genome.fa.s4.2.7.7.80.10.50.1000.46.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   227   228   229   230   231   232   233   234   235   

This is table  46  of  235  ( 28198 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)
15123771--15123842	22	3.3	22	82	9	85	2	13	0	83	0.76
15129420--15129485	19	3.2	21	87	6	64	36	19	9	34	1.84
15129437--15129534	19	5.2	19	90	7	155	35	15	10	38	1.81
15129437--15129534	36	2.6	37	88	9	144	35	15	10	38	1.81
15132970--15133006	17	2.2	17	100	0	74	45	16	5	32	1.70
15136609--15136717	51	2.1	51	91	0	182	24	21	5	48	1.71
15138409--15138583	94	1.9	94	93	0	305	37	10	6	46	1.63
15142876--15142923	24	2.0	24	95	0	87	16	18	12	52	1.75
15143966--15144116	40	3.8	40	76	3	160	29	19	22	27	1.98
15144318--15144350	13	2.5	13	95	5	57	18	0	36	45	1.49
15144987--15145080	7	11.9	8	77	13	72	61	4	0	34	1.15
15145013--15145092	7	11.0	7	80	7	61	58	2	0	38	1.11
15145012--15145077	21	3.0	21	86	10	80	63	3	0	33	1.10
15149688--15149951	43	6.2	42	79	5	235	25	17	26	30	1.97
15149746--15149951	86	2.4	87	84	8	278	24	18	27	29	1.98
15153751--15153868	43	2.8	42	79	7	148	30	24	14	30	1.95
15157386--15157532	39	3.7	40	84	7	210	24	26	23	25	2.00
15170537--15170650	28	4.1	27	78	8	106	26	29	15	28	1.96
15175580--15175751	93	1.8	93	95	2	310	28	29	20	20	1.98
15175573--15175748	46	3.8	46	79	14	209	29	29	20	20	1.98
15182698--15182868	93	1.8	93	96	0	315	28	29	21	21	1.98
15182693--15182865	46	3.7	46	80	13	219	28	28	21	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15183286--15183345	30	2.0	30	90	0	93	30	25	8	36	1.85
15190270--15190623	46	7.7	46	98	0	656	30	28	19	21	1.98
15201127--15201331	43	4.9	43	93	1	323	24	20	28	26	1.99
15201127--15201357	86	2.8	82	90	5	326	25	20	28	25	1.99
15201134--15201357	40	5.5	40	92	3	317	24	21	28	25	1.99
15216461--15216688	40	5.6	40	85	7	289	25	21	27	25	1.99
15216458--15216688	86	2.8	82	88	5	326	25	20	27	25	1.99
15217612--15217936	162	2.0	163	96	0	598	34	16	20	28	1.94
15219029--15219109	28	2.9	28	78	10	94	30	29	12	27	1.93
15220056--15220313	27	9.6	27	77	7	220	40	21	8	29	1.83
15220056--15220304	54	4.6	54	81	4	270	40	22	8	29	1.83
15220368--15220430	27	2.3	28	81	8	76	46	23	3	26	1.68
15220441--15220492	27	1.9	27	88	7	79	40	13	11	34	1.81
15229775--15229805	16	1.9	16	93	0	53	35	22	0	41	1.54
15229772--15229811	20	2.0	20	85	0	53	37	22	0	40	1.54
15229997--15230251	55	4.8	54	80	9	258	21	25	18	35	1.95
15230044--15230241	108	1.8	110	87	4	303	22	25	18	33	1.96
15241284--15241330	24	2.0	24	83	8	60	19	48	0	31	1.49
15243669--15243703	18	2.0	18	88	5	54	68	0	0	31	0.90
15243957--15244014	22	2.6	22	81	7	64	41	17	5	36	1.72
15245365--15245833	234	2.0	234	98	0	902	20	21	24	33	1.97
15253026--15253128	37	2.8	37	96	0	188	24	32	20	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15253269--15253525	48	5.3	48	92	1	397	29	26	5	38	1.78
15254440--15254507	25	2.7	25	81	0	82	29	17	23	29	1.97
15267026--15267596	285	2.0	285	99	0	1133	23	17	21	37	1.94
15269882--15269919	19	2.0	19	85	10	51	68	0	10	21	1.19
15279067--15279242	46	3.8	46	79	12	216	20	21	29	28	1.98
15279064--15279235	93	1.8	93	96	0	317	20	21	29	27	1.98
15284087--15284152	21	3.0	22	86	4	80	30	4	30	34	1.78
15292231--15292264	13	2.6	13	95	0	59	32	17	11	38	1.86
15296733--15297254	261	2.0	261	98	0	1017	34	21	13	30	1.92
15303359--15303476	29	4.1	29	83	4	125	27	14	31	26	1.95
15305336--15305497	24	6.8	24	67	6	87	27	13	26	32	1.94
15316546--15316730	79	2.3	81	84	7	236	24	22	27	25	2.00
15316547--15316730	40	4.6	40	83	9	216	24	22	27	25	2.00
15316599--15316763	79	2.1	79	84	6	210	26	21	27	25	1.99
15323615--15323660	9	4.7	10	82	10	51	34	8	19	36	1.83
15331426--15331471	9	4.7	10	82	10	51	34	8	19	36	1.83
15334379--15334550	93	1.8	93	94	0	308	27	30	21	20	1.98
15334371--15334546	46	3.8	46	81	10	214	28	29	21	21	1.98
15345305--15345331	10	2.7	10	100	0	54	7	18	44	29	1.77
15350009--15350082	31	2.4	31	80	13	91	66	2	2	28	1.19
15361672--15361709	19	2.0	20	85	15	53	36	0	23	39	1.55
15362930--15363000	36	2.0	36	91	0	115	49	12	12	25	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15365601--15365633	16	1.9	18	88	11	52	48	12	15	24	1.78
15366163--15366382	45	5.0	45	87	2	286	25	27	22	24	2.00
15366970--15367080	47	2.4	47	100	0	222	45	15	10	27	1.79
15368337--15368384	20	2.5	20	90	6	73	20	4	6	68	1.28
15368797--15368847	15	3.5	15	72	5	50	47	27	1	23	1.63
15369018--15369050	16	2.1	16	88	5	50	15	0	36	48	1.45
15368978--15369096	57	2.1	55	84	3	148	19	1	30	48	1.58
15369107--15369259	41	3.8	40	80	3	171	21	24	18	35	1.96
15369107--15369259	82	1.9	81	89	4	236	21	24	18	35	1.96
15369123--15369280	81	1.9	82	85	8	216	22	26	17	32	1.96
15372663--15372703	19	2.0	20	86	13	57	39	7	14	39	1.74
15378032--15378121	30	3.0	30	90	0	135	15	22	33	28	1.95
15378386--15378410	13	1.9	13	100	0	50	24	16	32	28	1.96
15378697--15378750	26	2.1	26	100	0	108	22	3	27	46	1.69
15385182--15385236	26	2.1	27	82	3	67	41	29	12	16	1.85
15400682--15400769	46	1.9	46	88	0	131	27	30	22	19	1.98
15404357--15404485	65	2.0	65	96	0	240	33	17	12	36	1.88
15414664--15414753	45	2.0	45	97	0	171	30	4	23	42	1.74
15414897--15415855	47	21.0	47	94	4	1668	20	23	31	25	1.98
15415689--15415878	40	4.8	40	92	0	308	23	21	27	27	1.99
15438788--15438830	22	2.0	22	100	0	86	13	25	32	27	1.94
15443666--15443774	46	2.4	46	90	3	166	22	30	11	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15443798--15443949	47	3.2	47	90	1	234	25	27	11	35	1.90
15464994--15465256	46	5.6	47	76	13	201	23	30	18	26	1.98
15468769--15468798	12	2.5	12	94	0	51	6	30	40	23	1.80
15470389--15470542	67	2.3	67	82	7	179	33	16	27	21	1.95
15478707--15478850	44	3.4	41	81	6	137	31	24	18	25	1.97
15478689--15478850	43	3.8	42	79	4	146	32	25	17	24	1.97
15483345--15483396	20	2.6	20	76	11	61	34	15	1	48	1.56
15486712--15486741	15	2.0	15	100	0	60	53	13	13	20	1.72
15493180--15493436	55	4.8	55	78	10	252	36	17	25	21	1.94
15493486--15493530	23	1.9	24	86	4	65	42	8	24	24	1.83
15493609--15493639	16	1.9	16	93	0	53	41	0	22	35	1.54
15499394--15499426	17	1.9	18	88	11	52	45	0	12	42	1.41
15499453--15499505	23	2.3	23	80	6	63	49	0	11	39	1.39
15501309--15501354	22	2.1	22	100	0	92	45	8	8	36	1.66
15504864--15505080	46	4.7	46	78	10	153	26	20	29	23	1.99
15505055--15505136	28	2.9	28	92	0	137	28	21	29	20	1.98
15507837--15507952	46	2.5	46	94	0	196	31	28	20	19	1.97
15519202--15519419	40	5.5	40	92	2	316	24	29	23	22	1.99
15535104--15535249	50	2.9	50	91	1	231	28	26	17	27	1.97
15545010--15545034	8	3.1	8	100	0	50	24	40	12	24	1.88
15552534--15552718	40	4.7	40	80	7	200	24	22	27	25	2.00
15552538--15552716	79	2.2	81	83	7	224	25	22	26	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15552535--15552751	79	2.7	79	76	11	214	26	22	26	25	2.00
15554764--15554800	19	1.9	19	94	0	65	21	27	40	10	1.86
15565067--15565098	16	2.0	16	100	0	64	37	6	18	37	1.76
15566417--15566549	27	4.9	27	73	0	95	38	23	9	28	1.86
15566536--15566890	27	13.1	27	89	0	476	35	20	20	23	1.96
15575118--15575295	27	6.6	27	84	3	205	29	28	15	26	1.96
15575139--15575294	82	1.9	81	88	3	233	29	28	15	26	1.96
15589281--15589381	25	4.1	25	74	11	75	27	21	19	30	1.98
15589365--15589432	25	2.7	25	74	0	73	32	23	16	27	1.96
15590270--15590318	24	2.0	24	100	0	98	46	12	8	32	1.71

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   227   228   229   230   231   232   233   234   235