genome.fa.s10.2.7.7.80.10.50.1000.18.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: At_chr6
Parameters: 2 7 7 80 10 50 1000
Length:  56482370

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   

This is table  18  of  172  ( 20562 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)
5796265--5796316	7	7.9	7	81	14	58	84	0	15	0	0.62
5796267--5796316	13	3.8	13	81	7	57	84	0	16	0	0.63
5796266--5796316	19	2.7	18	88	8	75	84	0	15	0	0.63
5797213--5797648	44	9.9	44	75	8	368	30	18	24	26	1.98
5797210--5797661	88	5.1	89	77	8	406	29	18	25	27	1.98
5797205--5797648	132	3.4	132	91	1	685	30	17	25	26	1.97
5797586--5797684	44	2.2	44	92	0	162	31	17	27	24	1.97
5798623--5798674	19	3.2	15	78	21	52	36	7	3	51	1.49
5799212--5799252	21	2.0	21	100	0	82	26	9	29	34	1.88
5806227--5806271	23	2.0	23	90	0	72	28	22	13	35	1.92
5807515--5807601	21	4.0	23	80	10	92	37	25	21	14	1.92
5809046--5809081	15	2.3	17	81	18	51	0	30	0	69	0.89
5812733--5812798	35	1.9	34	87	3	96	33	9	13	43	1.76
5813937--5813981	18	2.5	18	100	0	90	42	0	57	0	0.98
5821330--5821390	32	1.9	32	86	0	86	42	8	8	40	1.64
5823171--5823291	43	2.9	42	76	11	147	34	14	21	28	1.93
5829029--5829110	28	3.0	28	76	13	82	51	1	3	43	1.27
5830929--5830955	14	1.9	14	100	0	54	51	0	11	37	1.37
5835710--5835811	46	2.2	46	83	0	141	21	25	34	18	1.96
5839519--5839564	23	2.0	23	83	8	58	47	10	19	21	1.80
5841031--5841128	38	2.5	38	86	6	126	27	23	24	24	2.00
5853443--5853476	12	2.8	12	90	0	50	32	11	0	55	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5864013--5864299	120	2.4	120	97	0	538	42	1	5	50	1.35
5864132--5864183	15	3.6	15	80	12	56	44	0	1	53	1.11
5864080--5864267	61	3.1	61	70	14	199	42	1	6	48	1.39
5864261--5864302	15	2.7	16	82	14	52	45	0	2	52	1.13
5864252--5864293	15	2.9	15	82	10	52	47	0	0	52	1.00
5864428--5864537	45	2.6	43	76	13	113	33	28	4	33	1.78
5864518--5864585	16	4.2	16	94	0	118	35	36	0	27	1.58
5877021--5877060	6	6.7	6	100	0	80	85	0	0	15	0.61
5886023--5886077	7	8.0	7	82	9	51	85	1	5	7	0.80
5886023--5886075	11	4.8	11	79	6	54	86	1	5	5	0.75
5886187--5886304	60	2.0	60	98	0	227	36	22	20	21	1.95
5887624--5887684	7	8.7	7	79	13	56	83	0	11	4	0.79
5887624--5887684	16	3.8	16	81	12	79	83	0	11	4	0.79
5887623--5887684	9	7.6	8	77	15	65	83	0	11	4	0.78
5887623--5887684	24	2.6	23	85	10	79	83	0	11	4	0.78
5888543--5888884	88	3.9	88	75	7	338	30	17	24	27	1.97
5888538--5888899	44	8.2	44	74	7	261	30	17	24	27	1.97
5888846--5889784	205	4.6	205	94	1	1525	30	18	22	28	1.97
5889686--5890046	87	4.2	85	65	18	213	35	17	21	26	1.95
5889616--5890128	261	2.0	255	86	4	726	33	17	22	26	1.96
5890413--5890473	19	3.3	19	88	6	90	37	8	16	37	1.78
5893809--5893856	25	2.0	25	87	4	71	18	27	16	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5893931--5894002	26	2.8	25	87	4	108	15	25	25	34	1.94
5893920--5894033	25	4.6	25	78	14	105	17	24	22	35	1.95
5894039--5894108	24	2.9	24	73	16	72	18	21	21	38	1.93
5893943--5894116	73	2.4	73	75	4	163	17	23	21	36	1.94
5904660--5904714	25	2.2	25	90	6	85	16	23	16	43	1.87
5904669--5904725	25	2.3	25	87	0	78	17	21	21	40	1.92
5904712--5904776	25	2.6	25	95	0	112	27	26	18	27	1.98
5912693--5912746	27	2.0	27	88	0	81	53	0	0	46	1.00
5913892--5913949	15	3.6	16	71	23	50	63	1	0	34	1.04
5913891--5913951	17	3.8	16	76	14	63	63	1	0	34	1.04
5917397--5917440	21	2.1	21	91	0	70	29	20	29	20	1.98
5920631--5920679	18	2.7	18	84	6	55	36	0	0	63	0.95
5926894--5926959	10	6.5	10	77	11	64	31	1	0	66	1.01
5926894--5926958	23	3.1	21	81	14	66	30	1	0	67	1.00
5926901--5926940	9	3.9	11	78	15	50	30	0	0	70	0.88
5927757--5927882	61	2.1	61	100	0	252	40	15	3	41	1.62
5942451--5942527	10	8.0	10	74	18	58	29	3	1	64	1.19
5942425--5942478	20	2.7	21	83	8	60	24	7	3	64	1.35
5942465--5942527	9	6.7	9	75	15	56	31	3	1	63	1.19
5942749--5942881	24	5.2	24	72	19	76	35	2	4	57	1.31
5942792--5942838	22	2.1	22	88	7	69	36	2	2	59	1.21
5942956--5943001	17	2.5	19	86	10	60	36	2	6	54	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5954701--5954859	27	5.9	27	83	11	193	34	22	24	18	1.96
5954719--5954859	54	2.6	54	94	2	248	34	24	24	17	1.95
5956111--5956218	26	4.2	26	95	0	189	36	25	7	30	1.84
5957478--5957592	43	2.7	42	84	9	135	46	13	25	14	1.82
5958442--5958865	74	5.6	74	93	2	659	32	16	21	29	1.95
5958824--5959069	89	2.9	81	81	6	224	26	16	20	36	1.93
5960715--5960746	9	3.6	9	91	0	55	31	0	3	65	1.08
5960717--5960771	18	2.8	20	81	15	53	29	0	10	60	1.31
5960894--5960942	14	3.6	14	86	5	64	38	0	4	57	1.18
5960892--5960950	29	2.0	29	80	6	66	37	1	5	55	1.32
5961001--5961105	22	5.0	20	71	22	74	37	0	2	59	1.19
5960983--5961102	49	2.5	51	74	17	130	36	0	4	58	1.23
5960973--5961217	57	4.4	54	74	19	186	35	2	4	57	1.32
5962239--5962493	127	2.0	127	94	0	447	27	21	17	33	1.96
5963105--5963203	23	4.2	23	69	14	76	31	16	15	37	1.89
5963115--5963203	24	3.8	24	74	4	74	31	14	15	38	1.88
5963163--5963249	24	3.7	23	74	7	59	26	17	18	37	1.92
5963226--5963273	24	2.0	23	84	4	60	27	20	14	37	1.92
5963269--5963387	28	4.5	26	65	10	71	25	26	18	29	1.98
5964858--5964894	17	2.1	18	90	5	58	32	0	5	62	1.18
5972647--5972694	19	2.6	19	80	9	55	35	2	14	47	1.56
5972708--5972843	43	3.2	43	95	2	238	27	5	14	51	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5981784--5981981	100	2.0	100	100	0	396	37	21	14	27	1.92
5983603--5983791	93	2.0	94	95	3	344	26	32	13	26	1.94
5990332--5990390	10	5.1	11	77	22	59	30	0	0	69	0.89
5990346--5990400	25	2.2	26	90	9	87	36	0	0	63	0.95
5991092--5991166	23	3.4	23	66	17	68	37	10	14	37	1.81
5991083--5991169	43	2.0	43	100	0	174	36	9	16	37	1.80
5996470--5996533	28	2.3	28	94	0	110	6	15	17	60	1.54
5996870--5997009	62	2.3	60	82	6	165	45	2	2	49	1.28
5998877--5998909	17	2.0	17	88	5	50	42	3	0	54	1.15
6003500--6003674	35	5.0	35	100	0	350	45	5	34	14	1.68
6003666--6003703	20	1.9	20	84	10	51	42	13	23	21	1.88
6004734--6005009	46	6.0	46	96	0	489	36	14	25	23	1.93
6006157--6006259	42	2.5	42	80	0	116	18	15	22	43	1.87
6006157--6006259	22	4.9	20	71	9	80	18	15	22	43	1.87
6032981--6033025	14	3.3	14	81	6	56	57	0	0	42	0.98
6043159--6043183	10	2.5	10	100	0	50	44	0	0	56	0.99
6046821--6046857	16	2.3	16	90	0	56	24	8	8	59	1.53
6047049--6047107	24	2.5	24	84	13	86	55	0	0	44	0.99
6047826--6047974	76	2.0	75	91	1	244	46	9	14	29	1.75
6047949--6048231	138	2.1	138	90	2	444	41	8	4	45	1.56
6048893--6048942	25	2.0	25	100	0	100	36	12	20	32	1.89
6053994--6054049	24	2.3	23	77	14	60	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6054080--6054129	21	2.4	21	93	0	82	38	0	0	62	0.96
6056010--6056095	21	3.9	21	71	14	64	55	4	2	37	1.33
6056046--6056097	26	2.0	26	96	0	95	51	3	0	44	1.19
6056038--6056098	26	2.6	22	75	20	61	52	3	0	44	1.17
6060536--6060607	30	2.4	30	80	2	90	45	15	9	29	1.78
6068461--6068510	26	1.9	26	87	0	73	52	16	20	12	1.75
6073649--6073739	44	2.0	45	87	6	132	30	5	29	34	1.80
6073824--6073912	35	2.5	35	80	10	92	51	2	1	44	1.21
6077670--6077697	14	2.0	14	100	0	56	64	0	28	7	1.20
6077652--6077717	18	3.7	18	72	25	59	62	3	27	7	1.37

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