genome.fa.s5.2.7.7.80.10.50.1000.19.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  19  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)
5517692--5517762	23	3.0	24	70	4	81	42	15	16	25	1.88
5518680--5518803	43	2.9	42	78	9	135	30	29	18	21	1.97
5519950--5519978	14	2.0	15	93	6	51	51	20	0	27	1.47
5521667--5521713	24	1.9	24	86	4	67	36	0	38	25	1.56
5522716--5523045	27	12.2	27	82	1	311	45	21	14	18	1.85
5522780--5523026	134	1.8	134	84	8	342	46	20	14	19	1.84
5523280--5523360	26	3.1	26	82	3	92	18	19	25	35	1.95
5523449--5523542	28	3.4	28	89	7	147	22	24	23	29	1.99
5525624--5525662	17	2.2	17	86	9	51	12	12	43	30	1.81
5525882--5526230	27	12.9	27	80	3	301	43	19	16	20	1.87
5525873--5526230	81	4.4	81	78	2	333	43	19	15	21	1.87
5526464--5526544	26	3.1	26	85	3	101	19	19	24	35	1.95
5526645--5526767	28	4.4	28	87	7	171	23	23	21	30	1.99
5528403--5528478	23	3.3	23	87	5	102	31	26	19	22	1.98
5528708--5528746	18	2.2	17	86	13	53	46	20	0	33	1.51
5536919--5536978	30	2.0	30	93	0	102	50	15	3	31	1.60
5542294--5542397	49	2.1	49	89	3	156	32	7	7	51	1.59
5543782--5543824	21	2.0	21	86	8	61	34	0	6	58	1.25
5543789--5544148	120	3.0	120	98	1	688	42	0	4	52	1.27
5544288--5544380	45	2.1	44	88	9	136	35	29	3	32	1.73
5544362--5544399	16	2.4	16	95	0	67	26	34	2	36	1.71
5546095--5546135	18	2.2	20	82	8	50	65	7	0	26	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5550304--5550350	19	2.4	20	82	13	62	48	0	2	48	1.13
5552128--5552168	18	2.2	18	87	12	57	65	9	2	21	1.34
5555046--5555098	21	2.6	21	75	3	54	64	3	0	32	1.12
5561446--5561528	23	3.6	23	85	3	103	8	14	30	46	1.74
5566688--5566728	20	2.1	20	86	13	59	48	4	0	46	1.23
5569265--5569329	27	2.4	27	81	0	76	49	35	7	7	1.60
5569283--5569338	21	2.7	21	80	0	58	53	30	8	7	1.59
5570981--5571018	18	2.2	18	85	4	51	50	0	5	44	1.24
5582649--5582695	22	2.1	23	84	4	60	31	6	8	53	1.57
5590209--5590258	13	3.7	13	76	10	55	38	0	2	60	1.09
5591355--5591474	60	2.0	60	98	0	231	41	9	3	45	1.52
5593504--5593560	28	2.0	28	90	6	89	36	10	26	26	1.89
5594504--5594573	35	2.0	35	94	0	122	35	17	12	34	1.88
5595717--5595765	23	2.1	23	100	0	98	34	24	16	24	1.95
5595949--5595980	15	2.1	15	100	0	64	50	12	12	25	1.75
5596382--5596516	58	2.3	58	84	2	164	40	15	25	18	1.90
5597847--5597885	16	2.5	16	83	4	53	23	2	10	64	1.37
5604797--5604828	2	16.0	2	93	0	55	50	3	0	46	1.17
5605648--5605683	18	2.0	18	100	0	72	11	0	50	38	1.38
5606091--5606144	26	2.0	26	82	3	63	20	12	22	44	1.85
5608277--5608340	19	3.4	18	76	20	60	65	0	1	32	1.02
5608298--5608340	19	2.2	20	88	12	63	67	0	2	30	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5608298--5608342	21	2.2	20	80	11	56	68	0	2	28	1.01
5608277--5608378	9	10.7	9	69	15	62	65	2	1	29	1.18
5608718--5608744	13	2.1	13	100	0	54	44	18	29	7	1.77
5609132--5609191	16	3.6	16	73	18	59	30	0	5	65	1.14
5609256--5609322	29	2.3	30	87	7	93	34	2	1	61	1.20
5609132--5609386	10	27.0	9	67	16	101	32	1	5	60	1.30
5610512--5610556	18	2.5	18	82	7	56	40	17	4	37	1.70
5611053--5611097	23	1.9	24	86	4	65	26	51	2	20	1.59
5615982--5616050	25	2.7	24	82	10	75	42	2	0	55	1.15
5618727--5618756	15	2.0	15	93	0	51	33	10	6	50	1.62
5623506--5623601	43	2.2	43	90	0	156	32	29	19	18	1.96
5623444--5623601	86	1.8	86	82	5	203	32	28	18	20	1.96
5630210--5630508	94	3.1	93	83	12	340	31	13	24	30	1.94
5632095--5632131	9	4.1	9	86	13	58	10	43	13	32	1.79
5634304--5634344	20	2.0	20	100	0	82	65	4	14	14	1.42
5635059--5635094	16	2.2	16	100	0	72	5	27	44	22	1.75
5637186--5637220	17	2.1	17	100	0	70	31	11	11	45	1.76
5656447--5656485	7	5.6	7	85	8	53	12	0	2	84	0.72
5657128--5657177	20	2.6	19	78	6	57	56	0	0	44	0.99
5657914--5657939	7	3.7	7	100	0	52	11	0	0	88	0.52
5657900--5657962	33	1.9	33	83	0	81	26	1	4	66	1.20
5659496--5659669	91	1.9	91	85	4	244	37	19	8	33	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5659767--5659851	19	4.5	19	75	5	75	64	1	4	29	1.21
5659812--5659851	18	2.2	19	86	4	55	77	0	5	17	0.94
5660110--5660161	18	3.0	16	81	13	59	40	1	0	57	1.10
5660118--5660161	17	2.5	17	89	10	63	40	2	0	56	1.11
5660225--5660398	91	1.9	92	82	5	221	31	8	21	38	1.83
5663359--5663391	17	2.0	17	88	5	50	0	30	6	63	1.18
5663764--5663817	16	3.4	16	77	7	56	51	0	29	18	1.46
5677774--5677842	30	2.3	30	90	5	104	50	17	8	23	1.73
5678995--5679032	19	1.9	19	89	5	58	28	21	0	50	1.49
5679542--5679608	7	8.9	7	75	15	62	37	2	1	58	1.23
5679620--5679694	30	2.5	29	79	10	80	46	4	14	34	1.63
5688455--5688494	19	2.0	20	86	13	57	47	2	0	50	1.14
5688919--5689017	31	3.2	31	86	1	128	36	2	1	60	1.15
5688927--5689013	41	2.1	39	82	14	104	39	2	1	57	1.19
5688928--5689014	11	8.4	11	70	23	64	37	2	1	58	1.18
5688895--5689014	9	12.8	9	70	20	54	35	1	0	61	1.12
5694558--5694640	20	4.2	20	72	18	57	34	1	6	57	1.31
5694554--5694602	21	2.3	21	85	3	62	34	2	4	59	1.28
5694590--5694640	20	2.6	19	90	6	84	33	0	7	58	1.27
5694605--5694682	12	7.3	11	77	20	85	34	0	7	57	1.27
5694664--5694693	9	3.3	9	95	0	51	36	0	6	56	1.26
5694624--5694706	35	2.4	34	84	11	98	37	0	6	56	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5696261--5696286	4	6.5	4	100	0	52	26	23	0	50	1.50
5697079--5697107	2	14.5	2	100	0	58	48	0	0	51	1.00
5698568--5698592	11	2.3	11	100	0	50	0	20	16	64	1.30
5700863--5700905	22	2.0	21	86	4	59	23	4	2	69	1.18
5700886--5700933	25	1.9	25	83	8	62	39	2	2	56	1.23
5701102--5701129	11	2.5	11	100	0	56	60	0	0	39	0.97
5708966--5708998	13	2.5	13	90	0	57	48	0	6	45	1.27
5708966--5709009	13	3.4	13	84	9	54	52	4	6	36	1.49
5720608--5720671	28	2.3	27	81	2	74	43	6	9	40	1.62
5722414--5722469	21	2.6	22	81	13	64	42	7	1	48	1.41
5731946--5731979	17	2.0	17	88	0	50	52	0	2	44	1.16
5731981--5732034	22	2.5	22	77	17	58	46	0	7	46	1.31
5733414--5733473	31	1.9	32	89	3	95	46	6	10	36	1.64
5734259--5734323	31	2.1	31	82	0	76	64	4	3	27	1.28
5739884--5739939	3	18.7	3	92	0	94	66	1	1	30	1.12
5740742--5740775	14	2.2	16	90	10	54	41	2	5	50	1.42
5747015--5747052	19	2.0	20	89	5	60	13	5	7	73	1.22
5747830--5747878	25	2.0	24	88	4	71	44	2	2	51	1.24
5747858--5747927	19	3.7	20	81	7	74	34	0	8	57	1.29
5747891--5747927	20	1.9	20	94	5	67	29	0	10	59	1.31
5753375--5753414	21	1.9	21	85	10	55	60	5	2	32	1.32
5758364--5758415	27	1.9	27	88	7	79	26	34	11	26	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5766021--5766281	89	2.8	91	81	6	280	34	20	11	33	1.88
5766472--5766542	9	7.6	10	75	19	55	63	0	2	33	1.09
5766457--5766541	19	4.8	17	71	22	52	64	0	2	32	1.06
5766472--5766540	36	1.9	36	82	11	88	62	0	2	34	1.10
5774415--5774447	15	2.2	15	94	0	57	42	0	0	57	0.98
5781825--5781881	29	2.0	29	100	0	114	45	17	7	29	1.75
5790807--5790845	3	13.0	3	100	0	78	66	0	0	33	0.92
5792352--5792394	13	3.2	13	83	6	59	44	30	0	25	1.55
5795352--5795424	27	2.7	26	73	10	67	50	1	2	45	1.24
5797338--5797378	16	2.6	16	96	0	73	41	4	34	19	1.73

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