genome.fa.s4.2.7.7.80.10.50.1000.102.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  102  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)
35219853--35219933	41	2.0	41	100	0	162	33	4	17	44	1.70
35237164--35237215	26	2.0	26	100	0	104	34	7	7	50	1.60
35237939--35238070	60	2.2	59	86	4	185	40	8	15	35	1.78
35254057--35254084	14	2.0	14	100	0	56	35	0	28	35	1.58
35255798--35255832	18	1.9	18	94	0	61	65	14	5	14	1.44
35256704--35256811	36	3.0	36	80	1	110	39	14	8	37	1.77
35256738--35256885	18	7.7	19	69	13	81	40	14	10	33	1.81
35257113--35257137	12	2.1	12	100	0	50	40	20	24	16	1.91
35257263--35257310	19	2.5	20	74	16	55	33	8	0	58	1.28
35257323--35257360	20	1.9	20	89	10	60	44	15	0	39	1.47
35258893--35258965	18	3.9	19	78	5	78	46	15	8	30	1.74
35258896--35258975	18	4.3	18	73	7	54	43	16	8	31	1.78
35259188--35259212	12	2.1	12	100	0	50	40	20	24	16	1.91
35259338--35259386	20	2.4	21	73	10	57	32	8	0	59	1.27
35263513--35263568	26	2.2	26	87	6	78	69	1	3	25	1.14
35263502--35263560	17	3.6	16	76	21	59	66	1	3	28	1.18
35264035--35264083	3	16.3	3	91	0	80	69	2	0	28	1.00
35266791--35266858	24	3.1	24	65	30	69	41	19	5	33	1.75
35272847--35272887	21	2.0	21	90	0	64	19	29	21	29	1.98
35277100--35277135	18	1.9	19	88	5	56	66	2	0	30	1.06
35297589--35297636	16	3.1	16	82	14	64	64	0	33	2	1.05
35298146--35298201	16	3.5	16	72	0	58	71	5	3	19	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35298239--35298922	151	4.6	150	90	4	1054	58	7	6	27	1.51
35298239--35298922	298	2.3	296	91	4	1103	58	7	6	27	1.51
35303350--35303404	28	1.9	29	85	3	76	60	0	3	36	1.15
35303856--35303893	19	2.1	19	85	5	51	55	15	23	5	1.61
35309412--35309508	49	2.0	49	95	0	144	44	6	13	36	1.69
35310133--35311704	786	2.0	786	98	0	3045	34	12	14	37	1.85
35312756--35312819	32	2.0	32	100	0	128	34	9	9	46	1.68
35317460--35317521	32	1.9	32	100	0	124	35	8	9	46	1.66
35319514--35319566	20	2.6	20	85	8	72	30	33	7	28	1.85
35320172--35320206	14	2.5	14	90	0	61	45	0	0	54	0.99
35321565--35321669	28	3.8	28	71	14	83	34	0	1	63	1.05
35321636--35321685	16	2.9	16	80	11	55	30	4	0	66	1.10
35321638--35321685	17	2.7	18	78	15	55	29	4	0	66	1.10
35321609--35321670	26	2.3	28	80	5	83	35	0	0	64	0.94
35321609--35321679	26	2.7	26	76	8	72	33	1	0	64	1.02
35321808--35321856	24	2.0	24	88	0	71	38	0	0	61	0.96
35323672--35323724	25	2.1	25	100	0	106	50	7	7	33	1.59
35326510--35327669	578	2.0	579	97	0	2214	28	20	16	34	1.94
35329623--35329651	11	2.7	11	94	5	51	82	0	0	17	0.66
35330823--35330857	17	2.1	17	94	0	61	20	11	11	57	1.64
35333439--35333472	16	2.1	17	88	5	52	38	0	0	61	0.96
35334669--35334712	3	14.7	3	100	0	88	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35334666--35334724	12	5.4	11	84	11	50	66	1	1	30	1.12
35335027--35335089	33	1.9	33	100	0	126	36	9	12	41	1.76
35341610--35341641	11	2.9	11	90	0	55	31	0	12	56	1.37
35344073--35344099	14	1.9	14	100	0	54	25	0	0	74	0.83
35345080--35345131	25	2.2	23	80	10	59	40	11	5	42	1.65
35349510--35349569	31	1.9	31	89	0	93	13	31	35	20	1.91
35355110--35355143	3	11.3	3	100	0	68	0	32	0	67	0.91
35356328--35356352	12	2.1	12	100	0	50	28	32	8	32	1.86
35359810--35359848	14	2.8	14	84	0	51	20	2	30	46	1.64
35362812--35362867	8	7.0	8	83	0	67	37	1	28	32	1.68
35362812--35362872	32	1.9	32	86	0	86	37	1	27	32	1.67
35363667--35363815	48	3.2	48	68	12	148	34	6	4	55	1.43
35364092--35364198	9	11.7	9	72	13	76	43	14	1	40	1.55
35364098--35364198	18	5.5	18	74	13	89	44	13	1	39	1.56
35369268--35369296	14	2.1	14	93	6	51	34	0	10	55	1.34
35370014--35370079	31	2.1	31	91	0	105	15	10	21	53	1.72
35370153--35370245	43	2.2	43	84	3	116	32	24	18	24	1.97
35372050--35372078	14	2.1	14	100	0	58	58	0	6	34	1.25
35376900--35376970	29	2.4	30	80	2	81	32	14	8	45	1.74
35376900--35377066	30	5.7	29	71	10	88	34	15	8	41	1.77
35377285--35377328	17	2.7	16	77	19	54	63	0	36	0	0.95
35377637--35377736	22	4.0	26	76	18	83	78	0	20	2	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35377633--35377722	37	2.4	38	85	14	118	76	0	21	2	0.89
35377633--35377730	40	2.5	41	81	9	123	77	0	20	2	0.87
35377636--35377734	9	10.6	9	73	18	69	78	0	19	2	0.84
35378059--35378559	17	28.1	18	69	16	192	29	12	10	46	1.76
35378130--35378570	17	25.1	17	70	13	250	29	12	10	46	1.75
35378204--35378250	15	2.9	15	84	12	58	31	8	10	48	1.68
35378170--35378616	52	8.5	51	73	10	199	31	11	10	47	1.73
35378059--35378617	35	15.8	34	71	13	240	31	12	10	46	1.74
35378153--35378570	87	4.8	87	74	10	246	30	12	10	47	1.75
35389485--35389562	29	2.7	28	84	11	104	25	14	30	29	1.94
35389515--35389842	174	1.9	174	96	0	602	30	14	24	31	1.94
35394309--35394414	30	3.5	31	86	6	139	35	18	11	33	1.87
35405092--35405148	13	4.4	12	74	12	51	59	5	3	31	1.36
35405673--35405709	13	2.8	13	87	4	56	67	0	2	29	1.04
35407403--35407984	206	2.8	205	89	3	850	28	21	18	30	1.97
35411316--35411583	133	2.0	133	100	0	536	26	23	13	36	1.92
35417738--35417787	15	3.5	15	82	15	61	42	10	24	24	1.85
35423840--35423868	12	2.3	13	94	5	51	68	0	0	31	0.89
35424420--35424448	12	2.3	13	94	5	51	68	0	0	31	0.89
35423533--35424695	580	2.0	580	100	0	2326	52	8	8	29	1.63
35424970--35425051	16	5.1	16	73	18	55	62	1	3	32	1.21
35425007--35425049	13	3.2	13	90	3	68	65	0	2	32	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35425003--35425094	29	3.0	30	73	19	91	61	0	5	32	1.18
35431056--35431102	21	2.3	20	85	3	58	12	34	27	25	1.92
35443076--35443301	44	5.1	44	87	2	328	30	15	26	26	1.96
35444864--35444910	12	3.9	11	86	13	58	34	2	0	63	1.06
35444879--35444924	21	2.2	21	88	7	67	34	4	0	60	1.16
35453292--35453425	61	2.2	61	83	0	178	41	12	5	40	1.68
35456615--35456651	15	2.6	15	83	8	51	48	0	0	51	1.00
35457625--35457673	16	3.0	16	75	16	55	69	0	2	28	1.00
35463902--35464025	44	2.9	43	74	10	108	25	16	25	32	1.96
35480922--35481145	40	5.6	40	91	1	308	24	20	28	26	1.99
35480883--35481145	80	3.3	80	85	3	318	23	20	28	26	1.99
35480883--35481145	120	2.2	120	82	4	318	23	20	28	26	1.99
35490953--35491191	45	5.3	45	81	4	212	23	22	16	37	1.93
35491183--35491338	33	4.7	33	69	15	81	23	26	18	31	1.98
35506145--35506245	26	3.9	26	84	5	132	36	23	4	34	1.77
35512254--35512361	26	4.2	26	95	2	182	36	25	7	31	1.83
35519357--35519414	26	2.2	26	96	0	107	36	22	5	36	1.77
35521488--35521580	43	2.2	43	84	3	116	24	18	24	32	1.97
35521654--35521719	31	2.1	31	91	0	105	53	21	10	15	1.72
35529901--35529978	29	2.7	28	84	11	104	25	14	30	29	1.94
35529931--35530258	174	1.9	174	97	0	620	29	14	25	30	1.95
35534385--35534461	38	2.0	38	94	0	136	37	19	11	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35535289--35535348	22	2.9	20	73	22	61	71	5	11	11	1.28
35537392--35537416	13	1.9	13	100	0	50	84	0	0	16	0.63
35540307--35540340	14	2.4	14	90	0	50	41	11	20	26	1.87
35542451--35542519	19	3.6	19	70	14	61	56	2	7	33	1.42
35543700--35543733	17	2.0	17	100	0	68	23	35	0	41	1.55
35543935--35544360	88	5.0	85	70	15	284	37	18	15	28	1.91
35544107--35544167	30	2.0	30	90	6	97	42	27	9	19	1.83
35544318--35544856	77	6.9	78	79	10	381	33	18	17	30	1.94
35544374--35544828	152	2.8	165	81	8	467	32	18	17	30	1.95
35544529--35544875	77	4.6	74	85	3	410	33	19	17	30	1.94

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