genome.fa.s13.2.7.7.80.10.50.1000.157.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  157  of  199  ( 23770 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)
46948949--46949105	28	6.1	27	72	18	115	42	2	2	52	1.28
46948954--46949108	74	2.1	74	82	11	189	41	2	2	52	1.28
46949181--46949233	28	2.0	28	88	7	83	45	3	3	47	1.39
46949207--46949259	20	2.7	20	90	0	79	41	3	0	54	1.18
46949242--46949289	12	3.9	12	94	2	78	39	0	0	60	0.97
46949222--46949289	20	3.0	25	83	12	85	41	0	0	58	0.98
46949323--46949591	25	10.5	25	79	6	189	46	17	0	36	1.52
46949301--46949491	41	4.4	41	76	11	193	45	16	1	36	1.55
46949305--46949632	66	4.8	66	77	10	347	45	16	1	36	1.55
46949637--46949697	25	2.4	25	83	0	68	44	18	1	36	1.59
46949363--46949721	41	8.7	41	79	10	247	45	16	1	35	1.58
46955166--46955244	39	2.0	39	87	4	115	45	10	30	13	1.77
46955620--46955863	43	5.9	42	75	15	215	25	19	27	27	1.99
46955763--46955927	44	3.8	43	78	7	147	23	20	24	32	1.98
46955675--46955823	76	2.0	75	82	5	183	21	18	28	30	1.97
46955763--46955905	42	3.3	40	77	14	126	20	21	25	32	1.98
46958278--46958390	56	2.0	56	100	0	226	46	7	24	22	1.77
46959612--46959649	19	2.0	20	84	5	51	50	5	2	42	1.39
46963847--46963882	3	12.3	3	88	5	56	66	0	33	0	0.92
46963881--46963925	3	15.0	3	100	0	90	33	0	66	0	0.92
46964443--46964485	3	14.3	3	100	0	86	67	0	32	0	0.91
46964560--46964589	3	10.0	3	100	0	60	0	33	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46964680--46964722	20	2.2	20	95	0	77	30	27	18	23	1.98
46966103--46966302	46	4.4	46	92	1	325	28	23	15	33	1.95
46986190--46986251	3	20.7	3	100	0	124	66	0	0	33	0.92
46987312--46987346	16	2.2	16	94	0	61	45	14	20	20	1.85
46990934--46991119	46	4.1	46	77	3	142	27	15	12	45	1.81
46992704--46992751	24	2.0	24	100	0	96	41	8	12	37	1.73
46997805--46997872	34	2.0	34	88	0	100	23	25	10	41	1.86
46999052--46999084	17	1.9	17	100	0	66	42	9	0	48	1.35
46999517--46999573	21	2.7	21	78	7	71	35	22	3	38	1.72
47000088--47000146	16	3.7	15	72	22	50	57	5	1	35	1.31
47000118--47000171	25	2.2	24	83	3	63	64	5	0	29	1.16
47004443--47004609	91	1.8	91	86	0	244	38	8	34	17	1.82
47006637--47006672	17	2.2	16	90	5	54	66	2	0	30	1.06
47011099--47011275	86	2.0	87	97	1	338	31	8	11	48	1.70
47014419--47014472	30	1.9	26	82	14	63	42	0	11	46	1.39
47016202--47016281	2	41.0	2	73	9	58	50	0	6	43	1.27
47016618--47016646	14	2.0	15	93	6	51	65	6	0	27	1.18
47017974--47018006	13	2.4	14	90	5	50	27	6	0	66	1.15
47018364--47018409	16	2.8	17	80	9	60	47	0	2	50	1.13
47020315--47020398	40	2.1	40	97	0	159	10	20	9	59	1.58
47030275--47030347	38	1.9	38	86	5	103	28	9	20	41	1.84
47030275--47030341	19	3.5	19	78	8	73	26	10	19	43	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47031233--47031425	97	2.0	95	82	8	230	44	12	6	37	1.67
47031387--47031439	25	2.1	25	89	6	81	58	5	0	35	1.22
47032047--47032086	20	2.0	20	100	0	80	20	15	20	45	1.86
47032607--47032680	39	1.9	39	86	2	105	6	27	8	58	1.52
47035754--47035784	16	1.9	16	100	0	62	38	32	0	29	1.57
47036226--47036257	16	1.9	17	93	6	57	53	0	0	46	1.00
47036640--47036695	28	2.0	29	86	10	80	33	10	3	51	1.54
47036697--47036745	25	2.0	25	83	0	62	48	2	2	46	1.25
47042520--47042642	63	1.9	64	91	4	205	18	19	19	42	1.90
47047153--47047681	115	4.6	113	81	5	508	33	21	16	28	1.95
47048125--47048271	7	21.1	7	69	12	88	42	38	2	17	1.63
47048338--47048380	7	6.1	7	77	0	50	41	37	0	20	1.53
47048341--47048385	14	3.2	14	83	0	54	46	28	0	24	1.53
47048706--47048847	73	2.0	72	83	4	178	35	19	20	24	1.95
47048754--47049072	113	2.8	113	91	1	516	31	26	20	21	1.98
47048993--47049145	72	2.1	73	93	2	265	32	22	20	23	1.98
47049142--47049256	39	2.8	40	73	3	106	17	19	21	41	1.90
47051544--47051573	2	15.5	2	93	6	53	50	0	0	50	1.00
47054288--47054328	20	2.0	20	86	9	57	63	0	2	34	1.08
47056652--47057051	18	22.1	18	71	15	222	46	10	12	31	1.75
47056636--47057051	17	22.8	18	71	18	165	46	10	12	31	1.74
47056783--47056819	16	2.2	17	95	4	67	54	5	5	35	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47056819--47056871	25	2.0	25	85	7	70	52	13	13	20	1.73
47056691--47057015	167	2.0	166	90	4	512	46	9	12	31	1.73
47056660--47057051	167	2.4	162	84	10	486	46	10	12	30	1.75
47057064--47057134	17	4.2	16	72	13	63	35	11	14	39	1.81
47057071--47057136	34	1.9	35	90	3	107	33	12	15	39	1.84
47057191--47057239	17	2.9	16	82	11	62	44	12	16	26	1.82
47058067--47058146	7	11.0	7	72	17	56	0	25	0	75	0.81
47058067--47058136	11	5.6	12	75	20	54	0	24	0	75	0.80
47058087--47058160	3	23.0	3	79	15	69	0	32	0	67	0.91
47058069--47058146	21	3.6	21	75	6	75	0	25	0	74	0.82
47058074--47058159	32	2.7	32	87	5	111	0	27	0	72	0.85
47058087--47058160	10	7.6	10	78	17	59	0	32	0	67	0.91
47058089--47058157	7	10.0	7	77	12	54	0	33	0	66	0.92
47058476--47058613	30	4.6	30	80	5	127	39	5	25	30	1.77
47058496--47058614	59	2.0	60	86	1	168	39	4	26	30	1.75
47058496--47058614	30	4.0	30	84	2	159	39	4	26	30	1.75
47058806--47059264	80	5.9	74	83	12	555	37	19	15	27	1.92
47058806--47059249	78	5.7	78	83	7	530	37	19	15	27	1.92
47058806--47059258	77	5.8	80	85	9	580	37	19	15	27	1.92
47060123--47060213	1	91.0	1	73	0	65	0	7	6	85	0.73
47060117--47060214	23	4.1	23	75	20	76	1	9	7	82	0.88
47060124--47060173	22	2.3	22	93	6	84	0	10	4	86	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47060131--47060213	18	4.5	17	75	19	76	0	7	7	85	0.74
47065676--47065716	21	1.9	22	85	5	57	65	14	4	14	1.42
47066314--47066442	18	7.3	18	72	11	106	43	10	13	32	1.78
47066298--47066442	18	8.0	18	74	14	95	44	10	13	32	1.77
47066298--47066383	36	2.3	38	83	13	108	45	10	11	32	1.75
47066413--47066450	17	2.2	18	90	4	60	55	15	10	18	1.68
47066445--47066485	19	2.2	19	95	4	75	43	4	4	46	1.46
47066487--47066539	25	2.0	25	85	7	70	52	13	13	20	1.73
47066543--47066592	10	5.3	10	77	20	54	0	32	0	68	0.90
47066543--47066592	13	4.0	13	82	14	61	0	32	0	68	0.90
47066887--47067031	59	2.4	60	87	1	193	39	5	24	30	1.78
47066887--47067032	30	4.9	30	84	1	177	39	5	24	30	1.78
47067110--47067161	22	2.4	22	86	0	77	34	30	7	26	1.85
47069907--47070063	43	3.7	43	74	12	144	25	19	25	29	1.99
47073404--47073437	13	2.8	12	87	12	52	47	0	0	52	1.00
47074166--47074253	5	17.4	5	82	15	92	43	0	0	56	0.99
47075741--47075775	2	17.5	2	100	0	70	51	0	0	48	1.00
47076997--47077047	20	2.6	19	81	6	57	37	0	21	41	1.54
47077095--47077275	34	5.3	34	74	5	175	21	25	24	28	1.99
47077088--47077310	69	3.2	69	82	5	274	21	24	24	29	1.99
47079108--47079141	17	1.9	18	88	5	52	35	26	0	38	1.57
47081408--47081460	21	2.4	21	78	12	54	26	0	28	45	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47086932--47086973	20	2.1	20	86	8	59	73	2	0	23	0.94
47089570--47089648	29	2.8	27	80	12	79	34	1	10	54	1.42
47089576--47089634	31	2.0	29	86	6	82	33	1	10	54	1.44
47091039--47091087	20	2.4	20	80	13	55	32	2	6	59	1.34
47097102--47097184	43	1.9	43	85	4	114	56	12	15	15	1.67
47097455--47097519	32	2.0	32	100	0	130	18	21	18	41	1.90
47102809--47102976	79	2.1	79	85	1	221	22	19	21	36	1.95
47102961--47102992	16	2.0	16	100	0	64	12	37	12	37	1.81
47102886--47103060	94	1.9	94	86	1	251	18	21	22	36	1.95
47103256--47103404	76	2.0	76	91	2	246	43	24	12	19	1.86

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