genome.fa.s5.2.7.7.80.10.50.1000.188.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  188  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)
57494132--57494414	89	3.1	89	91	2	449	26	24	18	30	1.98
57494003--57494414	45	9.2	45	75	8	329	26	25	17	30	1.97
57496397--57496636	44	5.4	44	73	2	219	34	17	21	26	1.96
57496376--57496636	89	2.9	89	87	0	378	33	18	21	26	1.96
57500069--57500108	20	2.0	20	90	0	62	35	20	10	35	1.86
57500930--57501001	36	2.0	36	97	0	135	22	15	25	37	1.93
57502146--57502184	14	2.7	14	84	4	51	53	7	5	33	1.51
57502352--57502397	16	2.8	17	83	6	51	69	0	4	26	1.07
57502529--57502556	2	14.0	2	100	0	56	50	0	0	50	1.00
57507989--57508100	41	2.7	42	76	6	129	21	17	26	33	1.96
57508120--57508156	18	2.1	18	100	0	74	16	5	32	45	1.70
57508077--57508194	62	1.9	62	96	0	218	20	16	30	33	1.94
57511408--57511478	3	23.7	3	100	0	142	32	0	0	67	0.91
57513606--57513637	5	6.6	5	96	3	57	81	0	0	18	0.70
57518068--57518103	6	6.0	6	100	0	72	50	16	16	16	1.79
57518940--57519286	108	3.3	106	91	4	540	29	16	13	40	1.87
57519873--57519915	20	2.2	20	87	8	61	60	4	0	34	1.17
57520379--57520478	52	1.9	52	85	4	139	36	21	19	24	1.95
57520356--57520493	52	2.6	52	75	10	127	35	20	18	25	1.95
57530668--57530710	18	2.4	18	84	7	61	13	16	4	65	1.43
57531639--57531680	7	6.0	7	81	18	52	69	0	16	14	1.20
57531639--57531680	21	2.0	21	86	9	59	69	0	16	14	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57533002--57533997	132	7.6	132	91	2	1521	29	18	24	27	1.98
57534000--57534156	44	3.6	44	89	1	235	30	13	25	30	1.94
57534922--57534954	13	2.4	14	85	10	50	54	9	21	15	1.68
57535681--57535728	18	2.7	17	78	9	51	29	6	2	62	1.31
57538515--57538550	18	2.0	18	88	0	54	11	16	22	50	1.77
57565820--57566053	46	5.6	43	81	13	226	35	14	21	28	1.92
57565858--57565968	37	3.0	37	93	0	186	38	13	19	27	1.90
57573231--57573282	24	2.2	24	89	0	77	50	9	3	36	1.54
57574576--57574695	61	2.0	62	86	5	172	40	6	11	40	1.68
57576914--57577049	63	2.1	64	87	8	193	34	22	24	18	1.96
57592331--57592368	17	2.3	17	86	4	51	34	0	0	65	0.93
57593142--57593203	16	3.9	15	72	17	54	53	1	3	41	1.27
57593180--57593204	8	3.1	8	100	0	50	48	0	0	52	1.00
57599285--57599323	16	2.5	15	84	12	51	2	20	7	69	1.26
57608652--57608701	15	3.2	15	76	20	57	50	14	0	36	1.43
57610001--57610210	105	2.0	105	82	3	253	30	11	11	45	1.76
57614652--57614689	20	1.9	20	94	0	67	44	13	7	34	1.72
57614720--57614855	67	2.0	67	100	0	272	41	8	8	40	1.67
57616131--57616162	16	2.1	15	94	5	55	28	6	12	53	1.62
57616583--57616773	98	1.9	98	95	0	346	36	25	10	27	1.89
57618984--57619432	44	10.2	44	62	13	136	25	24	20	29	1.99
57618744--57619442	132	5.3	132	91	0	1105	25	24	19	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57627745--57627782	19	2.0	20	84	5	51	42	10	2	44	1.52
57630859--57631049	98	1.9	98	95	0	346	36	25	10	27	1.89
57635369--57635424	28	2.0	27	83	10	69	50	3	5	41	1.43
57637608--57637646	19	2.0	20	85	5	53	23	2	5	69	1.21
57651195--57651271	39	2.0	39	100	0	154	37	15	10	36	1.82
57653016--57653060	20	2.2	20	84	0	54	66	2	26	4	1.22
57654377--57654421	21	2.2	20	88	7	65	37	17	13	31	1.89
57654485--57654528	23	2.0	22	82	13	54	31	11	20	36	1.88
57654473--57654631	46	3.3	46	73	15	108	34	13	19	32	1.91
57654494--57654564	23	3.0	23	82	10	90	35	11	18	35	1.86
57654512--57654616	52	2.1	50	82	10	124	38	11	18	32	1.86
57654597--57654651	23	2.5	22	80	11	58	30	16	12	40	1.86
57654775--57654818	13	3.3	13	87	9	54	13	13	36	36	1.85
57659511--57659559	10	4.6	10	78	12	53	71	14	14	0	1.15
57659511--57659559	22	2.3	20	80	13	53	71	14	14	0	1.15
57660391--57660461	24	3.3	20	78	16	56	29	4	2	63	1.27
57660404--57660466	3	21.0	3	83	6	83	31	3	1	63	1.19
57660999--57661297	112	2.7	111	91	1	476	29	16	20	33	1.95
57661964--57662034	34	2.1	34	91	0	115	32	11	14	42	1.81
57661964--57662055	34	2.7	34	81	5	114	35	10	11	41	1.77
57663436--57663517	33	2.4	36	82	12	109	37	1	4	56	1.29
57663921--57663964	20	2.4	19	88	11	65	61	2	2	34	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57664805--57664879	36	2.1	34	83	9	89	58	5	0	36	1.21
57664832--57664885	23	2.3	23	76	17	58	66	3	0	29	1.09
57665068--57665123	22	2.5	23	82	2	69	51	1	1	44	1.22
57665099--57665138	16	2.5	16	91	0	62	47	2	7	42	1.45
57665148--57665327	68	2.9	61	89	8	265	40	5	9	45	1.58
57665211--57665238	9	3.1	9	100	0	56	32	0	10	57	1.33
57665127--57665297	68	2.5	68	97	1	319	39	4	8	47	1.54
57665127--57665363	68	3.8	63	81	17	230	40	5	8	45	1.57
57665394--57665439	24	1.9	24	91	8	76	60	2	0	36	1.09
57666161--57666194	11	2.8	13	91	8	54	44	11	8	35	1.72
57667262--57667413	33	4.5	33	71	23	136	19	20	28	32	1.97
57667261--57667462	103	2.0	103	94	0	359	19	21	27	31	1.97
57670793--57670826	11	2.8	12	91	8	52	35	8	11	44	1.72
57672789--57672935	75	2.0	75	81	5	172	38	11	19	30	1.87
57672991--57673029	19	2.1	19	100	0	78	46	23	5	25	1.73
57672994--57673034	19	2.4	17	88	12	57	46	19	2	31	1.63
57689414--57689681	46	5.6	46	89	5	349	34	14	22	27	1.94
57689414--57689718	98	3.3	92	81	14	342	35	15	21	27	1.93
57689646--57689773	37	3.5	37	95	1	222	37	17	19	25	1.93
57695906--57695939	17	2.0	17	88	11	52	50	0	2	47	1.16
57704793--57704826	2	17.5	2	93	6	61	50	0	0	50	1.00
57705791--57705823	3	11.0	3	100	0	66	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57706177--57706230	27	1.9	29	92	7	94	62	0	7	29	1.22
57708999--57709035	16	2.3	17	86	13	60	40	0	0	59	0.97
57709111--57709156	15	3.0	16	78	9	60	50	0	0	50	1.00
57709964--57709992	14	2.0	15	93	6	51	68	0	0	31	0.89
57718360--57718394	17	2.1	17	88	0	52	8	8	8	74	1.23
57723102--57723151	23	2.1	24	85	3	66	40	20	8	32	1.81
57723108--57723157	23	2.2	23	81	0	55	44	18	10	28	1.81
57726674--57726757	33	2.5	33	77	7	98	29	26	11	32	1.92
57726585--57726824	101	2.4	101	86	0	336	29	23	14	32	1.94
57729883--57730051	39	4.3	39	87	0	239	29	3	20	46	1.67
57731587--57731622	18	2.1	17	89	5	54	72	8	5	13	1.27
57731784--57731870	38	2.3	39	79	2	95	51	6	8	33	1.58
57731911--57731968	25	2.4	25	75	13	66	50	3	10	36	1.54
57731940--57731984	22	2.0	23	82	4	56	57	4	4	33	1.38
57731994--57732038	3	15.0	3	85	0	63	68	0	2	28	1.01
57732951--57732990	17	2.4	17	91	0	62	17	22	50	10	1.76
57734309--57734342	17	2.0	17	100	0	68	64	0	0	35	0.94
57736353--57736382	15	2.0	15	93	0	51	33	6	10	50	1.62
57760873--57761203	53	6.2	52	71	12	199	36	17	19	26	1.94
57760873--57761120	107	2.3	105	80	8	261	37	16	19	27	1.93
57760913--57761203	160	1.8	158	85	4	406	36	18	19	26	1.94
57762909--57762954	19	2.4	19	81	0	65	54	0	2	43	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57763008--57763045	16	2.5	15	87	8	58	65	7	0	26	1.19
57764313--57764460	55	2.7	56	77	5	149	26	21	20	31	1.98
57764410--57764537	55	2.3	55	77	7	143	26	19	21	32	1.97
57776084--57776149	27	2.4	27	87	0	96	25	28	30	15	1.96
57776378--57776456	3	26.3	3	100	0	158	32	0	0	67	0.91
57776455--57776489	3	11.7	3	100	0	70	0	0	31	68	0.90
57776679--57776731	26	2.0	26	96	0	97	43	0	7	49	1.31
57776645--57776761	62	1.9	60	94	3	207	37	0	11	51	1.38
57777322--57777366	18	2.5	18	81	0	63	28	8	48	13	1.72
57780466--57780614	18	8.7	18	72	21	106	0	28	0	71	0.87

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