genome.fa.s9.2.7.7.80.10.50.1000.208.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  208  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)
65637976--65638020	20	2.2	20	88	0	63	48	8	4	37	1.55
65637944--65638020	40	1.9	40	81	0	91	45	7	10	36	1.67
65637984--65638023	20	2.0	20	100	0	80	45	5	5	45	1.47
65637996--65638052	30	1.9	30	85	7	80	43	3	7	45	1.48
65639102--65639133	10	3.0	11	90	9	57	53	0	0	46	1.00
65639278--65639341	19	3.5	19	72	8	53	31	1	6	60	1.30
65639288--65639338	18	2.8	20	77	17	56	23	1	7	66	1.28
65647247--65647287	21	2.0	21	85	9	57	21	36	17	24	1.94
65647041--65647343	147	2.1	147	88	1	455	22	31	21	25	1.98
65651973--65652224	90	2.8	90	80	4	258	28	16	21	32	1.95
65652994--65653237	66	3.8	64	80	5	224	28	0	19	51	1.50
65652991--65653155	21	7.7	22	67	20	71	25	0	21	52	1.52
65653739--65653810	36	2.0	36	97	0	135	40	8	29	22	1.83
65660086--65660327	50	4.7	50	78	5	200	28	19	27	24	1.98
65666474--65666506	16	2.0	17	88	5	50	39	24	3	33	1.71
65675917--65675944	12	2.3	12	100	0	56	42	7	0	50	1.30
65678874--65678942	27	2.7	26	82	10	72	31	26	0	42	1.56
65679087--65679133	18	2.6	18	90	6	69	57	4	2	36	1.30
65679087--65679135	12	4.1	12	83	0	53	55	6	2	36	1.37
65680036--65680081	14	3.3	14	93	0	83	56	2	0	41	1.11
65681171--65681267	43	2.3	43	80	7	108	42	22	13	21	1.88
65681208--65681402	42	4.6	42	80	3	110	44	20	14	20	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65681257--65681396	42	3.3	41	81	2	154	43	18	16	21	1.88
65681235--65681397	84	1.9	84	83	3	211	43	19	15	21	1.87
65685803--65685844	22	1.9	22	90	0	66	28	2	47	21	1.63
65685838--65685877	20	2.0	20	95	0	71	37	5	7	50	1.53
65692095--65692127	16	2.1	16	94	0	57	42	0	15	42	1.46
65694529--65694564	18	2.1	17	89	5	54	30	0	0	69	0.89
65704200--65704224	13	1.9	13	100	0	50	20	40	8	32	1.81
65704354--65704383	6	5.0	6	95	0	51	0	46	0	53	1.00
65706441--65706718	64	4.4	64	95	0	465	49	7	10	31	1.66
65709276--65709384	44	2.6	41	74	17	98	44	0	4	50	1.29
65709309--65709372	28	2.4	28	86	5	87	43	0	0	56	0.99
65709222--65709469	100	2.4	106	84	12	311	43	1	4	50	1.30
65709418--65709469	26	2.0	27	84	3	70	44	3	1	50	1.31
65709591--65709696	44	2.5	41	77	18	126	36	30	3	29	1.75
65709608--65709698	46	2.0	46	91	4	150	39	29	4	26	1.75
65709678--65709714	16	2.3	16	95	0	65	24	32	5	37	1.78
65710741--65710798	22	2.6	22	100	0	116	24	32	0	43	1.55
65711939--65711963	7	3.6	7	100	0	50	28	0	12	60	1.32
65712613--65712647	18	1.9	18	94	0	61	25	31	8	34	1.86
65713124--65713261	25	5.7	25	79	14	173	41	1	14	42	1.54
65713080--65713261	95	1.9	94	92	3	303	41	1	13	43	1.51
65713073--65713251	45	3.9	44	76	14	164	40	1	13	44	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65713257--65713571	23	13.6	23	74	19	232	46	26	0	27	1.53
65713277--65713345	29	2.3	29	95	2	120	44	28	0	26	1.54
65713277--65713368	29	3.4	28	76	18	104	45	28	0	26	1.54
65713373--65713521	21	6.9	21	78	18	146	47	24	0	28	1.52
65713331--65713569	89	2.7	89	96	1	424	47	25	0	26	1.52
65713313--65713571	112	2.3	111	84	14	327	47	26	0	26	1.53
65713313--65713576	66	3.9	67	79	16	246	46	26	0	26	1.53
65713514--65713906	29	13.6	29	87	6	541	45	25	0	27	1.59
65713805--65713924	29	4.7	23	80	15	96	46	24	0	28	1.58
65713921--65714274	116	3.1	116	96	0	645	37	9	9	43	1.70
65714250--65714291	17	2.4	18	80	4	50	42	9	2	45	1.49
65717304--65717655	125	2.8	123	88	3	535	32	22	15	29	1.94
65718913--65718946	17	2.0	17	100	0	68	70	0	0	29	0.87
65719253--65719908	347	1.9	348	98	0	1278	23	19	23	33	1.97
65719750--65720128	126	3.0	125	87	2	546	29	16	22	32	1.96
65723356--65723467	23	4.6	23	78	14	80	29	0	24	45	1.59
65723382--65723568	29	6.6	29	76	15	194	29	0	25	43	1.59
65723361--65723527	24	6.5	25	73	17	130	30	0	24	44	1.58
65723361--65723554	53	3.6	52	85	6	244	29	0	24	44	1.58
65723547--65723589	19	2.3	19	91	0	68	25	0	30	44	1.55
65723571--65723613	13	3.3	13	96	0	77	25	0	23	51	1.49
65723571--65723675	12	8.1	12	76	13	66	22	0	28	48	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65723639--65723679	13	3.2	13	89	6	66	26	0	21	51	1.48
65723664--65723728	28	2.3	28	91	2	103	24	0	29	46	1.53
65723788--65723822	13	2.7	13	86	0	52	22	0	25	51	1.48
65723814--65723851	18	2.1	18	85	9	51	15	0	39	44	1.47
65733645--65733691	19	2.5	19	85	0	67	36	23	23	17	1.95
65740851--65740903	22	2.4	22	84	12	65	26	22	20	30	1.98
65744179--65744217	6	6.5	6	87	0	60	66	0	0	33	0.92
65746072--65746111	21	1.9	21	85	10	55	22	42	0	35	1.54
65749197--65749231	17	2.1	17	100	0	70	77	0	22	0	0.78
65755723--65756343	109	5.6	110	91	2	924	30	15	19	33	1.93
65756756--65756926	41	4.2	41	86	3	222	22	26	15	35	1.94
65764280--65764472	33	5.7	33	73	17	173	19	22	26	30	1.98
65764178--65764463	135	2.1	135	92	0	464	19	19	27	32	1.97
65769433--65769482	22	2.3	22	82	6	57	30	24	12	34	1.91
65777172--65777217	24	2.0	23	82	4	56	32	4	2	60	1.28
65780531--65780555	2	12.5	2	100	0	50	52	0	0	48	1.00
65789851--65789892	9	4.7	9	80	8	50	73	2	2	21	1.06
65789975--65790095	33	3.5	33	77	19	122	71	4	5	19	1.23
65790030--65790089	15	4.1	15	76	18	54	71	1	1	25	1.04
65790032--65790089	21	2.8	19	78	14	62	72	1	1	24	1.03
65796895--65796933	2	19.5	2	100	0	78	48	0	0	51	1.00
65797105--65797138	17	2.1	17	88	5	52	20	14	0	64	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65810139--65810177	20	2.0	20	85	10	53	28	0	7	64	1.21
65810705--65810758	27	2.0	28	96	3	101	57	14	3	24	1.54
65812859--65812888	10	3.0	10	90	0	51	23	0	36	40	1.55
65813539--65813616	36	2.2	36	83	0	93	25	17	32	24	1.97
65813625--65813726	36	2.8	36	89	0	141	26	20	30	22	1.98
65822484--65822563	38	2.1	37	83	2	97	25	21	21	32	1.98
65824428--65824509	28	2.9	28	96	0	146	34	15	21	28	1.95
65825525--65825656	66	2.0	66	96	0	246	45	12	15	27	1.81
65825870--65825912	18	2.5	17	81	7	52	65	0	2	32	1.06
65830076--65830118	16	2.8	15	82	6	50	62	0	0	37	0.95
65832204--65832329	59	2.1	59	81	5	139	47	25	2	24	1.64
65833037--65833183	41	3.5	41	80	6	145	34	27	14	23	1.94
65849579--65850656	539	2.0	539	97	0	2039	18	21	29	31	1.97
65862456--65862693	120	2.0	120	94	1	415	40	8	13	36	1.75
65864801--65864883	22	3.8	22	73	6	78	22	3	25	48	1.67
65864812--65864883	25	3.1	25	61	29	59	25	4	23	47	1.69
65874279--65874343	29	2.2	28	78	7	67	24	18	6	50	1.69
65874474--65874531	7	8.4	7	75	21	52	60	0	1	37	1.07
65874463--65874506	20	2.2	20	92	4	72	59	0	2	38	1.10
65874656--65874701	24	2.0	24	86	4	67	45	0	4	50	1.21
65874690--65874799	21	5.1	21	74	17	77	58	0	0	40	1.04
65874736--65874799	22	2.9	20	77	20	65	54	0	1	43	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65874786--65874813	11	2.5	11	100	0	56	60	0	0	39	0.97
65881221--65881259	11	3.4	11	80	13	51	41	12	0	46	1.42
65881210--65881259	24	2.1	24	96	0	91	40	14	0	46	1.44
65881210--65881251	13	3.4	12	80	12	50	38	16	0	45	1.48
65885635--65885684	24	2.1	24	81	7	57	62	6	2	30	1.31
65889520--65889563	22	1.9	23	81	9	54	31	13	2	52	1.53
65889733--65889802	29	2.5	26	77	18	70	42	1	1	54	1.18
65889751--65889800	13	3.2	16	70	18	52	48	0	0	52	1.00
65889743--65889800	29	2.0	30	83	10	75	44	1	1	51	1.21
65889807--65889862	19	3.2	19	70	14	57	48	1	0	50	1.11

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