genome.fa.s8.2.7.7.80.10.50.1000.165.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_chr9
Parameters: 2 7 7 80 10 50 1000
Length:  91122320

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   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   

This is table  165  of  279  ( 33431 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)
54643487--54643524	18	2.2	18	85	4	51	21	0	7	71	1.11
54645112--54645155	21	2.1	21	91	0	70	20	29	20	29	1.98
54649198--54649256	30	2.0	30	89	0	91	61	10	1	27	1.38
54649287--54649337	22	2.3	22	80	6	59	64	7	5	21	1.41
54649460--54649500	19	2.2	19	86	4	57	29	4	2	63	1.28
54650776--54651613	420	2.0	420	98	0	1631	28	15	26	29	1.96
54651457--54652203	373	2.0	373	99	0	1467	30	17	27	24	1.97
54679213--54679269	18	3.2	18	94	0	96	29	17	26	26	1.97
54690567--54690604	18	2.1	18	100	0	76	55	10	28	5	1.56
54692183--54692216	17	2.1	17	88	5	52	17	11	20	50	1.77
54694007--54694036	11	2.7	11	94	0	51	63	0	3	33	1.11
54694455--54694498	21	2.1	21	82	0	52	65	6	6	20	1.39
54696371--54696465	29	3.4	27	78	12	79	41	1	1	56	1.13
54696410--54696468	5	12.0	5	85	10	86	37	1	0	61	1.07
54697539--54697563	12	2.1	12	100	0	50	16	24	20	40	1.91
54699715--54699744	5	6.0	5	100	0	60	60	0	0	40	0.97
54700434--54700470	19	1.9	19	88	0	56	27	5	2	64	1.28
54702610--54702634	11	2.3	11	100	0	50	36	0	0	64	0.94
54703146--54703185	18	2.2	19	90	4	64	55	5	0	40	1.22
54703146--54703193	19	2.5	19	86	10	62	54	6	0	39	1.26
54703182--54703246	31	2.0	33	85	5	89	56	3	0	40	1.15
54704470--54704503	3	11.3	3	100	0	68	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54704638--54704670	15	2.2	15	94	0	57	63	0	0	36	0.95
54724142--54724184	22	2.0	22	100	0	86	13	11	18	55	1.68
54726253--54726320	33	2.1	33	97	0	127	36	7	0	55	1.28
54726253--54726307	16	3.2	19	70	24	66	41	7	0	50	1.30
54730145--54730213	34	2.0	34	97	0	129	30	13	15	40	1.86
54734208--54734241	6	5.7	6	100	0	68	35	0	14	50	1.44
54739067--54739137	23	3.1	22	76	20	58	32	0	4	63	1.14
54743083--54743146	3	21.3	3	100	0	128	65	0	34	0	0.93
54746504--54746567	25	2.5	25	79	2	74	62	0	9	28	1.26
54746902--54746949	21	2.4	20	80	10	53	14	10	8	66	1.43
54756921--54756963	20	2.2	20	100	0	86	53	4	13	27	1.60
54763736--54763781	23	2.0	23	83	8	58	45	8	4	41	1.55
54763919--54763994	30	2.6	29	83	10	84	55	3	1	39	1.27
54772339--54772383	22	2.1	21	83	4	54	15	8	13	62	1.54
54773613--54773672	31	1.9	32	86	3	86	53	0	1	45	1.10
54775254--54775286	7	4.7	7	85	14	50	12	0	0	87	0.53
54787362--54787403	20	2.0	21	86	13	61	50	0	0	50	1.00
54787784--54787824	21	2.0	20	85	4	55	51	31	7	9	1.62
54789364--54789410	24	2.0	23	84	12	60	31	8	2	57	1.41
54796289--54796556	3	89.3	3	100	0	536	0	33	0	66	0.92
54801725--54801773	22	2.1	24	82	14	59	61	4	14	20	1.49
54820494--54820558	25	2.6	25	80	4	78	29	18	27	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54820536--54820731	25	8.0	24	70	14	116	34	20	26	18	1.96
54820536--54820679	48	2.9	48	76	13	125	33	21	25	19	1.97
54822938--54822987	21	2.5	19	72	27	50	50	0	2	48	1.12
54825530--54825632	22	4.4	24	79	10	99	17	23	18	40	1.91
54825542--54825632	47	2.0	46	91	6	150	18	24	18	38	1.93
54828048--54828097	21	2.5	19	72	27	50	50	0	2	48	1.12
54846367--54846400	16	2.1	16	88	0	50	50	14	17	17	1.79
54849202--54849242	21	2.0	21	90	0	64	29	21	29	19	1.98
54858947--54859005	30	2.0	30	100	0	118	27	6	15	50	1.68
54871478--54871516	18	2.2	18	85	0	51	33	0	5	61	1.18
54877544--54877576	18	1.9	17	88	11	50	48	0	9	42	1.35
54880544--54880753	52	4.2	49	76	9	194	21	16	31	30	1.95
54894679--54894717	18	2.0	20	85	9	55	33	5	7	53	1.51
54895045--54895084	21	1.9	21	89	0	62	37	2	2	57	1.26
54895157--54895207	24	2.1	25	85	3	68	35	0	7	56	1.28
54901533--54901641	38	2.8	40	75	8	107	30	25	20	23	1.98
54913036--54913171	43	3.2	43	65	19	111	34	25	17	22	1.96
54912857--54913199	86	4.0	87	85	4	374	30	22	22	25	1.99
54915048--54915249	109	1.9	109	93	2	352	29	17	19	33	1.95
54915983--54916038	22	2.5	22	85	0	67	23	3	8	64	1.38
54920386--54920412	12	2.2	12	100	0	54	51	0	0	48	1.00
54930471--54930518	22	2.4	19	77	16	51	72	4	2	20	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54960534--54960574	21	2.0	21	90	0	64	29	21	29	19	1.98
54969090--54969126	3	12.3	3	94	0	65	32	29	0	37	1.58
54973384--54973470	43	2.0	43	100	0	174	52	6	4	35	1.49
54975876--54975901	7	3.7	7	100	0	52	42	0	30	26	1.56
54975821--54976058	58	4.1	58	76	16	249	33	13	20	33	1.91
54975877--54975979	51	2.0	51	90	0	161	32	11	22	33	1.90
54975826--54976061	116	2.1	109	87	7	330	33	12	20	33	1.91
54978495--54978763	46	5.8	46	88	0	342	21	24	13	41	1.88
54978505--54978767	92	2.9	92	89	0	382	21	24	12	41	1.88
54978490--54978753	138	1.9	138	87	1	386	21	23	14	40	1.89
54990219--54990259	21	2.0	21	90	0	64	19	29	21	29	1.98
54994340--54994394	19	3.1	19	76	15	62	60	3	0	36	1.15
54999193--54999234	21	2.0	21	85	4	57	38	0	0	61	0.96
55011293--55011357	25	2.9	23	80	15	66	66	7	0	26	1.19
55011319--55011357	19	2.0	20	90	5	62	71	7	0	20	1.10
55012148--55012206	30	2.0	30	86	6	84	28	25	10	35	1.89
55013698--55013810	42	2.7	42	83	0	127	38	19	24	17	1.93
55013748--55013815	21	3.2	21	76	0	73	47	19	19	14	1.83
55016120--55016179	31	1.9	32	96	3	113	55	3	16	25	1.57
55018976--55019073	23	4.3	23	90	2	162	31	26	21	20	1.98
55018983--55019071	45	2.0	45	95	0	160	31	26	22	19	1.97
55026348--55026445	23	4.3	23	90	2	162	31	26	21	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55026355--55026443	45	2.0	45	95	0	160	31	26	22	19	1.97
55029711--55029894	50	3.7	50	82	7	214	27	13	26	32	1.93
55029708--55029894	99	1.9	100	84	3	252	27	12	26	32	1.93
55029858--55029968	42	2.6	42	84	5	143	30	9	26	34	1.87
55032039--55032076	18	2.1	18	90	0	58	18	18	28	34	1.95
55036908--55036933	5	5.2	5	100	0	52	38	0	0	61	0.96
55048480--55048520	21	2.0	21	85	0	55	19	0	60	19	1.36
55048515--55048988	48	9.9	45	69	14	252	21	3	50	24	1.64
55048527--55048989	96	4.8	96	90	0	683	21	3	50	24	1.64
55048975--55049004	15	2.0	15	93	0	51	23	3	40	33	1.71
55052464--55052516	23	2.3	23	96	0	97	16	26	13	43	1.85
55062210--55062243	3	11.3	3	93	0	59	32	0	2	64	1.08
55076623--55076670	25	2.0	23	84	8	60	37	12	0	50	1.41
55077789--55077837	24	2.0	24	96	0	89	30	22	24	22	1.99
55079966--55080486	132	4.0	132	85	4	633	27	19	19	34	1.96
55079964--55080482	263	2.0	264	83	4	663	27	19	19	34	1.95
55082896--55082929	15	2.3	15	95	5	61	61	0	32	5	1.20
55084451--55084585	20	6.8	20	75	1	101	40	14	5	40	1.68
55084451--55084585	40	3.4	40	73	2	119	40	14	5	40	1.68
55084610--55084651	20	2.2	20	83	12	52	30	14	0	54	1.40
55084834--55084910	40	1.9	39	89	7	120	37	14	5	42	1.68
55084765--55084910	60	2.4	60	78	4	143	39	15	5	39	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55084736--55084910	20	8.8	19	71	7	107	38	15	6	40	1.73
55084947--55085051	40	2.7	37	77	11	104	40	22	3	33	1.72
55084830--55085184	143	2.5	144	78	7	389	39	20	4	36	1.73
55085106--55085218	60	1.9	60	83	0	145	38	19	5	36	1.75
55084965--55085221	20	12.7	20	68	8	74	39	21	4	35	1.73
55085488--55085533	20	2.3	20	80	0	56	41	13	8	36	1.75
55085527--55085601	20	3.8	20	71	13	64	38	12	6	42	1.68
55086700--55086736	17	2.1	18	90	5	58	45	0	0	54	1.00
55088667--55088706	20	2.0	20	100	0	80	35	25	25	15	1.94
55096434--55096461	3	9.3	3	100	0	56	67	0	32	0	0.91

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   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279