genome.fa.s7.2.7.7.80.10.50.1000.93.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_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  100348136

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   280   281   282   283   284   285   286   287   288   
          289   290   

This is table  93  of  290  ( 34714 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)
31255118--31255161	3	14.7	3	100	0	88	31	0	0	68	0.90
31255647--31255696	25	2.0	25	100	0	100	28	28	16	28	1.97
31256511--31256606	45	2.1	46	86	7	133	45	3	7	43	1.47
31259141--31259165	13	1.9	13	100	0	50	84	0	16	0	0.63
31260106--31260415	162	1.9	163	90	2	491	35	15	13	35	1.87
31261149--31261271	45	2.8	43	81	8	124	38	17	19	24	1.93
31263278--31263322	22	2.1	21	84	15	58	33	0	4	62	1.15
31263509--31263548	20	2.0	20	85	5	53	50	7	2	40	1.44
31269573--31269625	16	3.3	16	76	10	63	16	24	1	56	1.50
31274987--31275022	18	2.0	18	94	0	63	8	38	0	52	1.32
31276698--31276735	2	19.0	2	100	0	76	0	50	0	50	1.00
31285462--31285630	88	1.9	88	90	2	268	24	24	10	40	1.86
31288630--31288718	43	2.1	43	93	4	153	29	31	13	24	1.93
31291001--31291046	23	2.0	23	84	12	60	45	10	6	36	1.65
31291008--31291052	23	2.0	23	82	8	56	40	13	8	37	1.76
31292420--31292544	62	2.0	62	95	0	223	32	13	6	48	1.68
31293616--31293761	73	2.0	73	89	2	222	21	28	10	39	1.87
31299140--31299185	23	2.0	23	84	12	60	45	10	6	36	1.65
31299147--31299191	23	2.0	23	82	8	56	40	13	8	37	1.76
31301502--31301634	66	2.0	66	89	2	205	22	27	9	40	1.85
31301648--31301764	59	2.0	59	91	0	189	29	15	6	48	1.70
31302975--31303026	25	2.1	25	100	0	104	19	38	13	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31304810--31304848	13	3.0	13	96	0	69	35	0	15	48	1.45
31307769--31307899	55	2.4	55	84	0	172	19	22	34	22	1.97
31310431--31310548	58	2.0	58	83	3	148	37	17	22	22	1.94
31313593--31313630	19	2.0	19	100	0	76	21	21	21	36	1.95
31315052--31315091	21	1.9	21	84	0	53	57	12	2	27	1.48
31316028--31316142	29	4.0	29	79	3	126	26	31	13	29	1.93
31316030--31316142	58	2.0	57	87	1	163	25	30	13	30	1.94
31316339--31316381	8	5.4	8	80	0	50	4	16	23	55	1.59
31316343--31316381	16	2.4	16	100	0	78	5	17	25	51	1.66
31324529--31324559	12	2.5	13	94	5	55	32	16	0	51	1.44
31331271--31331371	51	2.0	51	98	0	193	35	29	7	26	1.85
31338311--31338383	31	2.4	31	83	4	94	50	8	6	34	1.59
31339658--31339707	19	2.8	17	82	11	64	36	10	18	36	1.84
31339679--31339736	22	2.7	21	86	7	80	34	3	18	43	1.68
31344787--31344838	19	2.9	17	81	10	68	40	7	17	34	1.78
31344796--31344861	22	3.1	21	81	12	73	36	4	18	40	1.71
31344809--31344863	22	2.5	23	88	5	78	34	3	18	43	1.67
31348107--31348133	12	2.2	12	100	0	54	51	7	0	40	1.30
31348614--31348791	27	6.6	27	82	3	196	26	15	27	29	1.96
31348615--31348770	82	1.9	81	86	3	224	26	16	27	29	1.96
31348611--31348791	82	2.2	81	82	2	220	27	16	27	29	1.96
31357317--31357494	27	6.6	27	83	3	205	26	15	28	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31357318--31357473	82	1.9	81	88	3	233	26	15	28	29	1.96
31357314--31357494	82	2.2	81	83	2	229	27	15	27	29	1.96
31363894--31363973	33	2.4	34	85	4	108	35	7	12	45	1.70
31363898--31363988	33	2.7	33	81	5	85	34	9	13	42	1.77
31369684--31369763	33	2.4	34	85	4	108	35	7	12	45	1.70
31369688--31369778	33	2.7	33	81	5	85	34	9	13	42	1.77
31371618--31371812	101	1.9	101	88	4	295	30	17	24	28	1.97
31371615--31371842	101	2.3	101	83	3	271	31	17	24	26	1.97
31386074--31386174	27	3.7	27	78	0	85	28	19	17	33	1.95
31388102--31388234	48	2.8	48	91	0	203	28	26	20	24	1.99
31388214--31388333	37	3.2	37	80	9	136	25	24	19	30	1.98
31393953--31394371	48	8.6	48	93	4	732	31	26	6	35	1.82
31394341--31394487	47	3.1	47	84	0	177	27	29	10	33	1.89
31400654--31400704	27	2.0	25	84	7	66	23	11	7	56	1.61
31402517--31402775	42	6.2	41	77	5	225	39	17	18	24	1.91
31402517--31402775	84	3.1	83	76	6	265	39	17	18	24	1.91
31402544--31402771	126	1.8	126	83	7	311	39	17	17	24	1.91
31404397--31404710	27	11.7	26	84	4	315	31	10	20	37	1.86
31404397--31404710	81	3.9	81	84	2	364	31	10	20	37	1.86
31407327--31407414	27	3.3	27	88	4	117	31	27	17	23	1.97
31407941--31408003	27	2.3	27	83	0	72	28	17	15	38	1.91
31407982--31408266	27	10.7	27	80	6	305	30	10	21	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31411463--31411551	27	3.3	27	88	0	124	29	14	16	39	1.89
31411477--31411843	27	13.6	27	80	4	323	30	10	20	38	1.86
31427011--31427104	49	1.9	49	93	4	163	42	2	25	29	1.67
31427492--31427562	35	2.0	35	88	0	106	43	8	23	23	1.81
31434327--31434388	29	2.1	29	85	5	81	46	0	8	45	1.32
31435887--31436064	27	6.6	27	85	3	214	30	28	14	26	1.95
31435908--31436063	82	1.9	81	89	3	242	30	28	14	26	1.95
31440665--31440795	46	2.8	46	84	3	165	32	26	19	20	1.97
31442380--31442494	43	2.7	43	82	6	162	32	24	13	30	1.93
31446090--31446265	47	3.8	46	77	16	191	28	30	19	21	1.98
31446099--31446269	93	1.8	94	93	1	299	28	29	19	21	1.98
31446142--31446285	46	3.1	44	74	15	132	29	28	19	22	1.98
31452794--31452910	29	4.1	29	92	1	191	25	14	30	29	1.95
31461289--31461364	39	1.9	40	91	2	127	25	28	23	22	1.99
31467293--31467498	40	5.2	40	82	1	245	25	26	24	23	2.00
31467293--31467498	79	2.6	80	85	3	265	25	26	24	23	2.00
31479372--31479491	42	2.8	42	81	5	143	32	26	10	30	1.89
31487078--31487120	16	2.7	16	88	0	59	53	20	18	6	1.67
31487331--31487447	29	4.1	29	89	1	182	23	13	32	29	1.93
31490324--31490495	93	1.8	93	92	0	290	28	30	20	20	1.98
31490316--31490491	46	3.8	46	78	10	196	29	29	19	21	1.98
31494585--31494624	21	1.9	21	94	0	71	40	12	15	32	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31501292--31501420	40	3.3	39	84	3	159	42	30	15	11	1.82
31511899--31512066	40	4.2	40	82	8	148	27	27	20	24	1.99
31511934--31512119	80	2.3	80	83	9	229	27	27	20	23	1.99
31511936--31512119	40	4.6	40	83	7	205	27	27	21	23	1.99
31513343--31513487	76	1.9	76	94	0	254	35	33	10	21	1.87
31515406--31515568	43	3.8	42	75	11	136	34	26	15	23	1.95
31517925--31518010	43	2.0	43	95	0	154	34	5	40	18	1.75
31525870--31525952	41	2.0	41	95	0	148	33	4	42	19	1.72
31540709--31540970	46	5.7	44	75	13	183	25	27	17	29	1.98
31545728--31545809	40	2.0	41	95	2	148	39	18	9	32	1.83
31546627--31546694	34	2.0	35	82	5	86	27	22	20	29	1.98
31546726--31546768	22	1.9	23	90	4	70	23	53	2	20	1.57
31558023--31558079	30	1.9	30	85	7	80	43	12	8	35	1.73
31564407--31564543	43	3.2	41	77	10	107	27	16	25	29	1.97
31566773--31567035	40	6.6	40	88	3	316	26	27	20	24	1.99
31566967--31567044	40	1.9	41	82	10	97	26	28	21	23	1.99
31573986--31574016	15	2.1	15	93	0	53	19	0	25	54	1.44
31577770--31577885	29	4.1	29	79	6	121	26	30	13	29	1.94
31577770--31577881	58	1.9	57	82	5	136	25	31	14	28	1.95
31578537--31578589	25	2.1	25	96	0	97	43	15	18	22	1.87
31578925--31579116	95	2.0	95	97	0	366	13	39	6	41	1.69
31583917--31584064	40	3.7	40	93	0	251	32	20	27	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31585617--31585774	84	1.9	84	84	2	210	25	17	25	31	1.97
31585618--31585774	43	3.7	42	79	6	156	26	17	26	30	1.97
31586762--31586821	31	1.9	31	100	0	120	26	1	25	46	1.62
31589313--31589649	43	7.9	43	87	3	457	29	29	16	24	1.97
31589313--31589649	85	4.0	85	87	1	462	29	29	16	24	1.97
31595087--31595179	7	13.1	7	80	6	89	41	41	0	16	1.48
31595145--31595191	15	3.2	15	87	3	69	38	46	0	14	1.45
31595354--31595426	7	10.4	7	82	5	67	42	41	0	16	1.48
31600009--31600088	15	5.4	15	76	7	74	12	16	12	58	1.63
31600000--31600087	30	3.0	30	78	8	81	12	15	14	56	1.67

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   280   281   282   283   284   285   286   287   288   
          289   290