genome.fa.s9.2.7.7.80.10.50.1000.70.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: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

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   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  70  of  226  ( 27023 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)
26363804--26364079	122	2.2	123	87	3	394	23	21	26	28	1.99
26364602--26364777	89	2.0	89	88	0	262	25	1	30	43	1.62
26364791--26364820	15	2.0	15	93	0	51	23	0	33	43	1.54
26365460--26365679	119	1.8	119	95	1	397	41	15	9	32	1.80
26365791--26365836	21	2.2	21	84	7	58	23	50	2	23	1.61
26369143--26369369	85	2.6	85	90	2	357	20	18	31	29	1.96
26369143--26369370	43	5.3	43	89	3	352	20	17	31	30	1.96
26376289--26376365	18	4.1	18	68	21	59	24	1	12	61	1.40
26376464--26376650	58	3.1	59	83	6	198	21	19	14	43	1.87
26384286--26384567	27	10.4	27	80	6	243	21	14	19	45	1.85
26384286--26384567	54	5.2	54	82	2	298	21	14	19	45	1.85
26384282--26384567	81	3.5	80	85	2	367	21	13	19	45	1.85
26389469--26389500	4	7.8	4	96	3	55	21	0	0	78	0.76
26389770--26389831	29	2.1	29	88	5	90	33	11	8	46	1.69
26400824--26400853	2	15.5	2	93	6	53	50	0	0	50	1.00
26400933--26400984	27	1.9	27	84	7	70	63	9	3	23	1.41
26405384--26405468	24	3.4	23	71	16	71	25	9	1	63	1.32
26405438--26405505	30	2.3	28	79	16	75	25	11	4	58	1.51
26406704--26406756	25	2.2	25	83	6	65	47	5	16	30	1.70
26409262--26409286	8	3.1	8	100	0	50	52	0	0	48	1.00
26410942--26410985	3	14.7	3	95	0	79	29	0	2	68	1.02
26411054--26411115	3	20.7	3	96	0	115	32	1	0	66	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26411305--26411409	26	4.2	26	65	22	71	36	13	3	46	1.61
26411326--26411377	27	2.0	27	92	3	88	38	9	3	48	1.54
26435884--26435961	5	15.6	5	80	0	84	25	35	0	38	1.56
26436861--26437260	51	7.9	51	73	6	328	29	26	15	29	1.95
26436967--26437049	26	3.2	26	66	10	71	33	27	9	28	1.88
26436866--26437260	102	3.9	102	86	2	483	29	26	14	29	1.95
26444085--26444136	21	2.5	21	80	0	59	26	5	32	34	1.80
26446113--26446153	16	2.6	16	84	7	57	46	4	0	48	1.23
26452352--26452402	10	5.1	10	75	15	52	56	0	1	41	1.10
26452352--26452402	20	2.5	20	78	9	59	56	0	1	41	1.10
26456545--26456587	21	2.0	23	86	9	63	6	9	11	72	1.29
26461679--26461724	24	2.0	23	87	8	67	23	6	6	63	1.43
26462887--26462930	16	2.7	17	86	10	65	40	2	27	29	1.68
26463627--26463656	10	2.8	11	95	5	53	13	6	0	80	0.91
26464251--26464309	3	19.3	3	79	10	66	35	5	0	59	1.20
26464254--26464309	24	2.3	25	90	3	87	35	5	0	58	1.21
26464414--26464438	2	12.5	2	100	0	50	52	0	0	48	1.00
26464433--26464475	22	2.0	21	86	8	61	32	4	2	60	1.30
26466534--26466578	19	2.3	20	75	20	51	26	22	8	42	1.83
26469110--26469200	47	2.0	46	93	2	155	46	16	25	12	1.81
26470658--26471157	134	3.8	134	85	4	586	30	17	23	29	1.97
26470484--26471133	89	7.4	89	76	9	485	30	17	23	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26470484--26471161	44	15.4	43	70	10	311	30	16	23	28	1.97
26472093--26472122	10	2.8	11	95	5	53	13	6	0	80	0.91
26472717--26472778	3	20.3	3	80	9	72	35	4	0	59	1.19
26473027--26473327	120	2.5	121	97	0	568	49	5	1	42	1.36
26482876--26482928	26	2.0	27	82	10	65	45	32	5	16	1.71
26495459--26495815	87	4.0	90	82	6	309	32	18	20	28	1.96
26495559--26496037	44	10.6	44	76	12	384	32	18	19	29	1.95
26495559--26495992	131	3.2	130	79	9	415	32	17	19	30	1.95
26495919--26496053	44	3.1	44	83	2	128	31	21	20	27	1.98
26497667--26497736	3	23.3	3	88	0	104	31	4	1	62	1.23
26500311--26500373	33	1.9	33	90	0	99	38	20	17	23	1.93
26503275--26503401	44	2.9	42	71	23	102	32	28	14	24	1.95
26504654--26504697	22	2.0	23	86	13	65	36	2	6	54	1.40
26508396--26508435	21	1.9	21	89	0	62	32	17	15	35	1.91
26516035--26516072	2	19.0	2	100	0	76	50	0	0	50	1.00
26519507--26519542	2	18.0	2	100	0	72	50	0	0	50	1.00
26520491--26520519	2	14.5	2	100	0	58	0	48	0	51	1.00
26529682--26529725	21	2.1	21	83	8	54	18	4	0	77	0.94
26529699--26529740	17	2.5	17	84	0	57	16	7	0	76	1.00
26529689--26529752	27	2.3	26	82	10	67	20	6	0	73	1.04
26537471--26537560	42	2.1	42	87	0	126	25	26	33	14	1.94
26539763--26539790	5	5.6	5	100	0	56	82	0	0	17	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26541522--26541880	44	8.0	44	75	8	278	28	19	18	33	1.96
26541538--26541880	88	3.8	87	77	9	307	28	19	18	33	1.96
26553408--26553445	5	7.8	5	94	5	69	81	0	0	18	0.69
26556221--26556248	11	2.5	11	100	0	56	78	0	0	21	0.75
26557226--26557283	21	2.7	23	76	17	70	46	5	0	48	1.24
26565012--26565051	21	1.9	21	84	0	53	40	0	2	57	1.12
26567847--26567876	16	1.9	15	93	6	51	53	16	0	30	1.44
26578573--26578609	4	9.2	4	100	0	74	24	0	24	51	1.49
26580681--26580722	21	2.0	21	90	0	66	35	7	11	45	1.69
26582161--26582231	32	2.2	32	87	0	106	32	2	14	50	1.57
26585140--26585187	19	2.5	19	80	6	53	50	2	0	47	1.12
26595165--26595222	23	2.4	24	88	8	82	51	0	0	48	1.00
26595165--26595301	24	5.3	24	73	20	100	51	0	0	46	1.11
26595244--26595315	24	2.9	25	83	10	94	52	0	1	45	1.09
26598055--26598079	13	1.9	13	100	0	50	56	0	0	44	0.99
26598101--26598148	20	2.5	20	76	10	55	39	10	2	47	1.49
26598910--26598960	20	2.5	22	73	23	56	64	0	7	27	1.21
26600298--26600348	20	2.5	20	81	9	59	35	5	1	56	1.35
26600757--26600794	18	2.1	18	90	0	58	28	0	7	63	1.23
26608857--26608915	5	11.8	5	75	13	59	74	0	1	23	0.91
26615421--26615454	17	2.0	17	88	0	50	14	26	2	55	1.53
26631753--26631821	33	2.1	33	91	5	113	43	37	5	13	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26638798--26638829	15	2.1	15	94	0	55	31	15	0	53	1.43
26638973--26639011	14	2.8	14	84	0	51	35	12	23	28	1.91
26639576--26639611	18	1.9	18	88	5	54	58	2	0	38	1.13
26644194--26644310	27	4.3	27	84	2	146	23	29	12	33	1.92
26648188--26648212	12	2.1	12	100	0	50	48	8	0	44	1.32
26648258--26648297	21	1.9	21	84	0	53	55	2	10	32	1.47
26648348--26648392	18	2.7	16	83	16	56	53	2	6	37	1.40
26652177--26652216	12	3.3	12	92	0	53	2	37	17	42	1.63
26652201--26652269	21	3.3	21	89	0	102	1	43	20	34	1.61
26657720--26657818	16	5.9	17	76	13	73	28	3	21	47	1.65
26657720--26657827	9	12.6	9	75	16	86	28	2	21	47	1.65
26657885--26657940	9	6.1	9	83	6	51	26	0	17	55	1.43
26657894--26657953	12	5.7	10	88	9	68	28	0	16	55	1.42
26657910--26657964	12	4.8	12	88	4	78	29	1	16	52	1.54
26657903--26657971	24	3.0	24	87	8	92	27	1	17	53	1.52
26657923--26657977	24	2.5	22	85	8	67	27	1	21	49	1.60
26658227--26658275	18	2.9	17	85	8	64	42	2	18	36	1.62
26658282--26658383	35	2.8	36	79	4	98	57	1	4	35	1.31
26660067--26660157	45	2.0	45	86	0	128	36	8	30	24	1.86
26661343--26661401	7	8.3	7	83	3	64	44	42	0	13	1.44
26661810--26662237	114	3.8	114	81	5	483	29	22	18	29	1.97
26661768--26662164	115	3.5	114	82	4	512	29	21	19	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26661751--26662254	229	2.2	229	86	4	696	28	21	19	29	1.98
26661810--26662335	114	4.6	113	78	9	478	29	21	18	30	1.97
26661751--26662447	229	3.0	224	82	5	632	27	21	19	31	1.97
26662699--26662792	40	2.4	39	83	3	107	14	20	22	42	1.88
26668340--26668390	15	3.4	15	68	10	50	49	7	19	23	1.74
26668336--26668415	30	2.7	30	96	0	142	48	6	21	23	1.72
26672048--26672123	39	1.9	39	100	0	152	38	9	15	36	1.80
26677118--26677150	18	1.9	17	88	11	50	9	42	36	12	1.74
26677683--26677716	3	11.7	3	93	6	61	70	0	0	29	0.87
26680295--26680321	12	2.2	12	100	0	54	74	0	7	18	1.05

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   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226