genome.fa.s2.2.7.7.80.10.50.1000.128.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_chr1
Parameters: 2 7 7 80 10 50 1000
Length:  106989029

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   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   
          321   322   

This is table  128  of  322  ( 38559 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)
41842643--41842714	35	2.1	35	86	0	99	37	9	25	27	1.87
41845781--41845814	5	7.2	5	87	12	54	20	38	17	23	1.93
41857764--41857856	42	2.2	43	84	1	125	16	27	35	20	1.94
41857843--41861598	170	22.2	171	82	5	3506	17	32	31	18	1.94
41861123--41861183	32	1.9	32	89	0	95	19	42	26	11	1.85
41860996--41861316	159	2.0	159	84	2	412	17	34	30	17	1.94
41861155--41861595	43	10.4	42	75	4	314	17	32	31	18	1.94
41861316--41861595	84	3.3	85	74	6	201	17	32	32	17	1.94
41857843--41861627	255	14.9	255	84	4	3766	17	32	31	18	1.94
41866297--41866466	46	3.7	46	74	16	161	31	29	18	20	1.96
41866339--41866491	46	3.3	46	69	15	116	31	30	17	20	1.96
41872936--41873056	58	2.1	59	88	1	181	29	23	21	24	1.99
41873424--41873488	24	2.7	24	80	7	78	6	33	33	26	1.81
41873425--41873500	24	3.2	25	74	7	77	9	34	31	25	1.87
41873747--41874737	43	23.6	43	78	8	930	16	32	32	18	1.94
41873747--41874616	85	10.3	83	75	10	578	17	32	32	18	1.94
41873837--41873906	19	3.4	19	67	17	50	20	35	30	14	1.92
41873839--41874648	169	4.8	169	79	7	519	16	32	32	18	1.93
41874712--41874817	43	2.5	42	81	1	113	16	29	34	19	1.93
41881474--41881540	5	14.2	5	86	12	97	19	38	19	22	1.93
41881487--41881540	23	2.3	23	100	0	108	22	38	16	22	1.93
41882222--41882332	58	1.9	58	88	0	168	33	23	20	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41887710--41887775	25	2.7	24	92	2	105	21	34	10	33	1.88
41887713--41887783	24	2.9	23	85	10	88	22	33	9	33	1.87
41891079--41891157	6	13.3	6	72	10	56	67	2	6	24	1.27
41891107--41891157	19	2.7	19	96	0	93	66	0	9	23	1.21
41897611--41897828	101	2.1	101	87	0	301	25	16	25	32	1.96
41898058--41898112	27	2.0	27	100	0	110	30	18	10	40	1.85
41898062--41898116	16	3.7	17	67	32	54	29	18	10	41	1.84
41900201--41900372	87	2.0	87	82	4	213	23	18	15	43	1.88
41900188--41900360	43	4.0	43	82	4	179	23	17	16	42	1.89
41900296--41900440	43	3.4	43	82	1	157	28	14	16	40	1.88
41900441--41900553	43	2.6	43	78	10	131	30	14	17	38	1.89
41904556--41904686	47	2.8	47	84	0	181	35	27	14	22	1.93
41905650--41905701	26	2.0	26	100	0	104	46	15	0	38	1.46
41921250--41921285	15	2.3	15	95	4	63	22	41	8	27	1.82
41922988--41923073	45	1.9	45	87	0	127	38	23	11	26	1.89
41926663--41926705	18	2.4	18	84	0	59	53	11	0	34	1.37
41929418--41929530	43	2.7	42	84	5	138	27	17	23	30	1.97
41933252--41933366	43	2.7	43	90	0	185	30	24	19	26	1.98
41939783--41940000	40	5.5	40	92	1	350	26	27	21	24	1.99
41945574--41945602	13	2.1	14	93	6	51	55	10	0	34	1.34
41949623--41949670	23	2.1	23	100	0	96	29	25	16	29	1.97
41950687--41950797	9	12.0	9	74	15	84	36	0	17	46	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41950685--41950778	36	2.5	38	86	11	149	37	0	15	46	1.47
41955731--41956027	39	7.6	39	88	1	389	22	20	26	30	1.98
41958215--41958316	43	2.4	43	91	0	159	30	15	19	34	1.93
41960245--41960295	18	2.9	17	74	25	61	31	0	29	39	1.57
41960444--41960568	41	3.1	41	88	1	180	26	24	16	32	1.96
41960911--41960979	22	3.1	21	78	15	68	44	33	1	20	1.60
41960912--41960980	7	9.3	7	73	16	50	46	33	1	18	1.58
41960912--41960973	15	4.1	15	71	10	54	45	33	1	19	1.60
41961447--41961481	17	2.0	17	88	5	52	65	14	0	20	1.26
41961652--41961799	41	3.6	41	85	1	154	26	16	20	37	1.93
41963185--41963265	42	1.9	43	85	7	112	32	27	17	23	1.97
41968700--41968742	15	2.8	15	78	3	50	67	2	16	13	1.33
41970554--41970606	23	2.3	23	100	0	106	26	20	3	49	1.66
41971596--41971639	23	1.9	23	90	0	70	38	18	20	22	1.93
41979826--41979863	18	2.1	18	95	0	67	42	47	2	7	1.46
41979840--41979864	13	1.9	13	100	0	50	40	48	0	12	1.40
41979900--41979940	6	6.7	6	97	2	73	68	14	0	17	1.22
41979889--41979941	12	4.2	12	83	9	61	71	11	0	16	1.13
41979961--41980064	9	11.6	9	78	8	113	25	9	21	43	1.83
41979969--41980064	36	2.7	36	85	0	129	26	10	20	42	1.84
41988857--41988937	40	2.0	40	85	0	108	17	12	35	34	1.87
41992987--41993026	16	2.6	16	88	4	55	70	2	10	17	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41996491--41996539	25	2.0	25	83	0	62	38	10	18	32	1.84
42001891--42002073	48	3.8	48	83	1	224	26	18	28	26	1.98
42001897--42002070	96	1.8	96	86	2	251	27	17	28	26	1.98
42010973--42011022	25	2.0	25	100	0	100	32	8	24	36	1.84
42016689--42016722	17	1.9	18	94	5	61	14	17	41	26	1.88
42019645--42019800	41	3.9	41	74	8	160	22	26	16	34	1.95
42020230--42020270	13	3.4	13	74	19	52	31	2	14	51	1.56
42021478--42021637	41	3.9	41	84	0	212	17	17	27	37	1.92
42021603--42021666	26	2.5	25	87	5	101	14	18	26	40	1.89
42021577--42021770	67	2.9	67	92	0	307	19	15	24	39	1.91
42021670--42021733	26	2.5	25	82	5	83	17	17	25	40	1.90
42021695--42021781	41	2.1	42	83	10	108	20	18	24	36	1.95
42035115--42035261	43	3.4	43	86	0	195	34	19	12	34	1.90
42044265--42044302	17	2.2	17	90	9	60	21	18	34	26	1.96
42044757--42044821	6	11.2	6	82	9	73	67	3	1	27	1.14
42044766--42044823	25	2.4	25	88	2	82	67	3	3	25	1.22
42044766--42044852	6	14.3	6	78	7	50	70	2	4	22	1.18
42044823--42044860	19	2.0	20	84	5	51	73	2	7	15	1.17
42046422--42046454	12	2.8	12	90	9	50	75	3	15	6	1.11
42052700--42052726	13	2.1	13	100	0	54	40	22	0	37	1.54
42054420--42054489	27	2.5	28	93	2	115	30	30	14	25	1.95
42062265--42062346	39	2.1	39	95	0	146	20	24	31	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42083501--42083662	45	3.6	45	86	0	227	28	26	20	24	1.99
42090036--42090073	16	2.3	17	90	4	60	52	36	2	7	1.45
42091312--42091362	8	6.4	8	75	8	50	50	17	21	9	1.74
42091312--42091362	24	2.1	24	92	0	84	50	17	21	9	1.74
42091573--42091687	29	4.0	29	84	6	137	26	14	29	28	1.95
42091586--42091696	58	1.9	58	87	1	161	26	15	30	27	1.96
42095770--42095825	15	3.7	15	81	9	78	58	10	17	12	1.61
42098849--42099202	47	7.6	47	71	19	303	30	27	18	23	1.98
42098803--42099251	93	4.8	93	97	0	817	30	27	19	23	1.98
42099672--42099732	30	2.0	30	87	0	86	27	24	8	39	1.84
42101378--42101718	114	3.0	114	97	0	639	34	11	17	37	1.85
42104557--42104624	25	2.6	27	75	13	70	16	17	23	42	1.88
42111405--42111453	21	2.3	21	89	0	71	12	28	26	32	1.92
42114884--42114994	56	2.0	56	98	0	213	36	9	31	22	1.87
42119559--42119752	39	4.9	40	85	2	178	28	26	23	21	1.99
42134365--42134497	56	2.4	56	89	5	198	30	14	24	31	1.94
42137842--42137873	14	2.4	13	90	10	55	62	12	6	18	1.50
42140067--42140108	6	7.0	6	78	10	50	76	2	0	21	0.90
42150769--42150918	72	2.1	72	94	0	264	30	18	17	34	1.94
42152558--42152905	54	6.4	54	73	11	210	36	18	8	35	1.82
42152563--42152989	27	15.7	27	77	9	178	37	18	8	35	1.82
42152604--42152915	81	3.9	82	73	9	257	35	19	8	36	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42153036--42153113	27	2.9	27	77	11	88	35	21	20	21	1.96
42154274--42154321	25	1.9	25	86	0	69	35	22	14	27	1.93
42154358--42154408	20	2.5	20	93	0	84	35	11	21	31	1.90
42154455--42154623	25	7.0	24	88	6	220	27	21	23	27	1.99
42154454--42154622	49	3.5	47	85	8	216	28	21	23	26	1.99
42154815--42154878	31	2.1	31	84	0	83	35	15	21	26	1.94
42157040--42157096	29	2.0	29	96	0	105	24	21	35	19	1.96
42157158--42157714	278	2.0	278	98	0	1078	22	18	31	27	1.97
42157890--42157996	27	4.0	27	84	4	128	38	19	10	31	1.85
42157985--42158845	27	31.9	27	98	0	1641	29	15	7	47	1.72

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   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   
          321   322