28	15	25	1.96
35204416--35204446	14	2.2	14	94	0	53	51	12	9	25	1.70
35205895--35205936	22	2.1	19	86	13	57	45	2	0	52	1.13
35207469--35207515	3	15.7	3	95	0	85	68	0	31	0	0.90
35215652--35215729	20	3.9	20	87	0	120	41	23	29	6	1.79
35226878--35227174	27	11.1	27	80	7	234	36	20	20	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35226911--35227183	53	5.1	53	79	5	266	35	20	20	23	1.96
35226916--35227180	80	3.3	80	85	2	327	35	20	20	24	1.95
35226915--35227180	27	10.0	27	84	4	290	35	20	19	24	1.96
35226978--35227180	107	1.9	107	88	3	311	35	19	20	24	1.96
35227361--35227425	27	2.5	26	78	14	71	23	23	21	32	1.98
35227466--35227683	32	6.8	32	79	1	240	17	22	26	33	1.96
35227466--35227683	64	3.4	64	89	3	341	17	22	26	33	1.96
35237894--35237931	18	2.1	18	90	5	58	15	18	0	65	1.27
35254919--35254957	19	2.1	19	85	9	53	5	41	0	53	1.23
35258787--35258823	19	1.9	19	94	0	65	16	16	24	43	1.87
35260962--35261006	22	2.0	23	86	4	65	44	20	13	22	1.85
35262659--35262689	8	3.9	8	100	0	62	51	0	0	48	1.00
35267701--35267774	6	12.2	6	74	16	55	13	4	2	79	0.98
35267767--35267820	23	2.3	23	81	6	65	20	14	5	59	1.55
35270222--35270298	39	2.0	39	94	0	136	37	16	10	35	1.83
35271754--35271800	21	2.2	22	88	3	69	38	21	14	25	1.92
35289091--35289128	15	2.6	15	87	4	51	50	15	0	34	1.45
35292183--35292235	18	2.7	19	80	8	63	39	3	35	20	1.71
35301966--35302091	42	2.9	42	84	5	146	33	23	16	26	1.96
35301986--35302104	44	2.8	43	84	6	143	31	25	17	26	1.97
35303212--35303238	13	2.1	13	100	0	54	48	29	0	22	1.51
35327096--35327175	25	3.2	25	76	3	90	31	22	22	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35329020--35329064	16	2.8	17	75	25	53	40	22	0	37	1.54
35329242--35329312	25	2.8	25	80	0	88	28	21	18	32	1.96
35337795--35337827	17	1.9	17	100	0	66	21	6	30	42	1.77
35343831--35343856	9	2.9	9	100	0	52	11	0	0	88	0.52
35355048--35355183	52	2.7	50	80	10	163	42	5	1	50	1.35
35355133--35355207	38	2.0	38	94	0	132	42	9	0	48	1.35
35368988--35369130	50	2.7	54	81	6	168	27	19	25	26	1.99
35381258--35381346	46	1.9	46	100	0	178	21	15	17	44	1.86
35383341--35383783	27	16.4	27	88	0	571	18	19	21	40	1.91
35389751--35389793	19	2.2	20	84	12	63	32	18	0	48	1.48
35389926--35390061	50	2.7	50	86	7	195	30	30	14	24	1.95
35396329--35396576	50	4.9	50	83	6	277	27	20	29	22	1.99
35411171--35411702	268	2.0	261	90	4	843	37	16	15	30	1.91
35425914--35426089	30	5.9	30	89	0	253	28	19	27	23	1.98
35425914--35426089	90	2.0	90	90	0	280	28	19	27	23	1.98
35426422--35426511	27	3.3	27	92	3	146	15	20	22	42	1.89
35440804--35440932	27	4.8	27	83	1	161	39	27	15	17	1.90
35440804--35440970	27	6.2	27	80	4	151	38	25	14	20	1.92
35440804--35440959	81	1.9	81	83	5	199	39	25	15	19	1.91
35441287--35441393	28	3.8	28	84	0	151	25	21	24	28	1.99
35443693--35443983	107	2.7	107	82	6	297	40	21	15	22	1.91
35443693--35443955	27	9.8	26	84	8	280	41	22	14	21	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35443732--35443982	134	1.9	135	85	4	355	40	21	14	23	1.90
35444262--35444350	28	3.2	28	85	1	135	22	21	25	30	1.99
35451741--35451785	20	2.2	20	84	7	56	55	6	8	28	1.56
35453772--35453865	25	3.8	25	80	10	86	28	23	21	26	1.99
35453794--35453874	25	3.2	25	84	6	103	28	23	23	24	2.00
35455632--35455674	16	2.7	16	81	0	50	13	23	6	55	1.62
35455931--35456128	50	3.8	50	78	6	155	24	27	18	29	1.98
35464706--35464738	12	2.9	12	91	8	52	21	6	0	72	1.05
35466798--35466883	30	2.9	30	77	3	93	32	19	12	34	1.90
35466877--35466937	29	2.1	29	96	0	113	14	26	16	42	1.87
35470801--35470855	6	9.3	6	75	11	51	80	3	5	10	1.01
35470780--35470855	18	4.5	16	75	14	64	77	6	3	11	1.09
35477805--35477878	30	2.5	30	82	4	87	33	20	14	31	1.93
35477826--35478007	30	6.1	30	77	5	197	23	21	14	40	1.90
35477850--35478007	60	2.6	60	94	0	271	22	22	13	41	1.89
35479890--35479948	25	2.4	25	91	0	100	23	35	15	25	1.94
35480104--35480139	19	1.9	19	88	5	56	25	11	8	55	1.62
35492267--35492321	28	2.0	28	92	0	92	32	9	16	41	1.80
35495620--35495763	25	5.8	25	81	1	173	29	25	22	22	1.99
35495622--35495763	75	1.9	75	85	2	196	29	24	22	23	1.99
35495620--35495751	50	2.6	50	91	0	210	29	25	21	22	1.99
35497993--35498028	3	13.0	3	83	16	51	27	0	0	72	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35497993--35498028	11	3.3	11	100	0	72	27	0	0	72	0.85
35500907--35500944	19	2.0	19	100	0	76	36	5	21	36	1.76
35502894--35502967	20	3.7	19	79	15	87	28	17	29	24	1.97
35502894--35502949	10	5.8	9	82	15	67	30	16	30	23	1.96
35505593--35505653	30	2.0	30	96	0	113	32	14	27	24	1.95
35507584--35507691	39	2.8	39	81	0	144	31	13	28	25	1.94
35517875--35517927	13	4.1	13	75	0	61	33	7	24	33	1.84
35525654--35525687	17	2.0	17	94	0	59	17	17	14	50	1.79
35527123--35527208	26	3.3	26	81	1	100	22	25	19	32	1.97
35527289--35527373	33	2.6	33	86	0	125	23	24	21	30	1.99
35535048--35535073	9	2.9	9	100	0	52	23	30	0	46	1.53
35549243--35549276	16	2.1	16	100	0	68	5	11	35	47	1.65
35549743--35549768	13	2.0	13	100	0	52	0	30	7	61	1.24
35557022--35557056	18	2.0	17	88	5	52	45	0	0	54	0.99
35557202--35557311	45	2.7	40	78	8	105	32	29	6	31	1.82
35557292--35557327	16	2.2	16	100	0	72	38	36	0	25	1.56
35563266--35563307	13	3.0	13	81	18	57	52	23	9	14	1.71
35563269--35563310	16	2.6	16	96	0	75	52	26	11	9	1.68
35566421--35566504	43	2.0	43	82	0	105	32	26	20	21	1.98
35568008--35568052	23	2.0	22	87	8	65	66	4	0	28	1.11
35575347--35575584	120	2.0	120	91	0	386	29	23	11	34	1.90
35587869--35588088	106	2.1	106	89	1	334	24	27	24	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35588383--35588610	76	3.0	76	100	0	456	40	25	9	25	1.84
35594776--35594819	23	1.9	22	82	17	54	36	25	0	38	1.56
35594864--35594957	45	2.1	45	88	4	136	30	24	19	25	1.98
35594963--35595096	50	2.7	49	84	5	162	31	26	15	26	1.96
35594963--35595085	51	2.4	51	86	6	162	30	25	15	28	1.96
35605103--35605244	22	6.5	22	90	0	203	30	14	26	28	1.95
35605742--35605842	52	1.9	52	91	0	166	26	16	21	34	1.95
35608590--35608680	45	2.0	45	91	0	146	32	20	17	28	1.96
35608690--35608876	51	3.7	50	81	4	232	31	26	17	25	1.97
35608688--35608872	101	1.8	101	91	3	309	31	25	17	24	1.97

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   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226