genome.fa.s9.2.7.7.80.10.50.1000.157.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  157  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)
50787299--50787798	162	3.1	162	86	0	660	29	19	17	35	1.94
50789514--50789663	42	3.5	43	80	6	153	26	17	24	31	1.97
50789860--50789886	2	13.5	2	100	0	54	48	0	0	51	1.00
50790570--50790620	15	3.3	15	76	10	57	33	0	0	66	0.92
50790570--50790620	17	3.1	17	80	5	61	33	0	0	66	0.92
50790794--50790834	21	2.0	21	95	0	73	46	12	12	29	1.77
50792633--50792711	3	25.7	3	94	5	140	64	1	1	32	1.09
50792796--50792825	8	3.8	8	95	0	51	86	0	3	10	0.67
50792843--50792887	17	2.7	16	82	6	54	64	2	8	24	1.34
50794221--50794811	133	4.4	132	77	7	523	28	18	18	35	1.94
50794194--50794809	45	13.9	45	75	4	419	28	18	18	34	1.95
50794208--50794810	44	13.6	44	77	5	469	28	18	18	34	1.95
50798506--50798584	27	2.9	27	94	0	140	31	1	20	46	1.58
50798681--50798894	111	1.9	110	88	0	320	23	14	28	32	1.94
50799384--50799413	15	2.0	15	100	0	60	20	20	13	46	1.83
50801220--50801299	16	5.3	16	70	11	53	36	13	1	48	1.51
50805478--50805530	8	6.4	8	79	16	63	77	11	0	11	1.00
50805476--50805530	26	2.1	27	90	10	87	78	10	0	10	0.98
50805480--50805538	15	3.7	15	82	14	66	74	11	1	11	1.15
50808016--50808606	88	6.7	88	94	0	1004	27	23	24	25	2.00
50808818--50809580	50	15.3	50	71	8	358	32	23	20	23	1.98
50808818--50809676	100	8.6	99	85	4	842	32	23	20	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50812015--50812094	16	5.3	16	70	11	53	36	13	1	48	1.51
50814815--50815025	46	4.5	45	72	13	126	27	13	26	32	1.94
50817523--50817822	151	2.0	150	92	0	492	25	16	31	27	1.97
50824622--50824960	165	2.1	163	94	1	588	28	18	17	36	1.93
50828052--50828084	15	2.3	15	89	5	50	66	0	0	33	0.92
50828114--50828156	18	2.4	18	84	7	52	41	41	2	13	1.57
50828258--50828317	18	3.3	18	85	0	84	25	10	21	43	1.83
50828258--50828317	9	6.7	9	80	0	75	25	10	21	43	1.83
50830519--50830568	25	2.0	25	88	7	75	24	26	22	28	1.99
50835556--50835589	14	2.6	13	90	9	52	47	0	0	52	1.00
50835528--50835637	46	2.3	47	79	16	113	45	3	0	50	1.25
50835556--50835596	20	2.0	20	85	0	55	51	0	0	48	1.00
50835644--50835719	30	2.7	27	77	15	82	39	0	2	57	1.12
50841451--50841539	41	2.2	41	95	0	160	44	17	6	30	1.75
50842657--50843003	162	2.1	162	90	0	550	28	18	15	36	1.92
50843509--50843547	3	13.0	3	100	0	78	33	0	0	66	0.92
50843942--50844128	88	2.1	88	98	0	365	37	10	12	40	1.77
50844560--50844596	18	2.1	18	89	0	56	29	8	13	48	1.71
50848358--50848388	16	1.9	16	93	0	53	19	0	51	29	1.47
50851314--50851360	23	2.0	23	95	0	85	44	21	2	31	1.64
50851311--50851363	16	3.3	16	76	15	56	43	22	1	32	1.64
50851486--50851640	22	7.3	22	63	28	68	47	11	2	38	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50851484--50851825	31	10.5	31	72	19	245	45	11	2	40	1.53
50851484--50851840	65	5.4	65	79	12	331	45	12	1	40	1.53
50851661--50851693	16	2.1	16	100	0	66	42	24	0	33	1.55
50851500--50852028	9	61.3	9	66	20	86	44	14	2	38	1.57
50851666--50851712	23	2.0	23	91	0	76	42	23	0	34	1.54
50851996--50852028	16	2.1	16	94	0	57	51	18	0	30	1.46
50857456--50857621	66	2.5	65	81	4	199	43	17	24	13	1.85
50857598--50857642	21	2.1	21	87	0	63	40	15	40	4	1.67
50857646--50857710	21	3.1	21	82	8	87	33	15	44	6	1.71
50858037--50858234	43	4.7	41	75	8	166	25	20	28	26	1.99
50859300--50859325	13	2.0	13	100	0	52	23	15	15	46	1.83
50859692--50859726	18	2.1	18	89	10	56	20	28	17	34	1.95
50862109--50862142	15	2.3	15	94	0	59	20	0	0	79	0.73
50864199--50864244	20	2.3	20	82	10	58	28	0	4	67	1.10
50867774--50867817	7	6.3	7	91	0	61	38	6	29	25	1.81
50867793--50868014	50	4.4	50	93	0	381	33	13	22	29	1.93
50868805--50868849	18	2.7	18	80	13	60	40	13	4	42	1.64
50868805--50868841	17	2.1	18	90	5	58	45	16	5	32	1.70
50872229--50872263	17	2.1	17	94	0	61	34	8	5	51	1.56
50873748--50873796	24	2.0	23	84	7	62	32	10	4	53	1.54
50873969--50874002	18	1.9	18	88	5	52	32	2	0	64	1.08
50874235--50874270	18	1.9	18	88	5	54	50	8	0	41	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50875934--50875980	19	2.6	18	86	3	58	21	0	4	74	0.99
50878065--50878157	29	3.2	29	78	4	98	34	20	2	43	1.64
50878410--50878448	10	3.8	10	86	13	53	53	0	46	0	1.00
50878505--50878539	3	12.0	3	93	6	63	68	0	31	0	0.90
50878736--50878778	23	1.9	23	85	4	61	30	32	30	6	1.84
50878871--50878917	20	2.2	20	85	7	58	78	0	21	0	0.75
50879038--50879098	31	1.9	31	87	9	88	19	6	11	62	1.50
50880736--50880789	20	2.7	19	83	11	63	27	12	22	37	1.91
50880944--50880980	17	2.1	18	90	5	58	45	16	5	32	1.70
50881894--50881969	25	2.9	25	76	11	64	32	0	2	64	1.07
50886687--50886738	26	2.0	25	82	10	61	51	7	5	34	1.54
50887978--50888043	29	2.4	27	74	5	69	37	1	1	59	1.16
50888048--50888094	24	1.9	26	83	12	64	42	0	2	55	1.12
50890099--50890149	22	2.3	22	96	0	93	29	31	0	39	1.57
50890116--50890233	51	2.3	51	89	1	184	30	28	0	40	1.57
50890235--50890300	32	2.1	32	91	8	109	31	0	0	68	0.90
50896607--50896657	23	2.3	22	80	12	59	19	7	3	68	1.30
50896817--50897125	107	3.0	106	90	5	467	28	15	19	35	1.93
50896929--50897125	98	2.0	97	93	1	331	28	16	20	35	1.94
50906266--50906321	26	2.2	25	87	6	85	44	8	0	46	1.34
50906825--50906872	19	2.5	18	86	10	60	56	0	4	39	1.19
50906837--50906878	19	2.2	19	83	8	50	59	0	2	38	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50913882--50913943	21	3.0	21	80	4	63	75	4	1	17	1.05
50919118--50919163	24	1.9	25	86	8	69	30	10	0	58	1.32
50919152--50919219	29	2.3	30	80	10	86	33	1	0	64	1.02
50922173--50922198	3	8.7	3	100	0	52	30	69	0	0	0.89
50926978--50927023	14	3.3	14	93	0	83	41	0	2	56	1.11
50927149--50927192	3	14.7	3	100	0	88	34	0	0	65	0.93
50932010--50932039	15	2.0	15	93	0	51	53	10	26	10	1.66
50932253--50932292	19	2.2	19	86	13	57	15	0	42	42	1.46
50933076--50933120	23	2.0	23	91	4	74	46	17	4	31	1.68
50933073--50933130	22	2.6	22	86	7	82	43	18	3	34	1.68
50933086--50933143	19	2.8	20	84	10	64	39	17	6	36	1.76
50939493--50939539	23	2.0	24	84	12	62	53	8	17	21	1.70
50945917--50945941	3	8.3	3	100	0	50	0	0	68	32	0.90
50946070--50946115	22	2.2	21	88	7	67	23	15	19	41	1.89
50946304--50946676	197	1.9	192	87	3	541	22	23	20	34	1.97
50947467--50947553	24	3.9	24	74	22	75	35	2	1	60	1.17
50947470--50947541	20	3.5	20	78	14	74	33	2	0	63	1.08
50947513--50947550	20	1.9	20	84	10	51	36	0	2	60	1.11
50954538--50954603	31	2.1	31	97	0	123	59	15	6	19	1.57
50956807--50956843	18	2.1	18	94	0	65	48	18	16	16	1.81
50958864--50958916	10	5.6	10	75	18	51	62	0	0	37	0.96
50958864--50958913	18	2.8	18	82	14	59	62	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50958983--50959048	19	3.4	19	73	10	62	57	3	9	30	1.45
50959232--50959319	29	3.0	29	96	0	158	31	4	3	60	1.34
50959334--50959392	16	3.5	16	81	6	64	40	1	0	57	1.09
50961812--50961837	2	13.0	2	100	0	52	50	0	0	50	1.00
50962717--50962773	5	11.8	5	75	20	59	59	1	0	38	1.08
50962717--50962773	14	4.3	13	82	6	62	59	1	0	38	1.08
50969452--50969565	59	1.9	59	100	0	228	46	11	5	36	1.63
50969703--50970107	152	2.7	151	87	6	595	53	7	8	30	1.58
50971439--50971735	147	2.0	147	95	0	531	20	14	15	49	1.79
50973782--50973809	13	2.2	13	100	0	56	46	0	0	53	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   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226