genome.fa.s7.2.7.7.80.10.50.1000.166.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   

This is table  166  of  204  ( 24458 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)
49646818--49646867	12	4.2	12	78	14	50	60	2	0	38	1.09
49647426--49647539	59	1.9	59	96	0	210	41	12	13	33	1.81
49647561--49647746	69	2.7	69	82	3	205	19	22	25	32	1.98
49653221--49653256	18	2.0	18	94	0	63	38	13	36	11	1.81
49653347--49653385	17	2.3	17	86	8	53	0	15	0	84	0.62
49653604--49653637	10	3.4	10	95	0	59	76	0	0	23	0.79
49669732--49669762	12	2.5	13	94	5	55	61	0	22	16	1.34
49670414--49670627	104	2.1	104	96	0	392	32	11	21	33	1.90
49673284--49673330	23	2.0	24	91	4	78	19	6	4	70	1.26
49680908--49680955	20	2.5	19	79	3	51	52	0	18	29	1.46
49698305--49698342	18	2.2	18	85	4	51	13	26	5	55	1.59
49700179--49700219	21	1.9	22	85	14	59	2	17	4	75	1.08
49706380--49706432	18	2.9	18	88	2	70	30	30	18	20	1.97
49711344--49711385	11	3.7	12	90	9	61	23	30	0	45	1.53
49713278--49713315	18	2.1	18	90	0	58	21	26	10	42	1.85
49716876--49717166	126	2.3	126	89	0	438	26	23	18	31	1.97
49717365--49717542	95	1.9	95	84	2	241	40	15	2	41	1.62
49717365--49717570	95	2.2	95	82	5	238	39	16	3	39	1.67
49724060--49724106	22	2.1	22	100	0	94	34	8	25	31	1.86
49726045--49726091	17	2.8	16	77	22	51	78	4	4	12	1.04
49726054--49726109	28	2.0	29	85	3	78	76	7	3	12	1.11
49727832--49728293	96	5.1	87	80	6	289	29	19	16	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49727975--49728149	51	3.5	51	72	13	177	32	20	15	32	1.93
49727834--49728285	44	9.9	45	75	7	349	29	20	16	33	1.94
49727925--49728266	96	3.6	97	84	5	402	30	21	15	32	1.95
49742631--49742661	14	2.3	13	94	5	53	0	0	9	90	0.46
49745128--49745180	15	3.5	15	80	7	54	73	3	1	20	1.08
49752496--49752596	29	3.5	28	90	9	159	38	13	0	47	1.44
49752665--49752733	27	2.6	27	95	0	120	28	28	26	15	1.96
49752766--49752894	26	5.3	23	68	25	68	67	0	32	0	0.91
49752772--49752902	20	6.6	19	71	19	90	66	0	33	0	0.92
49752778--49752924	19	7.2	21	72	23	100	68	0	31	0	0.90
49752767--49752885	37	3.2	37	79	15	124	68	0	31	0	0.90
49752781--49752925	22	6.8	21	73	17	86	67	0	32	0	0.91
49752796--49752922	62	2.0	67	80	13	151	70	0	29	0	0.88
49752879--49752943	36	1.9	32	81	12	76	70	0	29	0	0.87
49752762--49752939	45	4.0	43	71	20	125	67	0	32	0	0.91
49753036--49753098	18	3.4	18	75	12	74	30	3	4	61	1.32
49753021--49753098	37	2.1	37	100	0	156	29	2	5	62	1.30
49753616--49753652	11	3.3	11	85	7	56	56	13	0	29	1.37
49755326--49755395	26	2.7	26	100	0	140	24	18	8	48	1.76
49759281--49759311	12	2.6	12	94	0	53	61	19	0	19	1.35
49759555--49759628	3	24.7	3	100	0	148	67	32	0	0	0.91
49759627--49759676	3	16.3	3	91	4	82	64	4	0	32	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49759722--49759760	20	2.0	21	85	10	55	66	7	0	25	1.18
49759908--49760006	27	3.7	27	90	0	153	18	27	28	26	1.98
49760075--49760174	29	3.5	28	94	5	166	49	0	13	38	1.42
49771039--49771080	21	2.0	21	85	4	57	33	2	7	57	1.39
49773834--49773858	6	4.2	6	100	0	50	48	36	0	16	1.46
49774912--49774954	22	1.9	23	85	4	61	37	2	2	58	1.24
49776539--49776568	2	15.0	2	100	0	60	50	0	0	50	1.00
49784061--49784094	15	2.3	15	89	0	50	23	5	0	70	1.09
49787055--49787106	27	1.9	27	84	7	70	0	34	0	65	0.93
49787318--49787368	5	9.6	5	79	12	57	60	1	0	37	1.08
49787318--49787368	17	3.2	15	78	13	57	60	1	0	37	1.08
49787320--49787373	27	2.0	28	88	3	83	57	3	0	38	1.17
49800796--49800833	18	2.1	19	90	5	60	52	5	21	21	1.66
49803490--49803595	53	2.0	53	98	0	203	37	24	12	25	1.90
49805830--49805903	38	1.9	39	83	8	98	32	4	4	59	1.35
49806274--49806337	22	2.9	22	92	0	101	34	15	26	23	1.95
49806802--49806862	29	2.1	28	84	3	77	24	14	18	42	1.88
49810011--49810106	31	3.1	31	95	3	174	45	12	9	32	1.74
49814058--49814083	13	2.0	13	100	0	52	23	38	0	38	1.55
49816233--49816328	31	3.1	31	95	3	174	45	12	9	32	1.74
49817281--49817347	14	5.2	13	70	22	52	34	5	0	59	1.22
49818140--49818244	52	2.0	52	96	0	192	24	10	28	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49818247--49818529	126	2.3	125	90	4	437	29	16	21	31	1.96
49821948--49822005	29	2.0	29	90	6	91	58	1	0	39	1.08
49822038--49822143	52	2.1	51	87	1	149	33	1	32	32	1.69
49822096--49822164	22	3.1	22	87	0	102	39	1	28	30	1.66
49822437--49822498	29	2.1	28	79	5	70	48	17	12	20	1.80
49825142--49825175	2	17.0	2	100	0	68	50	50	0	0	1.00
49826614--49826667	24	2.3	24	96	3	101	31	0	16	51	1.45
49838617--49838664	20	2.4	19	83	10	60	83	4	2	10	0.87
49838622--49838664	21	2.1	21	87	8	63	83	4	2	9	0.87
49840269--49840382	44	2.5	45	79	9	108	67	5	5	21	1.31
49840640--49840674	17	2.1	17	88	0	52	54	0	42	2	1.15
49850867--49851191	30	10.8	30	85	0	407	43	15	10	31	1.80
49850857--49851191	90	3.7	90	87	0	476	42	15	10	31	1.80
49854147--49854214	20	3.2	20	74	12	57	36	1	1	60	1.15
49869181--49869290	3	37.0	3	86	5	125	30	6	0	62	1.20
49869165--49869213	24	2.0	24	84	7	64	24	16	0	59	1.37
49873822--49873909	44	2.0	44	84	0	113	38	30	15	14	1.88
49874837--49874873	3	12.3	3	100	0	74	32	0	0	67	0.91
49879579--49879752	52	3.3	51	76	7	172	31	21	14	32	1.94
49879586--49879803	104	2.1	104	81	5	244	31	17	15	35	1.92
49888728--49888755	7	4.0	7	100	0	56	14	0	0	85	0.59
49889523--49889555	17	1.9	17	93	0	57	66	9	0	24	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49889746--49889797	26	2.0	26	100	0	104	30	30	7	30	1.85
49891390--49891445	29	2.0	28	85	3	76	21	16	30	32	1.95
49894495--49894550	23	2.5	22	86	11	78	39	8	3	48	1.52
49896978--49897027	26	1.9	26	84	8	66	54	8	20	18	1.68
49898320--49898345	11	2.4	11	100	0	52	76	0	0	23	0.78
49899364--49899421	30	1.9	30	92	0	98	10	29	41	18	1.84
49900478--49900544	34	1.9	35	87	3	100	32	8	13	44	1.75
49900494--49900532	20	2.0	20	89	0	60	28	10	12	48	1.74
49902437--49902508	36	2.0	36	100	0	144	50	11	13	25	1.75
49904121--49904193	3	24.3	3	97	0	137	0	0	31	68	0.90
49904669--49904759	45	2.0	45	89	6	139	28	16	21	32	1.95
49904730--49904919	25	7.5	26	72	11	81	28	14	23	32	1.94
49904831--49904938	25	4.3	26	72	9	71	27	12	25	34	1.92
49904722--49905042	76	4.2	75	86	3	410	28	14	24	33	1.94
49905094--49905146	24	2.2	24	86	0	70	13	16	32	37	1.88
49918753--49918792	16	2.4	17	87	4	55	70	12	0	17	1.18
49920260--49920303	23	2.0	21	87	12	63	70	4	2	22	1.17
49921475--49921503	13	2.1	14	93	6	51	34	0	0	65	0.93
49921508--49921563	23	2.4	23	82	11	71	66	0	0	33	0.92
49926086--49926114	2	14.5	2	100	0	58	48	0	0	51	1.00
49926424--49926479	15	3.7	15	76	9	60	50	0	17	32	1.47
49932018--49932069	9	6.5	8	76	14	54	71	0	1	26	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49932020--49932068	15	3.2	15	86	11	64	69	0	2	28	1.00
49941594--49941649	29	1.9	29	92	0	94	23	12	12	51	1.73
49947091--49947138	2	24.0	2	95	0	87	47	2	0	50	1.12
49958020--49958052	15	2.2	15	94	0	57	75	3	6	15	1.11
49961303--49961401	52	2.0	52	88	6	150	32	16	21	30	1.95
49961787--49961827	11	3.7	11	80	0	55	19	14	9	56	1.66
49962235--49962610	105	3.3	112	76	10	322	28	16	19	35	1.93
49962712--49962751	20	1.9	20	90	10	62	37	15	5	42	1.68
49962775--49963141	190	1.9	188	86	4	524	34	18	19	28	1.95
49962963--49963168	112	1.8	111	86	3	297	33	17	17	31	1.94

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