genome.fa.s12.2.7.7.80.10.50.1000.178.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_chr13
Parameters: 2 7 7 80 10 50 1000
Length:  91551117

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   

This is table  178  of  276  ( 33102 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)
58617117--58617191	21	3.6	21	70	8	55	22	26	18	32	1.97
58627542--58627686	40	3.6	40	83	4	175	23	26	24	26	2.00
58631474--58631518	15	3.0	15	96	0	81	31	6	2	60	1.35
58632523--58632701	39	4.6	39	92	1	288	36	23	26	13	1.92
58643834--58644050	111	2.0	111	89	0	335	27	13	27	31	1.94
58657558--58657583	7	3.7	7	100	0	52	61	0	11	26	1.30
58661293--58661347	27	2.0	27	96	0	101	32	27	10	29	1.91
58662254--58662721	155	3.0	155	99	0	911	26	17	16	38	1.91
58664169--58664316	43	3.4	43	80	10	160	25	16	25	32	1.96
58669181--58669365	40	4.6	40	82	3	228	23	27	24	24	2.00
58669145--58669365	121	1.8	118	84	4	300	23	26	24	25	2.00
58676883--58677067	40	4.6	40	80	3	210	23	27	24	24	2.00
58676847--58677067	121	1.8	118	84	4	300	23	26	24	25	2.00
58678721--58678760	21	2.0	20	85	5	53	22	27	37	12	1.90
58680302--58680421	55	2.2	55	83	3	152	20	35	24	19	1.95
58681161--58681250	45	2.0	45	97	0	171	30	16	13	40	1.87
58690053--58690221	46	3.6	46	77	9	139	26	27	16	29	1.97
58690144--58690273	46	2.8	47	80	6	131	23	29	18	28	1.98
58693060--58693555	47	10.6	47	95	0	857	33	8	29	29	1.87
58696898--58697136	27	8.9	27	83	4	250	31	18	23	25	1.98
58696872--58696984	54	2.1	54	83	6	140	33	16	24	24	1.96
58699508--58699614	55	1.9	55	87	7	155	28	28	20	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58701466--58701622	43	3.7	43	79	9	151	31	26	14	28	1.95
58701525--58701628	43	2.4	43	90	3	156	34	25	13	26	1.93
58705779--58705870	45	2.0	46	97	2	177	45	16	8	29	1.77
58706162--58706326	43	3.9	42	82	8	190	31	25	18	24	1.98
58706167--58706325	44	3.7	43	82	10	200	30	25	19	24	1.98
58706162--58706326	86	1.9	85	85	6	226	31	25	18	24	1.98
58712113--58712199	43	2.0	42	95	2	156	21	29	11	35	1.89
58713212--58713255	18	2.4	18	96	0	79	38	34	11	15	1.84
58713647--58713706	30	2.0	30	86	0	84	58	15	13	13	1.64
58713648--58713707	15	4.0	15	71	0	57	60	15	11	13	1.60
58716666--58716838	93	1.9	93	91	0	283	29	28	20	21	1.98
58716659--58716834	46	3.8	46	76	7	176	30	27	20	21	1.98
58720372--58720498	64	2.0	64	93	0	218	30	16	17	35	1.92
58732967--58733187	40	5.6	40	86	4	270	25	21	27	25	1.99
58732967--58733187	119	1.9	119	83	5	295	25	21	27	25	1.99
58741160--58741938	40	19.5	40	83	6	873	25	20	27	26	1.99
58741156--58741912	159	4.7	159	89	5	974	25	19	27	27	1.99
58745590--58745653	30	2.2	29	94	2	110	26	17	21	34	1.95
58747897--58748047	65	2.3	65	85	2	196	21	16	22	39	1.92
58749893--58750000	39	2.7	40	85	8	166	25	23	27	24	2.00
58749897--58750023	39	3.2	40	82	11	156	25	23	27	23	2.00
58750371--58750514	40	3.6	40	95	0	261	24	22	28	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58750371--58750537	80	2.1	80	89	3	257	25	22	27	24	2.00
58756259--58756351	45	2.1	45	100	0	186	24	25	22	26	2.00
58756704--58756876	46	3.7	46	74	10	163	28	29	20	21	1.98
58756712--58756882	93	1.8	93	88	0	261	28	29	21	21	1.98
58756709--58756898	46	4.1	45	69	18	122	28	28	21	21	1.98
58760962--58761070	40	2.7	40	88	4	166	24	23	27	23	2.00
58760966--58761103	40	3.5	39	85	6	163	25	23	27	23	2.00
58765739--58765919	48	3.8	48	80	4	195	18	19	27	34	1.95
58769259--58769290	12	2.7	12	95	0	55	28	37	3	31	1.73
58769841--58770671	47	17.7	47	100	0	1662	27	29	19	23	1.98
58777104--58777276	46	3.7	46	80	4	197	21	20	29	28	1.98
58801583--58801639	25	2.3	25	90	0	87	29	21	21	28	1.98
58801598--58801676	25	3.2	25	76	3	70	32	20	24	22	1.97
58804126--58804384	40	6.5	40	88	3	346	25	28	22	23	2.00
58812565--58812589	6	4.2	6	100	0	50	0	48	36	16	1.46
58818317--58818452	66	2.0	67	98	1	265	13	10	29	46	1.77
58820177--58820259	42	2.0	41	90	4	132	19	42	10	26	1.84
58824351--58824400	26	1.9	26	87	0	73	22	32	24	22	1.98
58824349--58824406	26	2.2	26	81	0	71	18	32	27	20	1.97
58835793--58837038	627	2.0	621	89	2	1892	33	23	13	30	1.93
58838550--58838574	13	1.9	13	100	0	50	88	4	8	0	0.64
58839031--58839179	74	2.0	74	94	0	262	27	7	30	34	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58839779--58839988	39	5.3	39	89	2	298	26	22	26	24	2.00
58842235--58842277	10	4.3	10	100	0	86	41	9	9	39	1.69
58847148--58847250	51	2.0	51	85	7	138	35	12	21	30	1.90
58853024--58853097	37	2.0	37	89	5	114	37	21	14	25	1.92
58855094--58855236	42	3.3	42	76	10	137	27	25	20	26	1.99
58855068--58855200	42	3.1	43	73	11	130	29	24	18	27	1.98
58855072--58855236	85	1.9	85	83	3	215	27	26	20	26	1.99
58858021--58858127	53	2.0	53	88	0	160	47	12	15	24	1.80
58862030--58862085	29	2.0	28	92	3	94	32	21	21	25	1.98
58869429--58869591	43	3.8	43	73	10	120	26	18	22	33	1.97
58870547--58870669	26	4.8	26	87	1	160	27	22	21	27	1.99
58870557--58870669	52	2.2	51	91	1	190	27	23	20	28	1.99
58870719--58871513	20	39.8	20	99	0	1551	35	19	9	34	1.85
58874749--58874973	40	5.6	40	84	2	281	23	27	24	25	2.00
58874713--58874973	80	3.3	80	83	3	303	24	26	23	25	2.00
58881730--58881843	26	4.4	26	85	2	149	26	24	21	28	1.99
58881730--58881843	52	2.2	51	92	3	183	26	24	21	28	1.99
58881893--58882707	20	40.8	20	99	0	1591	35	19	9	34	1.85
58903226--58903410	79	2.3	81	84	7	236	24	22	27	25	2.00
58903227--58903410	40	4.6	40	83	9	216	24	22	27	25	2.00
58903279--58903443	79	2.1	79	84	6	210	26	21	27	25	1.99
58918545--58918732	101	1.9	100	89	1	295	25	20	25	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58918545--58918683	51	2.8	50	77	3	154	25	21	25	27	1.99
58919216--58919351	51	2.7	50	79	3	148	25	20	25	27	1.99
58918548--58919885	668	2.0	668	100	0	2676	34	11	22	31	1.90
58921952--58922012	29	2.1	30	87	3	88	36	3	21	39	1.70
58922473--58922602	23	5.7	23	82	3	145	26	19	24	30	1.98
58922473--58922602	69	1.9	69	83	3	172	26	19	24	30	1.98
58932318--58932348	15	2.1	15	100	0	62	6	6	12	74	1.21
58935355--58935548	49	3.9	48	72	11	167	27	16	25	30	1.97
58935350--58935536	100	1.9	100	89	2	295	26	17	25	31	1.97
58935741--58935770	16	1.9	16	93	6	53	36	0	23	40	1.55
58941907--58942001	47	2.0	47	93	0	163	35	16	17	29	1.93
58947213--58947331	43	2.8	43	79	9	129	32	27	18	21	1.96
58947690--58947826	70	2.0	69	86	4	195	37	18	10	34	1.84
58949940--58950038	49	2.0	50	96	2	182	46	12	25	16	1.81
58951032--58951389	47	7.6	47	94	0	599	32	8	30	28	1.87
58952855--58952928	29	2.6	29	89	4	105	25	16	32	25	1.96
58953239--58953461	40	5.6	40	79	4	184	24	22	26	25	2.00
58957068--58957284	47	4.6	47	90	1	326	33	8	29	29	1.86
58964444--58964506	33	1.9	33	100	0	126	19	31	15	33	1.93
58968625--58968657	16	2.1	16	94	5	59	66	6	0	27	1.15
58969334--58969361	13	2.2	13	100	0	56	0	35	0	64	0.94
58970320--58970381	30	2.1	30	90	0	97	24	4	12	58	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58971493--58973083	588	2.6	589	82	8	1887	40	11	14	33	1.82
58973209--58973252	23	1.9	23	85	0	61	54	27	6	11	1.61
58976385--58976625	50	4.8	49	80	11	240	31	25	17	26	1.97
58976388--58976625	101	2.4	99	85	5	293	31	25	17	26	1.97
58986621--58986847	49	4.6	48	77	11	201	31	25	17	25	1.97
58989436--58989548	43	2.6	43	80	2	111	27	16	21	34	1.95
58995080--58995272	6	31.3	6	73	16	155	48	14	18	18	1.82
58995080--58995272	19	10.4	18	71	16	83	48	14	18	18	1.82
58995103--58995272	37	4.4	37	75	17	166	47	14	18	18	1.82
58995143--58995269	25	4.8	25	82	11	164	46	15	19	18	1.84

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