genome.fa.s8.2.7.7.80.10.50.1000.31.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_chr9
Parameters: 2 7 7 80 10 50 1000
Length:  91122320

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   

This is table  31  of  279  ( 33431 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)
10301399--10301611	48	4.5	48	74	13	151	25	18	28	27	1.98
10301306--10301611	92	3.3	91	74	14	252	27	18	27	26	1.99
10305353--10305412	30	2.0	30	90	0	93	43	1	23	31	1.64
10305748--10305856	42	2.6	42	75	8	114	28	17	24	29	1.97
10315652--10315903	53	4.8	53	80	9	243	36	17	25	20	1.94
10315660--10315856	108	1.8	107	87	3	297	35	17	25	21	1.95
10316095--10316125	16	1.9	16	93	0	53	41	0	25	32	1.56
10318757--10319036	50	5.6	50	78	4	242	25	16	25	32	1.96
10318806--10318987	101	1.8	101	86	0	265	26	18	24	30	1.98
10329086--10329258	48	3.6	47	87	3	229	28	17	28	24	1.98
10337750--10337785	18	2.1	17	89	5	54	16	22	19	41	1.90
10341704--10341882	96	1.9	96	89	2	279	26	12	17	43	1.84
10348473--10348576	51	2.0	51	90	0	163	26	24	27	21	1.99
10349332--10349357	13	2.0	13	100	0	52	30	0	7	61	1.24
10352908--10353212	40	7.6	40	97	0	565	23	23	28	24	2.00
10354926--10355320	47	8.4	47	97	0	718	31	8	30	29	1.87
10355439--10355517	37	2.1	37	90	0	122	24	18	31	25	1.98
10356788--10356841	28	1.9	28	88	0	81	33	27	11	27	1.91
10359573--10359626	27	2.0	28	88	3	83	33	14	11	40	1.82
10380314--10380377	31	2.1	31	93	0	110	23	23	15	37	1.93
10380571--10380691	24	5.0	24	90	7	183	28	22	20	28	1.99
10380562--10380691	49	2.6	48	86	9	183	27	22	19	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10380740--10380806	20	3.3	20	93	0	116	32	20	11	34	1.90
10380740--10380795	11	5.5	11	71	16	57	32	19	12	35	1.89
10394805--10394830	8	3.2	8	100	0	52	23	0	0	76	0.78
10396535--10396590	29	1.9	29	92	0	94	42	21	14	21	1.88
10398184--10398235	15	3.4	15	72	15	52	36	3	7	51	1.49
10398173--10398235	31	2.0	33	90	6	103	39	4	6	49	1.49
10406813--10407732	94	9.8	93	82	3	905	28	19	18	33	1.96
10406909--10407741	282	3.0	282	83	2	1037	28	20	18	32	1.96
10407047--10407681	44	13.6	44	66	22	194	29	21	17	31	1.96
10407468--10407721	50	5.3	50	69	21	202	27	24	19	28	1.99
10410583--10410641	30	2.0	30	93	6	102	45	10	15	28	1.78
10412157--10412204	25	1.9	25	86	0	69	43	16	18	20	1.88
10415657--10415713	28	2.0	29	89	6	89	22	29	14	33	1.93
10417606--10417647	20	2.1	20	100	0	84	26	30	9	33	1.88
10423022--10423059	19	2.1	18	85	9	51	52	0	7	39	1.31
10432778--10433080	41	7.4	41	90	0	410	18	21	24	35	1.95
10439542--10439582	21	2.0	21	90	0	64	36	19	0	43	1.51
10448685--10448745	24	2.5	24	86	5	88	44	21	18	16	1.87
10451146--10451170	12	2.1	12	100	0	50	16	32	0	52	1.44
10453197--10453240	23	2.0	23	86	4	63	63	6	9	20	1.46
10457477--10457620	43	3.4	42	73	9	123	30	25	17	26	1.97
10463004--10463323	56	5.7	56	86	1	435	34	24	14	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10465978--10466010	7	4.7	7	88	11	50	84	3	12	0	0.72
10465977--10466009	13	2.4	14	90	10	59	81	6	12	0	0.85
10466151--10466449	152	2.0	148	85	8	406	41	11	4	42	1.61
10466775--10466826	22	2.4	21	81	15	61	53	0	5	40	1.25
10470979--10471147	46	3.7	46	80	10	170	24	31	17	26	1.97
10471244--10471323	40	2.0	40	97	0	151	47	16	7	28	1.73
10477004--10477029	12	2.2	12	100	0	52	0	26	46	26	1.53
10477005--10477046	17	2.5	17	92	0	66	2	23	45	28	1.66
10478009--10478568	179	3.1	178	87	2	734	29	16	20	33	1.95
10478226--10478516	88	3.3	89	69	10	252	28	17	21	32	1.96
10478460--10478654	45	4.4	44	78	2	185	29	19	21	29	1.98
10478290--10478611	90	3.6	89	72	11	280	29	17	20	32	1.95
10478593--10478943	143	2.5	143	90	1	535	27	21	21	30	1.98
10479340--10479536	46	4.3	46	89	2	263	26	25	12	35	1.92
10480344--10480401	6	10.0	6	76	14	50	3	18	0	77	0.91
10480345--10480402	12	4.4	12	78	16	62	3	17	0	79	0.87
10480345--10480402	19	2.9	19	76	19	64	3	17	0	79	0.87
10480976--10481015	13	3.1	13	77	0	53	22	30	32	15	1.94
10484805--10484847	22	1.9	23	81	13	54	46	9	30	13	1.75
10496580--10496748	43	3.9	43	74	16	161	23	19	27	29	1.98
10499312--10499356	19	2.3	20	92	7	76	42	13	20	24	1.87
10501298--10501331	12	2.8	12	86	0	50	58	0	14	26	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10508684--10508854	46	3.7	46	83	9	183	24	30	18	25	1.98
10511588--10511628	18	2.3	18	84	12	50	56	2	0	41	1.13
10511592--10511681	10	9.2	10	70	12	55	57	3	1	37	1.22
10512189--10512242	17	3.2	16	71	19	56	29	0	9	61	1.27
10512162--10512251	34	2.5	38	80	17	127	32	0	6	61	1.22
10512184--10512239	18	3.2	18	68	27	57	30	0	8	60	1.27
10520369--10520488	47	2.6	47	91	2	188	23	15	29	32	1.95
10540126--10540179	27	2.0	27	85	0	72	33	18	18	29	1.95
10540164--10540560	27	14.7	27	78	5	160	40	20	9	29	1.84
10540189--10540557	54	6.8	53	74	6	224	40	20	9	28	1.84
10540215--10540393	81	2.2	80	78	8	193	43	21	8	26	1.81
10540377--10540533	55	2.9	54	84	0	188	42	19	9	28	1.82
10540802--10540960	41	3.9	41	90	0	239	22	23	27	26	1.99
10541108--10541166	22	2.7	22	84	5	66	20	27	23	28	1.99
10541369--10541414	22	2.1	22	91	0	74	10	17	28	43	1.82
10546051--10546114	31	2.2	29	81	13	69	26	17	4	51	1.64
10551321--10551462	57	2.5	58	79	5	164	30	19	21	29	1.97
10552894--10553022	49	2.7	49	78	7	124	26	31	10	32	1.89
10556699--10556751	21	2.4	23	78	12	67	45	26	0	28	1.54
10557580--10557734	43	3.6	43	82	9	190	29	28	18	23	1.98
10564341--10564389	21	2.2	23	85	7	66	42	26	0	30	1.55
10565217--10565425	44	4.8	44	81	5	210	31	24	18	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10565217--10565421	88	2.3	87	84	4	252	30	25	18	25	1.98
10596027--10596080	17	3.4	16	76	19	60	72	1	25	0	0.95
10596030--10596080	15	3.3	15	79	15	59	72	1	25	0	0.95
10595991--10596082	23	3.9	24	71	10	55	71	3	19	5	1.19
10596866--10596952	44	2.0	44	86	0	120	22	20	24	32	1.98
10605561--10605599	17	2.2	18	86	13	55	23	5	0	71	1.05
10613472--10613583	57	2.0	56	87	1	161	23	31	15	30	1.95
10613468--10613584	28	4.1	28	85	2	162	24	29	14	30	1.95
10622200--10622377	27	6.6	27	83	3	205	26	15	28	29	1.96
10622201--10622356	82	1.9	81	88	3	233	26	15	28	29	1.96
10622197--10622377	82	2.2	81	83	2	229	27	15	27	29	1.96
10633223--10633259	16	2.3	16	90	0	56	13	21	13	51	1.75
10640562--10640621	27	2.1	29	85	11	81	25	6	3	65	1.33
10641052--10641084	17	1.9	17	93	0	57	75	6	12	6	1.16
10644950--10645018	27	2.9	23	74	17	68	62	5	0	31	1.19
10646536--10647081	44	12.7	44	76	7	467	27	22	20	30	1.98
10646535--10646953	88	4.8	87	88	2	536	26	23	20	30	1.98
10646886--10647030	77	1.9	77	92	0	245	31	22	17	28	1.97
10646842--10647082	121	2.0	121	81	1	286	29	21	19	29	1.98
10655095--10655272	27	6.6	27	81	3	187	26	15	28	29	1.96
10655096--10655251	82	1.9	81	86	3	224	26	16	28	28	1.96
10655092--10655272	82	2.2	81	82	2	220	26	16	28	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10663158--10663335	27	6.6	27	83	3	205	26	15	28	29	1.96
10663159--10663314	82	1.9	81	88	3	233	26	15	28	29	1.96
10663155--10663335	82	2.2	81	83	2	229	27	15	27	29	1.96
10679343--10679565	40	5.6	40	86	3	245	24	20	27	26	1.99
10679418--10679600	79	2.3	80	82	1	226	25	20	27	25	1.99
10687306--10687595	40	7.3	39	91	3	339	25	21	27	25	1.99
10687253--10687595	80	4.3	79	84	4	388	25	21	27	25	1.99
10690384--10690445	32	1.9	32	96	0	115	14	33	20	30	1.93
10696461--10696565	51	2.1	51	98	0	201	29	34	9	26	1.88
10698639--10698704	32	2.1	32	94	0	114	27	16	27	28	1.97

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