genome.fa.s4.2.7.7.80.10.50.1000.111.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  111  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)
38193317--38193550	25	9.2	25	68	6	139	29	3	22	44	1.70
38193886--38193963	31	2.5	31	87	6	115	50	0	2	47	1.15
38194643--38194672	14	2.1	14	100	0	60	53	6	13	26	1.64
38195986--38196037	27	1.9	27	88	0	77	50	9	0	40	1.35
38196105--38196141	10	3.7	10	92	0	65	43	13	0	43	1.44
38197041--38197217	82	2.2	82	97	0	336	35	20	15	28	1.93
38204786--38204860	37	2.0	37	97	0	141	32	20	21	26	1.97
38213142--38213193	16	3.3	15	80	15	61	42	3	23	30	1.72
38213354--38213409	26	2.2	26	80	6	60	62	0	0	37	0.95
38219684--38219741	25	2.3	25	80	11	73	41	17	20	20	1.90
38220100--38220148	25	2.0	25	92	8	82	24	24	12	38	1.90
38225004--38225047	18	2.4	18	81	11	54	61	6	0	31	1.22
38226393--38226424	5	6.6	5	92	7	57	81	0	0	18	0.70
38226394--38226424	9	3.3	9	95	4	53	80	0	0	19	0.71
38230067--38230098	5	6.6	5	92	7	57	81	0	0	18	0.70
38230068--38230098	9	3.3	9	95	4	53	80	0	0	19	0.71
38235107--38235224	62	1.9	62	96	0	218	27	11	24	35	1.91
38244490--38244547	30	1.9	30	92	0	98	22	37	27	12	1.89
38247555--38247579	13	1.9	13	100	0	50	32	16	16	36	1.90
38249480--38249890	47	8.7	47	96	0	716	32	8	30	28	1.87
38250009--38250087	37	2.1	37	90	0	122	24	18	31	25	1.98
38254993--38255284	62	4.7	62	92	0	478	36	6	8	47	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38255271--38255302	8	4.0	8	95	0	55	28	0	21	50	1.49
38258739--38258839	31	3.3	30	84	6	132	11	33	32	21	1.90
38259389--38259422	12	2.8	12	100	0	68	32	0	14	52	1.42
38266344--38266497	42	3.6	43	78	9	172	33	26	16	24	1.96
38275055--38275168	36	3.2	36	70	12	90	25	21	13	40	1.89
38275001--38275318	164	1.9	164	85	0	429	26	21	12	38	1.89
38275178--38275577	109	3.7	108	82	2	469	27	20	12	40	1.87
38275437--38275677	34	6.6	35	72	14	150	29	19	9	42	1.81
38275448--38275603	34	4.4	34	77	10	152	28	17	8	44	1.79
38275178--38275577	218	1.8	218	83	2	525	27	20	12	40	1.87
38275448--38275648	73	2.8	72	85	5	246	28	20	8	42	1.81
38275379--38275757	182	2.1	182	81	3	433	27	19	10	41	1.85
38275561--38275785	109	2.1	109	85	1	299	28	19	10	42	1.83
38277382--38277425	4	11.5	4	80	9	56	27	2	25	45	1.65
38277874--38278008	67	2.0	67	98	0	261	31	11	16	40	1.83
38280080--38280139	7	8.6	7	100	0	120	15	13	28	43	1.84
38280179--38280203	7	3.6	7	100	0	50	12	0	0	88	0.53
38282719--38282769	4	12.8	4	79	8	59	43	27	5	23	1.77
38282721--38282767	12	3.9	12	88	0	76	42	27	6	23	1.78
38284640--38284690	25	2.0	25	100	0	102	37	19	3	39	1.70
38293146--38293172	6	4.5	6	100	0	54	85	0	0	14	0.61
38293131--38293174	11	3.9	11	85	5	61	79	0	4	15	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38295009--38295053	15	3.0	14	81	12	54	71	0	26	2	0.98
38306888--38306926	14	2.7	15	84	8	53	53	15	10	20	1.70
38309074--38309114	18	2.3	18	87	4	57	51	14	0	34	1.43
38309317--38309344	11	2.5	11	100	0	56	10	0	0	89	0.49
38315578--38315608	16	1.9	16	93	0	53	9	9	9	70	1.33
38323312--38323345	17	2.0	17	94	0	59	41	2	11	44	1.56
38323481--38323533	26	2.0	26	100	0	106	26	0	30	43	1.55
38325907--38325961	28	1.9	29	82	17	71	29	20	21	29	1.98
38325980--38326055	28	2.6	27	80	12	80	26	28	14	30	1.95
38326007--38326074	27	2.5	28	83	7	77	30	26	17	25	1.97
38328152--38328219	25	2.8	23	80	12	82	41	19	0	39	1.51
38331713--38331758	21	2.2	21	96	0	83	13	19	45	21	1.84
38341078--38341111	13	2.7	13	90	4	52	41	0	8	50	1.34
38341164--38341192	15	1.9	15	100	0	58	68	0	3	27	1.05
38341227--38341255	10	3.0	10	95	5	51	82	0	17	0	0.66
38342569--38342635	27	2.5	27	92	7	111	26	19	2	50	1.62
38345335--38345378	19	2.4	18	88	7	70	31	38	0	29	1.58
38345630--38345700	38	1.9	38	83	11	94	39	8	0	52	1.32
38345658--38345702	21	2.1	20	84	12	54	37	6	0	55	1.26
38345816--38345853	19	2.0	19	89	0	58	34	7	26	31	1.85
38346327--38346356	13	2.3	13	94	0	51	53	10	6	30	1.60
38346566--38346663	31	2.9	34	73	16	87	44	2	2	51	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38346605--38346650	24	1.9	24	86	0	65	45	0	2	52	1.13
38346735--38346776	22	2.0	22	86	13	63	42	4	2	50	1.36
38348966--38348995	3	10.0	3	100	0	60	33	33	0	33	1.58
38355051--38355105	28	2.0	28	82	7	67	67	5	1	25	1.22
38355551--38355580	4	7.8	4	92	7	53	23	0	0	76	0.78
38359894--38359987	46	2.0	46	97	0	179	22	23	14	39	1.91
38361272--38361296	11	2.3	11	100	0	50	60	16	8	16	1.58
38361993--38362021	13	2.2	13	100	0	58	34	6	27	31	1.83
38364180--38364239	23	2.7	23	80	7	72	40	1	3	55	1.27
38364735--38364796	22	2.7	24	75	7	65	41	0	1	56	1.09
38364760--38364798	15	2.4	16	87	8	53	35	0	0	64	0.94
38370465--38370528	18	3.6	18	86	0	92	39	9	9	42	1.70
38370842--38370868	6	4.5	6	100	0	54	48	14	18	18	1.82
38378151--38378194	20	2.2	20	83	0	52	36	13	2	47	1.56
38379651--38379697	9	5.2	9	80	10	51	4	14	2	78	0.99
38379714--38379749	8	4.5	8	92	0	63	61	0	2	36	1.11
38379769--38379804	18	2.1	18	89	5	56	41	0	2	55	1.14
38386516--38386607	36	2.4	39	83	8	127	41	15	20	22	1.90
38386604--38386692	30	3.0	30	79	0	97	29	13	32	24	1.93
38387775--38387813	21	1.9	20	84	5	51	51	5	25	17	1.66
38390928--38391038	38	2.9	39	78	2	125	38	10	22	27	1.88
38391032--38391122	30	3.0	30	86	0	119	28	14	31	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38392314--38392431	50	2.4	49	87	4	173	17	24	24	33	1.97
38392341--38392420	25	3.2	25	68	7	81	15	23	25	36	1.93
38393155--38393327	73	2.4	73	84	0	220	24	30	24	21	1.99
38393748--38393854	53	2.0	52	92	1	178	34	19	14	31	1.91
38394665--38394700	18	2.0	18	88	0	54	27	16	5	50	1.68
38395681--38398301	848	3.0	848	92	5	4136	29	20	18	30	1.97
38396644--38398497	927	2.0	927	99	0	3699	29	21	18	30	1.97
38398454--38398732	125	2.2	124	89	0	405	39	17	15	27	1.90
38399295--38399362	25	2.5	26	80	15	77	58	2	5	32	1.37
38401669--38401702	18	1.9	18	88	5	52	52	2	8	35	1.47
38402260--38402291	16	2.0	16	93	0	55	65	0	0	34	0.93
38404074--38404151	24	3.1	25	73	10	79	55	0	2	42	1.13
38404421--38404514	10	9.5	10	69	19	56	25	1	2	71	1.04
38404431--38404513	30	2.9	28	79	15	89	24	1	2	72	1.04
38404441--38404516	18	4.1	17	75	20	64	25	1	2	71	1.07
38404401--38404513	20	5.5	20	73	14	70	25	0	1	71	1.01
38405019--38405058	21	2.0	21	95	5	73	50	0	2	47	1.14
38405095--38405179	9	9.2	9	72	10	55	49	1	4	44	1.30
38405134--38405206	19	3.8	19	80	8	69	52	1	4	42	1.29
38405114--38405197	9	9.2	9	73	2	51	52	1	4	41	1.30
38405416--38405464	23	2.1	23	85	7	64	32	4	0	63	1.13
38405530--38405599	11	6.7	11	70	23	62	40	0	2	57	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38405528--38405599	19	3.5	19	80	12	81	40	0	2	56	1.13
38405525--38405606	9	8.2	9	69	28	51	37	0	2	59	1.11
38408462--38408499	20	1.9	20	84	10	51	57	0	2	39	1.12
38409344--38409380	18	2.1	18	100	0	74	10	21	10	56	1.64
38410589--38410667	41	1.9	42	84	7	108	30	10	15	44	1.79
38411974--38412025	20	2.8	18	81	13	61	38	0	5	55	1.24
38423493--38423536	19	2.3	19	88	7	63	72	4	0	22	1.02
38429403--38429502	50	2.0	51	82	5	123	35	16	20	29	1.94
38429594--38429655	27	2.3	28	86	5	83	32	9	29	29	1.89
38429754--38429821	27	2.5	27	82	2	73	41	13	26	19	1.88

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