genome.fa.s5.2.7.7.80.10.50.1000.114.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  114  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)
34450883--34451053	27	6.4	27	75	4	121	22	20	21	35	1.96
34455155--34455195	20	2.0	20	85	0	55	53	9	7	29	1.60
34456384--34456458	30	2.5	30	78	8	89	25	21	14	38	1.91
34456437--34456518	29	2.8	30	84	3	112	20	24	13	41	1.88
34456503--34456604	31	3.4	29	80	9	91	26	17	12	43	1.85
34456503--34456610	30	3.6	28	78	14	101	26	17	12	42	1.86
34456562--34456621	30	2.0	31	90	3	95	30	21	10	38	1.86
34456675--34456748	30	2.5	30	81	0	94	22	28	9	39	1.85
34464446--34464651	30	6.6	30	73	11	139	21	27	13	36	1.91
34464503--34464677	89	2.0	89	81	5	210	25	28	12	34	1.91
34464604--34464714	30	3.7	29	74	8	98	22	27	12	36	1.91
34464965--34464991	6	4.5	6	100	0	54	33	14	0	51	1.43
34466732--34466782	26	2.0	26	88	0	75	15	7	9	66	1.43
34466740--34466796	26	2.2	26	87	6	80	15	3	8	71	1.24
34475110--34475167	29	2.0	29	100	0	116	31	13	6	48	1.69
34482436--34482492	29	2.0	28	86	3	78	22	21	26	29	1.99
34484822--34484855	3	11.0	3	93	6	59	67	0	32	0	0.91
34485783--34485814	10	3.2	10	95	0	55	43	0	50	6	1.27
34500367--34500399	12	2.8	12	100	0	66	39	42	0	18	1.50
34502713--34502770	25	2.3	25	96	0	107	34	13	22	29	1.93
34522002--34522100	38	2.6	38	82	9	130	48	9	4	38	1.54
34541607--34541638	14	2.3	14	100	0	64	53	6	15	25	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34545388--34545421	6	5.7	6	89	0	50	58	0	23	17	1.38
34569126--34569189	30	2.1	30	94	0	110	28	28	28	15	1.96
34569565--34569665	49	2.1	49	92	0	166	40	6	25	26	1.81
34579894--34580184	50	5.8	50	84	1	334	21	29	21	26	1.99
34588042--34588135	45	2.1	45	91	0	152	30	23	19	26	1.98
34588192--34588319	50	2.5	50	82	13	156	32	27	16	23	1.96
34588132--34588319	51	3.7	53	77	11	171	32	26	16	24	1.96
34591478--34591521	20	2.2	20	87	0	61	50	6	2	40	1.42
34591282--34591729	148	3.0	148	84	5	553	42	9	5	42	1.61
34592574--34592838	42	6.3	42	88	0	379	35	24	19	21	1.96
34593240--34593279	21	1.9	21	85	10	55	5	7	5	82	0.94
34600336--34600364	12	2.3	13	94	5	51	65	6	6	20	1.40
34613691--34613735	23	2.0	22	87	8	65	42	11	2	44	1.52
34613776--34613824	22	2.3	22	82	10	57	46	10	4	38	1.57
34613939--34613979	20	2.0	20	90	0	64	46	9	2	41	1.50
34613718--34614184	146	3.1	144	79	9	456	42	10	4	42	1.58
34614987--34615074	42	2.1	42	95	0	158	38	26	15	19	1.92
34625270--34625299	6	5.0	6	100	0	60	16	16	0	66	1.25
34629239--34629275	15	2.2	18	86	13	53	56	10	0	32	1.34
34629913--34629953	18	2.2	20	86	8	59	48	4	0	46	1.23
34632073--34632123	25	2.0	25	100	0	102	43	11	23	21	1.85
34651215--34651585	28	13.1	28	67	11	173	25	24	17	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34651204--34651737	57	9.4	57	83	1	615	26	23	16	34	1.96
34651204--34651737	171	3.1	170	86	1	685	26	23	16	34	1.96
34653507--34653567	20	3.3	18	76	13	61	42	1	4	50	1.33
34653746--34653818	5	14.6	5	100	0	146	60	0	0	39	0.97
34653817--34653878	33	2.0	30	81	15	72	37	0	12	50	1.41
34653917--34653971	28	2.0	28	88	0	83	41	0	7	50	1.30
34657041--34657104	27	2.3	29	78	10	89	39	0	0	60	0.97
34657200--34657252	21	2.5	21	90	0	79	11	49	32	7	1.67
34662161--34662236	29	2.6	29	83	10	93	42	26	15	15	1.87
34662469--34662591	54	2.3	54	94	0	210	30	27	15	26	1.96
34669695--34669730	17	2.2	16	90	5	54	77	0	19	2	0.88
34670831--34670886	22	2.5	22	85	5	78	25	26	14	33	1.94
34672368--34672433	25	2.6	25	80	0	78	21	24	21	33	1.97
34673797--34673847	21	2.4	22	87	9	79	43	1	1	52	1.23
34676777--34677041	28	9.5	28	78	2	176	33	24	16	25	1.96
34676777--34677041	56	4.7	56	79	2	264	33	24	16	25	1.96
34676835--34677041	84	2.5	84	84	0	261	33	24	17	24	1.96
34677172--34677314	53	2.7	53	84	2	180	29	27	11	31	1.92
34686540--34686589	21	2.3	21	86	10	66	44	0	0	56	0.99
34686893--34687165	136	2.0	136	96	0	501	28	17	12	42	1.85
34689775--34689830	21	2.7	21	88	0	85	25	8	35	30	1.86
34690237--34690625	29	13.1	29	86	7	532	38	10	0	50	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34690237--34690625	30	13.1	30	87	5	551	38	10	0	50	1.41
34690247--34690625	148	2.5	147	88	5	566	38	10	0	50	1.40
34690789--34690840	6	8.2	6	95	4	77	15	46	0	38	1.46
34698090--34698169	30	2.7	30	100	0	160	47	26	2	23	1.64
34698874--34699030	43	3.7	42	76	12	135	30	24	17	26	1.97
34700521--34700755	29	8.1	29	74	7	136	23	23	14	38	1.91
34700521--34700761	58	4.2	58	77	7	211	23	23	14	38	1.92
34700536--34700725	87	2.2	86	85	4	265	22	23	13	41	1.89
34700536--34700761	87	2.6	85	81	6	258	23	23	14	38	1.91
34704236--34704278	21	2.0	21	95	0	77	30	25	18	25	1.98
34709701--34709963	133	2.0	133	99	0	517	33	21	12	33	1.90
34716418--34716470	21	2.5	21	82	14	72	37	5	33	22	1.78
34721094--34721225	57	2.3	56	82	6	142	47	6	18	27	1.73
34728299--34728329	14	2.2	14	100	0	62	6	12	0	80	0.89
34751254--34751284	16	1.9	16	93	0	53	32	25	12	29	1.93
34755091--34755184	32	2.9	32	87	0	134	42	13	0	43	1.44
34755916--34755950	3	11.7	3	100	0	70	65	0	0	34	0.93
34768250--34768446	98	2.0	98	93	0	340	36	23	10	28	1.89
34770374--34771280	132	6.9	132	95	0	1564	25	24	20	29	1.99
34774356--34774385	14	2.1	14	93	0	51	20	23	13	43	1.86
34776254--34776278	12	2.1	12	100	0	50	8	40	16	36	1.77
34782699--34782895	98	2.0	98	92	0	331	37	23	9	29	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34791015--34791052	20	1.9	20	88	0	58	55	0	26	18	1.43
34796854--34796897	22	2.0	22	100	0	88	9	13	9	68	1.40
34804827--34804901	2	41.0	2	82	17	101	45	0	54	0	0.99
34804828--34804932	21	5.0	21	81	18	107	40	0	60	0	0.97
34804864--34804946	3	26.0	3	83	13	80	34	0	65	0	0.93
34804828--34804932	26	3.9	30	84	15	108	40	0	60	0	0.97
34804858--34804948	18	5.3	18	78	21	90	36	0	63	0	0.94
34805166--34805200	18	1.9	18	94	0	61	37	0	62	0	0.95
34805403--34805460	6	9.8	6	83	3	55	77	1	3	17	0.99
34805364--34805444	24	3.3	23	73	23	67	70	4	4	19	1.25
34805364--34805463	50	2.0	50	81	11	116	72	4	5	19	1.20
34806401--34806436	10	3.7	10	92	7	65	36	0	0	63	0.94
34806395--34806435	10	4.3	9	85	11	55	34	0	2	63	1.08
34806395--34806435	19	2.2	19	95	0	73	34	0	2	63	1.08
34807133--34807160	14	2.0	14	100	0	56	14	0	14	71	1.15
34807392--34807438	18	2.7	18	81	12	62	46	0	2	51	1.13
34807558--34807612	25	2.3	25	75	6	60	52	1	1	43	1.22
34810355--34810393	11	3.5	11	82	0	51	66	5	2	25	1.25
34810307--34810376	14	4.6	14	70	29	54	65	5	1	27	1.23
34810308--34810393	36	2.4	35	77	7	86	63	5	2	27	1.29
34813581--34813621	3	13.7	3	100	0	82	68	0	0	31	0.90
34821749--34821773	1	25.0	1	100	0	50	100	0	0	0	0.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34824139--34824171	17	1.9	17	100	0	66	48	0	9	42	1.35
34824267--34824294	13	2.2	13	100	0	56	14	28	21	35	1.92
34825567--34825629	27	2.3	27	81	10	74	26	31	9	31	1.88
34828388--34828425	16	2.2	18	86	9	53	39	0	10	50	1.37
34829304--34829365	24	2.6	24	77	7	81	54	0	1	43	1.09
34832056--34832149	42	2.2	42	100	0	188	45	25	0	28	1.54
34834416--34834607	50	3.9	50	77	4	174	29	22	26	21	1.99
34834811--34834862	16	3.3	15	78	10	50	59	1	19	19	1.47
34850316--34850490	39	4.5	39	87	5	230	34	17	30	16	1.93
34850318--34850448	19	6.8	18	67	18	61	35	16	30	17	1.93

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