genome.fa.s25.2.7.7.80.10.50.1000.90.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_chr12
Parameters: 2 7 7 80 10 50 1000
Length:  101062743

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   

This is table  90  of  297  ( 35593 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)
32460618--32460668	21	2.4	21	80	0	57	35	41	17	5	1.74
32463878--32464637	127	6.0	126	90	1	1108	28	16	16	39	1.90
32463878--32464635	253	3.0	253	92	0	1178	28	16	15	39	1.90
32464776--32465028	30	8.4	30	69	24	151	41	18	0	39	1.56
32464752--32465020	34	8.7	33	69	22	167	42	18	1	37	1.58
32464696--32464828	35	4.0	34	67	19	82	42	21	0	35	1.58
32464857--32464897	22	1.9	22	95	5	75	36	14	0	48	1.44
32464857--32464902	21	2.2	21	88	7	67	39	15	0	45	1.46
32464858--32464905	22	2.2	21	88	3	69	39	18	0	41	1.51
32464736--32465020	147	1.9	150	92	2	477	41	19	1	37	1.58
32464795--32464973	85	2.1	84	89	3	270	42	18	0	38	1.55
32464878--32465020	64	2.2	64	91	2	225	42	19	1	36	1.60
32465654--32465734	30	2.7	30	78	7	83	33	9	6	50	1.60
32465723--32465782	31	1.9	31	83	10	77	38	11	5	45	1.63
32479806--32479909	30	3.5	29	88	5	136	25	30	28	15	1.96
32479814--32479887	15	4.9	15	65	12	53	27	27	28	17	1.98
32484645--32484713	23	3.0	22	76	18	68	15	7	5	71	1.29
32484611--32484712	37	2.6	39	73	15	95	17	7	3	70	1.27
32489845--32489894	4	12.5	4	95	0	91	48	26	2	24	1.62
32496354--32496652	150	2.0	149	98	0	580	33	16	10	39	1.82
32506257--32506302	23	2.0	23	84	12	60	50	8	4	36	1.53
32506264--32506308	23	2.0	23	82	8	56	44	11	6	37	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32511478--32511523	23	2.0	23	83	4	58	47	8	4	39	1.54
32511485--32511529	23	2.0	23	81	0	54	42	11	6	40	1.67
32513976--32514475	249	2.0	250	97	0	948	36	18	5	40	1.73
32526465--32526542	37	2.1	37	90	0	120	24	30	19	25	1.98
32526661--32527022	49	7.6	47	91	3	544	29	30	7	32	1.85
32526661--32527022	96	3.8	96	90	3	561	29	30	7	32	1.85
32532279--32532335	15	3.7	15	75	13	53	29	5	0	64	1.15
32532548--32532691	40	3.6	40	90	2	227	30	20	22	25	1.98
32532579--32532733	80	1.9	79	81	10	181	31	21	20	26	1.98
32532832--32532866	17	2.0	17	88	5	52	20	0	14	65	1.26
32533429--32533467	18	2.2	18	95	0	69	33	0	15	51	1.44
32533543--32533632	36	2.4	37	75	10	94	26	2	26	44	1.66
32535672--32535742	24	3.0	24	85	0	97	29	18	5	46	1.72
32536617--32536750	64	2.1	64	95	0	241	37	11	4	47	1.60
32536630--32536764	64	2.1	64	86	4	193	40	8	4	46	1.55
32536809--32536868	24	2.5	24	91	0	93	26	18	10	45	1.81
32536910--32537373	241	1.9	241	96	0	865	33	18	14	33	1.91
32537375--32537422	9	5.3	9	87	0	69	45	22	2	29	1.64
32543127--32543208	31	2.5	33	76	7	87	14	3	19	62	1.47
32543264--32543518	43	6.0	42	88	3	375	25	32	19	23	1.97
32543264--32543518	87	3.0	85	90	2	377	25	32	19	23	1.97
32543264--32543518	130	2.0	130	90	1	406	25	32	19	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32545751--32545810	27	2.3	26	85	2	75	35	20	23	21	1.96
32545849--32545900	27	2.0	26	84	3	68	34	21	26	17	1.95
32546498--32546551	27	2.0	27	85	3	74	35	20	22	22	1.96
32546552--32546670	27	4.4	27	89	0	175	24	22	19	33	1.97
32548833--32549012	90	2.0	90	95	2	326	28	33	15	22	1.95
32553726--32553756	10	3.1	10	90	0	53	32	9	25	32	1.88
32559093--32559255	45	3.7	43	83	8	200	36	27	14	22	1.92
32559091--32559255	90	1.8	89	88	3	251	35	27	13	22	1.92
32559805--32559834	15	2.0	15	93	0	51	56	23	0	20	1.42
32560704--32560747	22	2.0	23	90	4	72	27	43	0	29	1.55
32573694--32573871	27	6.6	27	84	3	205	29	28	15	26	1.96
32573715--32573870	82	1.9	81	88	3	233	29	28	15	26	1.96
32577316--32577425	27	4.1	27	83	5	125	37	21	23	17	1.94
32578633--32578690	26	2.2	26	81	6	64	58	0	36	5	1.20
32578836--32578930	24	4.0	24	95	0	154	26	38	2	32	1.68
32585173--32585283	27	4.2	26	88	5	150	38	22	23	15	1.92
32585700--32585730	16	2.0	15	93	6	53	16	19	12	51	1.76
32586691--32586791	24	4.2	24	93	0	166	25	40	0	32	1.63
32590276--32590494	46	4.8	47	79	6	216	41	14	22	21	1.90
32590283--32590494	91	2.3	92	84	2	257	41	15	22	21	1.90
32590780--32590812	17	2.0	17	94	5	59	48	0	15	36	1.45
32594450--32594525	38	2.0	38	100	0	152	31	13	23	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32595714--32595858	40	3.6	40	85	4	193	25	24	26	23	2.00
32602513--32602588	38	2.0	38	97	0	143	32	13	22	31	1.92
32603777--32603921	40	3.6	40	85	4	193	25	24	26	23	2.00
32607199--32607340	67	2.1	67	86	5	194	30	20	28	20	1.98
32607919--32607972	27	2.0	27	85	3	74	35	20	22	22	1.96
32607973--32608091	27	4.4	26	82	4	139	25	21	18	35	1.95
32607973--32608091	54	2.2	54	84	0	157	25	21	18	35	1.95
32611263--32611358	50	1.9	51	89	2	149	40	31	12	15	1.85
32623099--32623144	21	2.3	20	78	14	51	30	4	19	45	1.70
32624724--32624811	43	2.1	42	81	10	99	21	18	27	32	1.96
32628948--32629042	48	2.0	47	100	0	181	54	12	16	14	1.69
32634522--32634616	44	2.2	44	82	3	111	27	21	18	32	1.97
32634540--32634682	44	3.3	44	76	6	139	24	19	24	31	1.98
32636714--32636890	45	4.0	45	90	0	266	25	26	22	24	2.00
32636714--32636891	90	2.0	89	92	1	293	25	26	22	24	2.00
32637711--32637829	25	4.8	25	91	0	157	49	10	13	26	1.75
32637724--32637829	50	2.1	50	94	0	185	49	12	11	27	1.74
32639276--32639460	79	2.3	81	81	8	218	25	28	22	24	1.99
32639257--32639460	40	5.1	40	81	8	229	25	27	22	25	1.99
32669132--32669245	28	4.0	29	77	13	103	27	12	29	30	1.93
32676595--32676631	16	2.3	16	90	0	56	54	16	18	10	1.71
32676860--32676917	29	2.0	29	89	0	89	27	15	27	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32679958--32680042	42	2.0	42	97	0	161	27	9	28	35	1.88
32684839--32684931	39	2.4	39	88	0	141	21	24	20	33	1.97
32687983--32688017	8	4.2	8	92	3	52	31	0	2	65	1.07
32690966--32691005	20	2.1	19	85	4	53	32	7	12	47	1.69
32695575--32695727	42	3.6	42	77	3	155	30	28	13	28	1.94
32697730--32697860	45	3.0	46	83	8	148	23	26	24	25	2.00
32698245--32698484	38	6.3	38	87	1	345	30	25	22	21	1.98
32698256--32698483	116	2.0	114	89	1	348	29	25	22	21	1.99
32702846--32702895	16	3.1	17	80	8	59	42	0	0	58	0.98
32703752--32703874	51	2.4	51	87	2	176	42	12	18	26	1.86
32710415--32710480	16	4.4	15	74	12	55	51	1	0	46	1.10
32710410--32710480	5	14.4	5	71	17	51	53	1	0	45	1.09
32710369--32710546	60	2.8	62	79	13	179	55	1	1	42	1.17
32712992--32713055	31	2.1	31	96	0	119	21	15	31	31	1.95
32717870--32717950	40	2.0	40	92	0	135	28	11	25	34	1.90
32718942--32718971	6	5.0	6	100	0	60	83	0	16	0	0.65
32725751--32725784	17	2.0	17	88	0	50	23	14	5	55	1.61
32728073--32728840	277	2.8	276	90	1	1196	27	21	16	35	1.94
32732287--32732326	20	2.0	20	85	0	53	42	20	7	30	1.79
32739901--32739937	16	2.3	17	81	13	51	51	0	5	43	1.24
32741389--32741662	135	2.0	135	98	0	530	24	16	6	53	1.65
32744456--32744503	20	2.4	20	75	0	51	37	12	20	29	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32747090--32747267	27	6.6	27	83	5	180	28	28	15	26	1.96
32747111--32747266	82	1.9	81	85	6	217	28	28	16	26	1.97
32747503--32747823	171	1.9	171	99	0	633	25	23	13	37	1.92
32748785--32748917	67	2.0	67	98	0	257	22	9	18	49	1.76
32763208--32763385	27	6.6	27	83	5	180	28	28	15	26	1.96
32763229--32763384	82	1.9	81	85	6	217	28	28	16	26	1.97
32775783--32775859	38	2.0	38	97	0	145	15	16	2	64	1.39
32779808--32779919	42	2.7	42	81	4	120	16	28	34	20	1.94
32779781--32780904	43	26.4	42	80	7	1009	18	32	31	17	1.94
32779781--32780996	128	9.5	128	84	4	1232	18	32	31	18	1.95

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