genome.fa.s4.2.7.7.80.10.50.1000.32.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   

This is table  32  of  235  ( 28198 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)
10185085--10185265	82	2.2	81	83	2	229	27	15	27	29	1.96
10186651--10186771	50	2.5	48	85	9	160	21	29	19	28	1.98
10203221--10203354	48	2.8	48	97	0	250	53	12	10	23	1.69
10206944--10207108	30	5.5	30	76	8	147	35	11	27	26	1.91
10206946--10207134	60	3.1	60	74	9	204	36	11	26	24	1.90
10206941--10207161	120	1.8	120	83	5	295	38	11	24	25	1.89
10206945--10207194	120	2.1	119	79	7	263	39	12	24	24	1.89
10211221--10211258	15	2.5	15	100	0	76	55	7	18	18	1.66
10211380--10211416	15	2.5	15	90	0	65	59	5	18	16	1.55
10211223--10211544	157	2.1	157	99	0	635	45	8	17	29	1.77
10212728--10212898	31	5.5	31	90	0	270	30	24	16	27	1.97
10213118--10213237	25	4.8	25	94	0	204	25	23	25	25	2.00
10214044--10214127	27	3.1	27	93	3	134	20	26	22	30	1.98
10214250--10214482	27	8.7	27	83	1	254	30	8	19	41	1.81
10214168--10214482	54	5.8	54	80	4	276	31	9	19	40	1.83
10214271--10214482	80	2.6	80	85	2	282	31	8	19	40	1.82
10214165--10214550	27	14.3	27	79	7	219	33	9	19	37	1.83
10214473--10214596	27	4.6	27	88	0	158	40	6	21	31	1.79
10214449--10214580	54	2.4	54	84	0	156	39	6	21	32	1.80
10218115--10218332	40	5.5	40	92	2	318	23	23	27	25	2.00
10225909--10226858	40	23.8	40	98	0	1765	22	22	29	25	1.99
10229095--10229236	40	3.5	40	80	7	155	25	21	26	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10229461--10229849	49	8.1	47	89	4	598	34	8	28	28	1.87
10229461--10229849	96	4.1	96	98	0	751	34	8	28	28	1.87
10236948--10237129	28	6.5	28	90	1	267	34	26	12	27	1.92
10238778--10239093	47	6.6	47	90	2	470	33	7	29	29	1.86
10238778--10239093	96	3.3	94	89	2	470	33	7	29	29	1.86
10238778--10239093	143	2.2	143	93	1	537	33	7	29	29	1.86
10243186--10243273	46	1.9	46	90	0	140	25	22	29	22	1.99
10261239--10261368	49	2.7	47	81	7	145	30	21	27	20	1.98
10262522--10262576	28	1.9	29	85	10	78	16	21	43	18	1.88
10267022--10267103	27	3.0	27	92	0	137	28	30	9	31	1.89
10270084--10270255	93	1.8	93	85	2	238	30	27	19	22	1.98
10270080--10270245	46	3.6	46	77	11	169	31	27	18	22	1.97
10276853--10276939	43	2.0	43	90	0	138	36	25	13	24	1.92
10285517--10285568	15	3.6	14	73	21	54	51	0	3	44	1.19
10285514--10285580	28	2.4	29	80	7	84	50	0	2	46	1.16
10290360--10290537	27	6.6	27	84	3	205	29	28	15	26	1.96
10290381--10290536	82	1.9	81	88	3	233	29	28	15	26	1.96
10291019--10291045	12	2.2	12	100	0	54	40	0	7	51	1.30
10308901--10308936	10	3.6	10	92	0	63	36	11	33	19	1.87
10347009--10347090	24	3.4	24	83	8	87	26	31	13	28	1.94
10347033--10347119	24	3.6	24	77	0	84	25	33	17	24	1.96
10354881--10354944	24	2.7	24	90	0	92	23	31	18	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10367565--10367740	46	3.8	46	77	10	187	20	21	29	28	1.98
10367561--10367733	93	1.9	93	91	0	283	20	21	30	27	1.98
10373559--10373678	46	2.6	46	82	0	141	23	18	25	32	1.97
10392422--10392562	27	5.2	27	81	11	173	35	23	22	18	1.96
10392422--10392562	54	2.6	55	89	5	225	35	23	22	18	1.96
10394146--10394196	26	2.0	26	92	0	84	39	19	7	33	1.81
10399470--10399628	27	5.9	27	80	11	166	34	20	24	20	1.96
10399488--10399629	54	2.6	54	92	2	223	34	21	24	19	1.96
10401223--10401330	26	4.2	26	93	0	189	37	25	6	31	1.81
10402936--10403000	28	2.3	29	82	10	82	15	10	0	73	1.08
10402916--10402999	11	7.7	11	67	15	50	16	7	1	75	1.09
10412052--10412229	27	6.6	26	83	6	178	26	15	28	29	1.96
10412053--10412208	82	1.9	81	88	3	233	26	15	28	29	1.96
10412049--10412229	82	2.2	81	83	2	229	26	15	28	29	1.96
10418873--10418943	25	2.9	25	82	2	72	30	18	22	28	1.97
10422394--10422564	38	4.4	39	82	4	168	20	18	27	33	1.96
10425385--10425409	13	1.9	13	100	0	50	24	0	0	76	0.80
10427229--10427290	26	2.3	27	81	10	83	37	25	8	29	1.85
10427398--10427455	28	2.1	28	90	0	89	22	18	20	37	1.94
10433175--10433273	42	2.3	42	81	5	110	32	24	17	26	1.97
10433209--10433317	44	2.5	42	82	7	130	32	25	20	22	1.98
10438104--10438170	33	2.0	33	94	0	116	31	28	13	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10447145--10448153	48	21.0	48	97	0	1847	35	6	26	31	1.81
10448284--10448460	37	4.8	37	94	0	300	23	19	32	24	1.97
10449748--10449820	23	3.4	23	62	21	59	24	23	27	24	2.00
10449740--10449929	40	4.8	40	86	2	256	24	21	28	25	1.99
10453926--10454127	48	4.2	48	93	0	323	33	6	27	32	1.82
10454260--10455102	37	22.8	37	94	0	1470	24	18	32	25	1.97
10454260--10455102	111	7.6	111	99	0	1625	24	18	32	25	1.97
10456765--10456989	48	4.7	48	94	0	378	32	28	7	32	1.84
10464051--10464100	18	2.8	18	72	3	57	18	28	36	18	1.94
10476499--10476913	27	15.4	27	85	1	512	39	21	9	28	1.85
10476499--10476881	161	2.4	161	89	2	590	39	21	9	28	1.86
10476898--10476986	27	3.3	27	78	6	81	38	13	16	31	1.88
10482758--10482973	40	5.5	40	85	6	273	24	21	27	26	1.99
10498814--10498937	51	2.4	51	81	7	146	27	14	29	28	1.95
10500822--10500959	40	3.5	40	92	3	217	24	23	28	23	2.00
10505430--10505484	15	3.8	13	81	18	56	12	7	18	61	1.53
10506090--10506125	18	2.0	18	94	0	63	25	36	16	22	1.94
10508806--10508975	42	4.0	42	87	0	232	33	29	17	20	1.95
10508807--10508972	84	2.0	84	90	0	260	32	29	17	20	1.95
10518003--10518164	40	4.1	40	80	3	164	24	19	27	29	1.99
10525959--10526086	40	3.2	40	81	5	152	23	21	27	27	1.99
10529565--10529619	28	2.0	28	96	0	101	34	18	14	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10532920--10533020	42	2.4	42	79	0	112	32	29	13	23	1.94
10533006--10533096	42	2.2	42	81	0	101	30	27	15	26	1.96
10533066--10533213	37	4.0	36	84	6	181	25	30	16	28	1.96
10533066--10533204	74	1.9	74	86	4	201	25	29	16	28	1.97
10535230--10535296	32	2.1	32	94	0	116	28	28	7	35	1.84
10535362--10535483	42	2.9	42	90	0	181	29	29	18	22	1.97
10537654--10537840	51	3.7	51	81	0	178	24	17	28	29	1.97
10537744--10537885	51	2.8	51	85	2	178	27	15	28	28	1.96
10542422--10542481	30	2.0	30	100	0	120	26	13	16	43	1.85
10545368--10545544	27	6.5	27	79	3	158	25	16	29	28	1.97
10545368--10545523	82	1.9	81	82	3	197	25	17	29	27	1.97
10545364--10545544	82	2.2	81	79	2	193	25	17	28	28	1.97
10551986--10552039	20	2.7	20	85	0	72	38	5	25	29	1.79
10551958--10552039	42	2.0	40	80	4	92	40	10	20	28	1.86
10553346--10553510	70	2.4	70	87	4	228	40	5	15	38	1.71
10554762--10554820	27	2.2	27	84	0	73	16	22	10	50	1.75
10554918--10555010	26	3.6	26	89	0	141	31	34	13	20	1.92
10568164--10568325	43	3.8	42	79	11	170	32	25	17	24	1.97
10573963--10574092	48	2.7	48	88	4	190	36	24	18	20	1.95
10586853--10586877	11	2.3	11	100	0	50	16	0	0	84	0.63
10598004--10598108	57	2.0	52	83	12	133	49	14	16	20	1.79
10599123--10599164	21	1.9	23	85	9	61	30	30	2	35	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10605572--10605608	17	2.1	18	90	5	58	37	0	0	62	0.96
10611654--10611697	13	3.4	13	75	12	54	13	9	11	65	1.46
10612530--10612580	25	2.0	26	96	3	95	31	3	3	60	1.33
10614102--10615007	40	22.7	40	98	0	1724	24	25	22	27	2.00
10620047--10620184	68	2.0	68	98	0	267	39	19	18	22	1.92
10621559--10621654	40	2.4	40	81	8	99	25	25	23	26	2.00
10624972--10625027	16	3.6	16	75	15	55	60	3	7	28	1.40
10625067--10625128	24	2.7	23	78	16	58	66	1	4	27	1.21
10625328--10625355	4	7.0	4	100	0	56	50	0	0	50	1.00
10625432--10625458	4	6.8	4	100	0	54	51	0	0	48	1.00

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