genome.fa.s11.2.7.7.80.10.50.1000.115.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   
          209   210   

This is table  115  of  210  ( 25152 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)
33972524--33972567	21	2.1	21	100	0	88	29	31	13	25	1.94
33972756--33973055	43	7.3	43	72	15	170	40	23	13	22	1.90
33972777--33972989	116	1.8	116	84	0	291	38	24	15	22	1.92
33972888--33973096	86	2.4	86	82	1	240	40	19	13	26	1.89
33972914--33973096	43	4.3	43	85	2	206	40	20	13	25	1.89
33972914--33973126	86	2.5	86	82	3	223	38	20	14	26	1.91
33972914--33973126	43	5.0	43	82	5	182	38	20	14	26	1.91
33975631--33975893	43	6.1	43	80	3	217	39	20	13	26	1.89
33975631--33975815	86	2.2	86	85	0	244	40	22	12	24	1.89
33975655--33975893	129	1.9	129	82	3	302	38	20	13	26	1.90
33988317--33988489	95	1.8	92	85	3	238	31	20	13	34	1.92
33994885--33994933	24	2.2	24	85	10	68	14	20	40	24	1.89
34019015--34019088	15	4.9	16	70	12	66	32	13	13	40	1.84
34019741--34019776	7	5.1	7	86	0	54	58	27	2	11	1.46
34032953--34033296	51	6.8	50	79	6	295	28	26	16	28	1.97
34032955--34033296	102	3.4	102	83	4	410	28	26	16	28	1.97
34032953--34033295	153	2.3	149	78	6	370	28	26	16	28	1.96
34033390--34033422	17	2.1	17	88	11	52	63	6	0	30	1.18
34040213--34040262	25	2.0	25	100	0	100	44	28	0	28	1.55
34040589--34040861	51	5.4	50	77	7	232	29	24	15	30	1.96
34040586--34040861	102	2.7	101	76	6	283	29	25	15	30	1.96
34041012--34041045	15	2.1	17	89	10	54	61	5	0	32	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34042133--34042192	22	2.7	22	97	0	111	56	1	0	41	1.09
34042143--34042187	12	3.9	12	80	11	58	55	0	0	44	0.99
34044849--34044874	12	2.2	12	100	0	52	38	0	0	61	0.96
34046576--34046737	51	3.2	51	91	1	263	33	14	21	30	1.93
34048741--34048774	16	2.2	15	89	5	50	55	0	0	44	0.99
34052563--34052689	50	2.5	52	75	7	118	34	15	15	33	1.90
34056915--34056953	18	2.1	18	90	9	60	53	5	2	38	1.37
34058603--34058669	33	2.0	33	85	0	89	43	13	23	19	1.86
34058538--34058728	99	1.9	97	80	7	215	43	15	21	19	1.87
34060903--34060937	16	2.1	17	89	5	54	11	51	0	37	1.38
34066307--34066341	17	2.1	17	100	0	70	40	0	5	54	1.24
34067772--34067807	16	2.2	17	90	5	56	36	0	52	11	1.37
34069730--34069816	45	1.9	45	90	0	138	34	22	14	27	1.94
34069827--34070009	51	3.6	50	79	6	208	31	26	16	24	1.97
34069825--34070011	101	1.8	101	90	3	304	31	27	16	24	1.96
34077010--34077378	50	7.3	50	88	1	468	22	31	19	26	1.98
34077002--34077386	150	2.5	150	89	2	545	22	31	19	26	1.98
34080407--34080441	16	2.1	17	89	5	54	11	51	0	37	1.38
34082690--34082952	131	2.0	131	90	1	420	41	5	28	24	1.76
34106408--34106484	27	2.9	27	98	0	145	31	18	9	41	1.81
34110603--34110859	43	6.0	43	83	1	309	26	15	15	42	1.87
34110603--34110860	21	12.0	21	68	10	110	26	15	15	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34110603--34110859	86	3.0	86	87	1	354	26	15	15	42	1.87
34110603--34110859	129	2.0	129	85	1	345	26	15	15	42	1.87
34111534--34111907	186	2.0	186	99	0	739	30	19	16	34	1.93
34113354--34113392	20	2.0	20	89	0	60	28	10	15	46	1.78
34113340--34113405	34	1.9	35	90	3	107	31	9	15	43	1.77
34118146--34118196	3	17.0	3	100	0	102	66	0	0	33	0.92
34124709--34124779	2	35.5	2	97	0	106	45	49	5	0	1.26
34128655--34128681	1	27.0	1	100	0	54	0	0	0	100	0.00
34129890--34129938	20	2.4	20	82	3	62	34	14	14	36	1.86
34132157--34132198	17	2.5	16	88	7	57	42	4	0	52	1.22
34135555--34135626	35	2.1	35	97	0	135	52	2	19	25	1.59
34137398--34137525	54	2.4	54	80	5	141	28	21	31	17	1.97
34139062--34139184	27	4.5	28	84	3	144	11	26	22	39	1.88
34141518--34141629	28	4.0	28	74	2	100	13	25	23	38	1.91
34141638--34141672	17	2.1	17	94	0	61	14	22	11	51	1.74
34146412--34146462	27	2.0	26	88	7	77	64	9	7	17	1.46
34148228--34148397	66	2.6	66	73	14	165	33	11	2	51	1.53
34150589--34150697	56	1.9	56	96	0	200	22	24	7	45	1.77
34163512--34163578	34	1.9	35	87	3	100	29	8	16	44	1.78
34164157--34164290	39	3.5	39	69	15	125	38	5	10	44	1.63
34164102--34164298	76	2.6	76	94	0	331	38	6	9	45	1.63
34167401--34167448	21	2.3	21	89	3	71	62	6	0	31	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34167401--34167457	20	2.8	20	82	7	71	61	5	0	33	1.18
34167481--34167528	19	2.6	18	78	15	53	54	6	2	37	1.38
34167474--34167516	18	2.2	20	88	12	63	60	6	0	32	1.23
34170823--34170902	36	2.2	36	81	0	97	32	16	25	26	1.96
34170863--34171084	104	2.1	104	88	0	336	31	14	22	31	1.94
34186205--34186229	12	2.1	12	100	0	50	76	8	0	16	1.02
34188979--34189096	50	2.3	52	82	5	143	33	16	12	37	1.86
34189185--34189236	27	1.9	27	88	0	77	30	5	9	53	1.57
34191370--34191409	13	3.2	13	86	6	57	27	5	15	52	1.63
34200900--34200965	27	2.4	27	87	0	87	25	28	10	34	1.89
34215332--34215376	22	2.2	20	88	8	63	48	8	20	22	1.76
34215658--34215694	19	2.0	18	94	5	65	32	0	0	67	0.91
34220179--34220205	14	1.9	14	100	0	54	22	7	22	48	1.75
34223493--34223527	17	1.9	19	88	11	56	31	0	37	31	1.58
34232084--34232273	95	2.0	93	83	4	238	30	19	14	35	1.92
34237442--34237812	190	2.0	190	89	1	564	29	15	16	37	1.91
34239042--34239069	6	4.7	6	100	0	56	85	14	0	0	0.59
34246625--34246677	13	4.0	13	80	2	52	5	18	1	73	1.12
34250508--34250698	104	1.8	103	89	1	301	39	21	8	29	1.84
34267838--34267868	15	2.1	15	93	0	53	22	6	12	58	1.58
34271626--34271710	9	9.4	9	78	5	91	43	20	10	25	1.83
34276165--34276210	10	4.5	10	91	2	74	30	0	21	47	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34280440--34280485	6	7.7	6	97	0	74	84	4	0	10	0.75
34292328--34292435	40	2.7	41	75	7	105	19	28	16	35	1.94
34298770--34298872	41	2.4	43	79	9	122	31	16	21	31	1.95
34299124--34299169	24	1.9	24	82	8	58	28	10	10	50	1.71
34306502--34306638	61	2.2	61	80	0	148	26	24	18	31	1.97
34306556--34306725	93	1.8	93	84	2	234	28	24	15	30	1.96
34307643--34307686	22	2.0	22	90	0	70	31	29	9	29	1.88
34313006--34313046	2	20.5	2	100	0	82	48	0	0	51	1.00
34319199--34319240	22	1.9	22	90	9	68	45	0	11	42	1.41
34321458--34321504	17	2.7	17	78	15	51	42	0	0	57	0.98
34321546--34321577	15	2.1	15	100	0	64	25	12	0	62	1.30
34321631--34321660	11	2.7	11	100	0	60	36	0	0	63	0.95
34325863--34325945	36	2.3	37	79	6	98	27	9	27	34	1.88
34334353--34334383	15	2.1	15	93	0	53	25	0	9	64	1.24
34336952--34337076	54	2.3	54	80	2	144	24	22	28	24	2.00
34338515--34338549	3	11.7	3	93	0	61	31	31	0	37	1.58
34345382--34345431	26	1.9	26	83	0	64	18	6	28	48	1.71
34347562--34347599	13	2.9	13	96	0	67	39	44	0	15	1.47
34347580--34347696	39	3.0	39	97	1	218	50	29	2	17	1.60
34347830--34347893	17	3.6	17	70	12	56	34	3	12	50	1.56
34347901--34347949	9	5.4	9	92	0	71	26	10	22	40	1.86
34347896--34347949	27	2.0	28	88	3	83	25	11	22	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34357205--34357278	9	8.2	9	78	0	67	62	0	9	28	1.26
34357213--34357272	18	3.3	18	83	0	75	63	0	8	28	1.23
34357205--34357278	6	12.3	6	86	0	67	62	0	9	28	1.26
34359675--34359746	3	24.0	3	97	0	135	66	1	0	31	1.00
34362694--34362725	2	16.0	2	100	0	64	50	0	50	0	1.00
34369275--34369309	13	2.7	13	100	0	70	40	0	0	60	0.97
34375956--34376129	42	4.2	42	84	0	224	29	21	18	29	1.97
34375983--34376148	84	2.0	84	84	4	219	29	22	19	28	1.98
34376864--34376892	10	2.9	10	100	0	58	51	10	6	31	1.62
34377063--34377151	4	22.2	4	100	0	178	50	24	0	24	1.49

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   
          209   210