genome.fa.s5.2.7.7.80.10.50.1000.115.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   

This is table  115  of  208  ( 24913 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)
34850296--34850487	77	2.5	76	83	5	235	34	17	31	16	1.92
34851360--34851406	20	2.3	20	92	3	76	21	14	10	53	1.71
34855707--34855768	20	3.2	20	66	13	56	33	20	32	12	1.91
34855618--34855847	77	3.0	76	88	1	309	36	17	29	16	1.92
34855618--34855850	39	6.1	39	84	3	276	36	17	29	16	1.92
34857339--34857399	20	3.0	20	74	9	61	39	16	27	16	1.90
34857382--34857435	20	2.8	20	85	2	65	42	12	29	14	1.83
34876289--34876578	50	5.8	50	85	2	377	21	31	21	25	1.98
34887005--34887038	15	2.3	15	90	10	52	64	0	20	14	1.28
34892098--34892212	56	2.1	56	98	0	221	33	16	16	33	1.92
34902972--34903017	23	2.0	23	83	8	58	0	30	2	67	1.03
34906222--34906264	18	2.4	18	84	0	50	58	18	4	18	1.56
34916548--34916583	15	2.4	15	90	0	54	36	0	8	55	1.30
34924323--34924376	26	2.1	26	100	0	108	35	3	31	29	1.75
34928583--34928696	25	4.6	25	71	14	83	30	19	22	27	1.98
34940832--34940905	27	2.7	27	81	4	87	20	29	13	36	1.91
34958143--34958427	27	10.7	26	80	7	295	40	24	16	18	1.90
34958143--34958429	54	5.4	54	83	4	332	40	24	16	19	1.90
34959003--34959037	10	3.5	10	92	0	61	14	20	5	60	1.54
34974338--34974377	19	2.0	21	85	9	57	55	17	7	20	1.66
34975092--34975135	21	2.2	20	87	4	61	20	6	4	68	1.31
34978140--34978165	11	2.4	11	100	0	52	11	7	15	65	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34978738--34978772	13	2.6	13	86	4	52	42	5	2	48	1.41
34978895--34979027	43	3.1	43	87	8	191	24	20	30	25	1.99
34979003--34979050	23	2.1	23	92	7	80	25	27	22	25	2.00
34978960--34979093	66	2.0	66	94	2	234	24	23	27	23	2.00
34979026--34979143	43	2.7	43	89	5	184	24	22	27	25	2.00
34978917--34979124	109	1.9	109	93	0	362	25	22	28	24	1.99
34980296--34980419	59	2.1	59	90	3	196	41	13	23	21	1.89
34980821--34980855	17	1.9	19	88	11	56	62	2	2	31	1.24
34980941--34980978	18	2.1	19	85	5	51	57	7	2	31	1.41
34981057--34981102	15	3.1	15	87	6	58	47	2	0	50	1.13
34985902--34985956	21	2.6	21	82	0	65	49	23	3	23	1.66
34985925--34985964	21	1.9	21	84	0	53	47	20	10	22	1.79
34990835--34990951	58	2.0	57	85	1	153	38	16	19	25	1.92
34990835--34990971	58	2.3	59	82	3	152	38	17	18	24	1.92
34993256--34993313	22	2.6	22	75	8	55	58	25	10	5	1.52
35005603--35005663	33	1.9	32	87	12	90	49	34	4	11	1.61
35005601--35005759	35	4.6	34	75	7	133	44	28	11	15	1.81
35006669--35006703	18	1.9	18	100	0	70	62	5	17	14	1.49
35017365--35017389	10	2.5	10	100	0	50	52	0	8	40	1.31
35019735--35019760	12	2.2	12	100	0	52	23	15	26	34	1.94
35031308--35031469	46	3.6	46	94	2	276	32	15	23	28	1.95
35050442--35050689	50	4.8	50	87	3	298	27	21	28	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35054916--35054971	29	1.9	29	89	7	87	23	16	19	41	1.90
35057779--35057877	31	3.3	30	69	11	87	29	7	11	52	1.63
35058095--35058129	18	1.9	18	88	0	52	51	8	2	37	1.47
35060953--35061001	13	3.7	13	75	5	53	44	0	2	53	1.12
35060950--35061011	27	2.3	27	100	0	124	41	0	4	53	1.22
35060946--35061026	14	6.0	13	73	25	62	44	0	3	51	1.19
35061088--35061153	19	3.3	19	67	19	53	56	6	0	37	1.24
35061089--35061195	41	2.5	43	83	4	128	56	9	0	33	1.38
35064604--35064635	2	16.5	2	93	6	57	50	0	0	50	1.00
35068201--35068264	28	2.2	30	86	8	87	64	0	0	35	0.94
35068224--35068249	11	2.4	11	100	0	52	61	0	0	38	0.96
35070948--35071025	38	2.1	38	97	0	147	42	14	10	33	1.79
35077234--35077292	18	3.5	17	72	13	59	38	1	42	16	1.59
35077913--35077981	29	2.4	29	87	4	95	23	30	27	18	1.98
35081861--35081901	22	2.0	21	90	9	66	56	12	0	31	1.36
35093222--35093255	18	1.9	18	88	5	52	55	0	5	38	1.24
35096909--35096970	28	2.2	28	85	2	81	43	12	9	33	1.76
35098003--35098044	21	2.0	21	90	0	66	42	2	7	47	1.43
35102108--35102135	8	3.5	8	100	0	56	75	0	14	10	1.06
35107858--35107937	42	1.9	42	92	5	135	48	0	26	25	1.51
35108023--35108048	13	2.0	13	100	0	52	30	0	38	30	1.58
35114809--35114855	10	4.6	10	80	12	51	34	2	0	63	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35114982--35115026	22	2.0	22	87	8	65	42	4	0	53	1.21
35114993--35115025	16	2.1	16	88	11	50	42	3	0	54	1.15
35123721--35123955	41	5.6	43	78	8	209	35	25	17	22	1.95
35123722--35123955	84	2.8	84	93	0	378	35	25	17	22	1.95
35127588--35127676	9	9.9	9	77	9	58	68	1	2	28	1.08
35127597--35127676	16	4.6	16	77	12	70	68	1	2	27	1.10
35127618--35127683	8	7.9	8	77	14	53	66	0	3	30	1.06
35127620--35127709	34	2.6	34	82	8	94	63	1	2	33	1.14
35127753--35128099	174	2.0	170	95	2	622	39	19	7	32	1.81
35128384--35128470	27	3.1	28	85	4	106	36	5	0	57	1.23
35128384--35128470	28	3.1	27	82	8	104	36	5	0	57	1.23
35128476--35128517	21	2.1	20	86	8	59	23	0	9	66	1.21
35128335--35128597	9	28.9	9	64	19	68	30	3	2	63	1.25
35128479--35128602	19	6.8	18	64	16	51	29	2	2	65	1.18
35128999--35129094	49	2.0	49	100	0	192	34	2	17	45	1.60
35134747--35134786	20	2.0	20	95	0	71	30	22	15	32	1.94
35142875--35143399	44	11.8	45	73	5	404	30	18	22	27	1.98
35142859--35143318	89	5.2	89	91	0	717	32	18	22	26	1.97
35142859--35143377	89	5.9	87	88	3	524	31	18	22	27	1.97
35145322--35145351	15	2.0	15	93	0	51	33	20	3	43	1.68
35148243--35148287	18	2.5	18	82	7	56	57	0	0	42	0.98
35157650--35157700	20	2.5	20	90	0	75	9	31	23	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35157867--35157895	7	4.1	7	100	0	58	41	0	13	44	1.44
35158155--35158191	15	2.5	15	90	0	56	45	8	18	27	1.77
35159786--35159858	34	2.1	35	84	2	94	31	8	15	45	1.75
35163856--35163885	13	2.3	13	94	0	51	43	0	3	53	1.17
35170603--35170631	13	2.2	13	100	0	58	24	0	41	34	1.55
35170539--35170690	81	1.9	81	92	0	259	39	7	20	32	1.80
35172840--35172874	7	5.0	7	100	0	70	57	0	14	28	1.38
35176132--35176165	17	2.0	17	88	0	50	50	8	8	32	1.64
35176348--35176397	10	5.6	9	76	23	52	64	2	0	34	1.05
35176346--35176397	18	2.9	17	81	13	61	63	1	0	34	1.06
35176337--35176399	26	2.3	27	84	10	76	61	1	0	36	1.05
35176339--35176431	18	5.0	18	71	21	59	56	2	3	37	1.27
35179049--35179097	15	3.2	16	80	11	59	44	10	16	28	1.80
35180705--35180738	16	2.1	16	100	0	68	23	5	11	58	1.55
35203428--35203475	23	2.1	23	100	0	96	31	25	4	39	1.74
35213997--35214185	50	3.8	50	79	0	207	23	28	20	28	1.99
35213997--35214185	100	1.9	100	82	0	234	23	28	20	28	1.99
35215058--35215094	20	2.0	19	85	15	51	40	21	0	37	1.54
35220181--35220229	23	2.1	23	96	0	89	24	24	14	36	1.93
35225845--35225915	23	3.3	21	76	14	65	33	7	16	42	1.76
35227717--35227883	85	2.0	85	84	4	221	19	31	25	23	1.98
35229675--35229725	27	1.9	26	84	11	68	54	13	9	21	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35229973--35230017	23	2.0	23	81	0	54	62	4	4	28	1.34
35231762--35231932	85	2.0	85	82	2	209	29	21	18	30	1.97
35231825--35232499	44	14.5	45	66	18	208	28	20	18	32	1.96
35231852--35232518	142	4.7	142	92	0	1111	28	20	17	33	1.96
35244606--35244656	27	1.9	26	84	11	68	54	13	9	21	1.67
35244904--35244948	23	2.0	23	81	0	54	62	4	4	28	1.34
35250386--35250418	17	1.9	17	100	0	66	18	30	9	42	1.81
35254713--35254745	17	1.9	17	100	0	66	18	30	9	42	1.81
35256742--35256785	21	2.1	21	100	0	88	40	13	18	27	1.88
35257381--35257431	22	2.3	22	100	0	102	27	33	0	39	1.57

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