genome.fa.s5.2.7.7.80.10.50.1000.154.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  154  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)
46901750--46901774	3	8.3	3	100	0	50	68	0	0	32	0.90
46903511--46903671	87	1.9	87	86	0	232	37	24	13	24	1.92
46907930--46907961	16	2.0	16	100	0	64	37	25	12	25	1.91
46908439--46908473	14	2.5	14	90	0	52	45	2	17	34	1.63
46911069--46911222	24	6.4	24	75	7	114	35	20	27	16	1.94
46911205--46911263	26	2.3	27	82	8	79	40	22	22	15	1.90
46911325--46911399	24	3.1	24	75	17	73	36	20	28	16	1.93
46914226--46914340	52	2.3	50	87	4	160	59	6	2	32	1.36
46914647--46914685	13	2.9	14	80	7	53	66	0	17	15	1.25
46916852--46916901	26	2.0	25	84	7	66	52	2	6	40	1.38
46916841--46916889	19	2.5	20	78	18	59	51	2	6	40	1.38
46924871--46924927	21	2.8	21	84	5	73	17	21	15	45	1.85
46926464--46926503	20	2.0	20	85	9	55	25	5	0	70	1.08
46926997--46927068	32	2.2	32	97	0	135	38	11	12	37	1.79
46927479--46927533	27	2.0	29	82	10	71	50	38	3	7	1.48
46927774--46927816	11	3.8	11	78	6	50	0	13	9	76	1.01
46928645--46928704	3	19.7	3	93	3	102	33	1	0	65	1.03
46929007--46929040	15	2.4	14	90	5	50	38	5	2	52	1.41
46930044--46930081	2	19.0	2	100	0	76	50	0	0	50	1.00
46930668--46930710	13	3.5	13	78	18	56	37	0	13	48	1.43
46930666--46930710	23	2.0	23	95	0	81	37	0	13	48	1.42
46936126--46936173	25	1.9	24	83	8	60	62	2	6	29	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46947848--46947914	33	2.0	33	94	0	116	19	31	10	38	1.85
46951226--46951294	24	2.9	24	85	8	88	52	7	4	36	1.49
46953153--46953452	46	6.6	46	92	1	498	28	23	16	32	1.96
46959391--46959434	16	2.8	15	80	10	52	61	2	0	36	1.09
46960079--46960113	18	1.9	18	88	0	52	48	0	0	51	1.00
46962298--46962710	208	2.0	208	94	0	718	33	22	15	28	1.95
46968014--46968038	12	2.1	12	100	0	50	44	16	8	32	1.76
46968295--46968333	13	3.0	13	84	0	60	58	12	12	15	1.62
46969308--46969340	17	1.9	17	88	11	50	84	6	3	6	0.84
46969866--46969904	14	2.9	14	88	3	62	35	20	10	33	1.86
46972675--46973076	134	3.0	135	91	1	655	22	21	28	27	1.99
46974114--46974270	63	2.5	63	80	4	165	45	17	21	15	1.85
46976990--46977084	11	8.9	11	68	23	51	56	1	2	40	1.18
46976969--46977036	29	2.2	31	89	7	104	52	1	4	41	1.30
46977068--46977106	17	2.3	17	86	0	51	66	0	0	33	0.92
46979527--46979582	27	2.1	27	100	0	112	37	21	19	21	1.94
46982354--46982487	42	3.2	42	79	0	142	44	17	21	16	1.87
46989594--46989678	23	3.7	22	75	10	64	42	2	2	52	1.27
46989953--46990034	29	2.8	29	75	14	78	46	6	13	34	1.68
46991212--46991384	61	2.8	62	78	4	154	41	13	4	40	1.66
46999213--46999290	41	1.9	41	91	0	129	35	25	20	17	1.95
47002191--47002280	41	2.2	41	81	0	99	32	23	22	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47007242--47007305	26	2.4	27	79	12	69	51	3	1	43	1.26
47014003--47014065	30	2.1	30	87	0	90	25	4	12	57	1.55
47015359--47015388	12	2.5	12	94	0	51	23	40	30	6	1.80
47023417--47023840	125	3.4	125	84	2	582	28	17	22	30	1.97
47029392--47029445	11	4.8	12	80	19	71	40	0	31	27	1.57
47029392--47029445	23	2.4	22	85	14	67	40	0	31	27	1.57
47032383--47032425	19	2.2	20	84	12	63	39	0	6	53	1.28
47032369--47032425	19	3.1	18	82	7	62	43	0	5	50	1.24
47033000--47033061	30	2.1	30	93	0	106	58	12	3	25	1.50
47034103--47034189	45	1.9	45	85	0	120	41	4	3	50	1.40
47044581--47044615	4	8.8	4	93	0	61	48	22	2	25	1.64
47048566--47048629	8	8.9	7	80	16	53	73	0	3	23	0.97
47048566--47048617	23	2.2	24	80	16	65	71	0	3	25	1.03
47048588--47048629	16	2.6	16	88	11	59	78	0	2	19	0.86
47055983--47056188	78	2.6	77	81	7	245	48	9	6	35	1.62
47064008--47064110	38	2.7	37	88	5	143	33	11	19	34	1.88
47070016--47070069	23	2.3	24	77	6	65	51	0	0	48	1.00
47070012--47070071	14	4.2	14	72	16	52	48	0	0	51	1.00
47070068--47070104	13	2.7	14	80	20	51	48	0	2	48	1.15
47070113--47070159	17	2.7	18	75	18	55	42	4	2	51	1.33
47070561--47070654	37	2.6	36	83	5	100	20	20	15	43	1.88
47073368--47073401	3	11.3	3	100	0	68	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47073991--47074015	4	6.2	4	100	0	50	76	0	0	24	0.80
47074151--47074188	10	4.1	9	84	15	51	76	0	2	21	0.91
47074799--47075211	154	2.7	153	84	6	538	45	9	3	42	1.53
47075108--47075151	20	2.2	20	84	8	54	47	9	2	40	1.48
47081714--47081742	11	2.6	11	100	0	58	27	6	10	55	1.59
47089047--47089129	36	2.3	36	82	2	94	43	20	2	33	1.65
47089332--47089461	43	3.0	43	79	8	156	31	25	18	24	1.97
47091911--47091955	17	2.8	17	87	9	60	40	0	0	60	0.97
47094437--47094487	25	2.0	25	100	0	102	43	19	3	33	1.70
47100345--47100404	21	2.8	21	82	2	75	33	16	11	38	1.85
47100409--47100464	21	2.7	20	75	10	51	37	25	10	26	1.88
47103291--47103340	17	2.9	17	93	0	91	24	26	6	44	1.76
47107817--47107866	17	2.9	17	93	0	91	24	26	6	44	1.76
47108325--47108354	8	3.8	8	90	0	51	53	16	0	30	1.44
47108333--47108371	8	4.9	8	90	0	51	51	7	0	41	1.31
47108325--47108362	16	2.4	16	95	0	67	52	13	0	34	1.40
47108765--47108821	25	2.2	26	81	12	73	61	1	3	33	1.23
47110544--47110587	21	2.1	21	82	0	52	15	38	22	22	1.92
47113131--47113586	226	2.0	226	98	0	885	39	15	8	35	1.79
47134935--47134994	30	2.0	31	86	3	86	20	36	0	43	1.52
47135582--47135619	19	2.0	20	84	5	51	36	5	21	36	1.76
47136596--47136641	24	2.0	24	91	4	76	26	2	13	58	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47136710--47136742	16	2.1	16	100	0	66	12	6	27	54	1.60
47156276--47156337	30	2.1	30	84	6	81	51	11	4	32	1.59
47156276--47156334	29	2.0	30	83	3	75	50	11	5	32	1.61
47166462--47166499	14	2.7	14	92	8	60	36	2	18	42	1.64
47166468--47166532	34	1.9	33	81	9	78	36	6	12	44	1.67
47166610--47166659	20	2.5	20	83	0	73	42	2	2	54	1.23
47169171--47169196	13	2.0	13	100	0	52	23	30	0	46	1.53
47170559--47170586	11	2.5	11	100	0	56	17	17	0	64	1.30
47171052--47171115	26	2.5	26	94	0	119	21	26	21	29	1.99
47171127--47171222	48	2.0	48	89	4	149	29	11	22	36	1.89
47172178--47172301	54	2.3	54	83	8	162	26	23	28	21	1.99
47175467--47175590	36	3.5	35	76	9	133	44	25	11	18	1.83
47182396--47182464	28	2.5	28	85	0	84	31	11	28	27	1.92
47183272--47183381	25	4.7	22	78	15	123	29	10	14	45	1.79
47183270--47183481	47	4.5	46	83	5	230	29	13	15	41	1.84
47183278--47183481	22	8.7	22	70	20	112	28	13	15	41	1.86
47186185--47186262	39	2.0	39	97	0	147	34	7	11	46	1.69
47186233--47186306	22	3.2	22	77	17	87	31	12	12	44	1.78
47186246--47186378	25	5.6	24	68	19	91	27	14	15	43	1.84
47186233--47186398	48	3.5	46	78	8	156	30	13	13	42	1.83
47192785--47192858	28	2.6	28	83	6	87	33	12	27	27	1.92
47193699--47193879	24	7.6	25	73	14	143	25	13	15	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47193690--47193809	23	5.1	23	79	11	136	25	12	14	47	1.79
47193690--47193899	47	4.5	47	84	4	244	27	12	15	44	1.83
47202564--47202609	23	2.0	23	100	0	92	43	4	21	30	1.72
47203259--47203297	12	3.3	12	82	7	53	35	0	0	64	0.94
47203420--47203480	30	2.0	30	93	0	104	55	14	3	26	1.55
47204484--47204533	2	25.0	2	100	0	100	50	0	0	50	1.00
47209353--47209386	17	2.0	17	88	0	50	29	0	0	70	0.87
47214504--47214553	21	2.4	21	89	0	73	22	36	22	20	1.96
47229247--47229271	10	2.5	10	100	0	50	40	8	0	52	1.31
47230259--47230306	5	9.2	5	88	6	69	79	2	2	16	0.93

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