genome.fa.s7.2.7.7.80.10.50.1000.270.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_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  100348136

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   

This is table  270  of  290  ( 34714 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)
93288599--93288625	2	13.5	2	100	0	54	0	48	0	51	1.00
93289154--93289192	19	2.1	19	90	0	60	56	15	5	23	1.59
93297200--93297256	21	2.8	20	82	12	71	56	12	5	26	1.57
93297207--93297247	21	1.9	21	95	5	73	56	9	4	29	1.53
93297443--93297470	4	7.0	4	100	0	56	50	25	0	25	1.50
93301883--93301941	13	4.4	13	70	21	50	55	1	0	42	1.09
93307163--93307195	5	6.6	5	96	0	57	21	0	42	36	1.53
93308996--93309147	50	3.1	50	81	1	191	29	22	12	35	1.91
93313266--93313309	23	1.9	22	82	17	54	36	25	0	38	1.56
93313354--93313447	45	2.1	45	91	0	152	31	24	18	25	1.97
93315038--93315089	23	2.3	23	89	0	77	34	25	19	21	1.96
93315316--93315354	18	2.2	17	86	13	53	46	20	0	33	1.51
93317913--93317989	30	2.6	30	97	0	145	44	15	0	40	1.47
93317913--93318007	30	3.1	30	89	3	100	51	12	0	35	1.40
93318558--93318594	19	1.9	19	94	0	65	51	0	8	40	1.32
93334312--93334352	21	2.0	21	90	0	64	29	21	29	19	1.98
93336258--93336291	16	2.1	16	88	0	50	50	14	17	17	1.79
93355965--93356110	37	4.0	37	93	1	242	24	21	16	36	1.94
93356074--93356342	46	5.6	46	84	10	340	28	22	14	34	1.93
93356117--93356336	52	4.3	52	85	8	299	27	22	14	35	1.93
93356074--93356342	98	2.7	98	93	0	457	28	22	14	34	1.93
93372111--93372142	16	2.0	16	93	0	55	53	0	18	28	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93373764--93373788	3	8.3	3	100	0	50	68	0	0	32	0.90
93380502--93380566	20	3.1	20	79	16	69	47	0	3	49	1.17
93380497--93380566	21	3.3	21	77	18	65	47	0	4	48	1.21
93380469--93380549	33	2.6	31	76	16	80	50	0	1	48	1.08
93384221--93384294	38	1.9	38	91	0	121	17	13	24	44	1.85
93385295--93385337	22	2.0	22	86	9	61	60	11	9	18	1.57
93385300--93385347	22	2.2	22	81	7	53	64	12	8	14	1.49
93392882--93392914	3	11.0	3	100	0	66	33	0	0	66	0.92
93408836--93408860	5	5.0	5	100	0	50	40	0	0	60	0.97
93409132--93409400	134	2.0	132	93	1	457	40	20	9	30	1.83
93414010--93414076	9	6.7	10	76	8	57	62	1	2	32	1.19
93414007--93414066	11	5.9	10	73	9	50	61	1	1	35	1.16
93414007--93414066	21	3.0	20	83	13	70	61	1	1	35	1.16
93414080--93414152	31	2.4	31	84	4	96	56	2	5	35	1.37
93419002--93419034	17	1.9	17	93	0	57	9	12	15	63	1.51
93428915--93428990	36	2.1	37	82	7	93	51	0	9	39	1.34
93429249--93429305	28	2.0	28	93	0	96	63	0	22	14	1.30
93433716--93433756	21	2.0	21	81	18	50	21	26	19	31	1.97
93440264--93440290	13	2.1	13	100	0	54	55	7	0	37	1.28
93440375--93440610	97	2.4	97	100	0	472	40	13	8	37	1.75
93440648--93440692	23	2.0	23	82	8	56	44	6	2	46	1.42
93443836--93444044	92	2.3	91	86	5	278	45	3	3	46	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93443972--93444019	26	1.9	25	84	16	64	45	0	2	52	1.12
93444060--93444352	120	2.4	120	92	2	473	41	3	4	50	1.38
93444185--93444226	15	2.9	15	82	10	52	47	0	0	52	1.00
93444133--93444320	61	3.1	59	68	17	170	43	2	5	48	1.39
93444314--93444355	15	2.7	16	82	14	52	45	0	2	52	1.13
93444305--93444346	15	2.9	15	82	10	52	47	0	0	52	1.00
93444288--93444596	156	2.0	156	95	1	557	47	5	2	44	1.40
93444457--93444491	18	2.0	17	88	5	52	45	0	0	54	0.99
93444727--93444762	16	2.2	16	100	0	72	38	36	0	25	1.56
93455522--93455568	4	12.0	4	88	8	53	0	0	19	80	0.70
93456796--93456825	14	2.1	14	93	0	51	0	20	0	80	0.72
93471211--93471240	8	3.6	8	91	8	51	43	0	0	56	0.99
93471265--93471332	20	3.6	20	77	22	92	22	0	26	51	1.48
93471276--93471334	16	3.4	16	75	24	66	22	0	27	50	1.49
93471262--93471334	36	2.0	36	100	0	146	21	0	28	49	1.50
93476085--93476189	42	2.5	42	85	0	129	34	16	20	29	1.94
93479550--93479650	47	2.1	47	96	0	184	31	11	29	26	1.92
93479551--93479690	47	3.0	47	88	0	145	32	11	31	25	1.91
93479813--93479891	37	2.1	37	86	4	106	24	17	32	25	1.97
93482781--93482888	27	3.9	27	83	7	92	27	21	15	35	1.94
93482794--93482888	27	3.5	27	91	0	145	27	20	14	37	1.91
93485625--93485735	12	9.2	12	66	23	56	53	2	3	40	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93485655--93485797	11	13.0	11	66	23	54	54	3	3	38	1.35
93485734--93485785	16	3.3	16	67	5	52	57	7	1	32	1.38
93485725--93485797	31	2.4	31	100	0	146	54	5	2	36	1.38
93487639--93487672	3	11.3	3	100	0	68	32	0	0	67	0.91
93488978--93489289	153	2.1	150	89	3	475	44	11	4	39	1.62
93489620--93489679	3	19.7	3	86	3	75	58	0	5	36	1.20
93490293--93490328	7	5.1	7	100	0	72	41	0	27	30	1.56
93493039--93493177	27	5.1	27	83	6	147	35	21	23	18	1.95
93494794--93494903	26	4.2	26	97	0	184	36	24	5	33	1.79
93495012--93495046	13	2.7	13	100	0	70	20	31	0	48	1.50
93502865--93502890	5	5.2	5	100	0	52	38	19	19	23	1.93
93503793--93503829	9	4.1	9	92	0	65	29	10	13	45	1.77
93522287--93522358	12	6.2	12	71	19	55	54	2	0	43	1.15
93523867--93523994	64	2.0	64	87	0	184	29	17	15	36	1.91
93524061--93524354	88	3.4	87	89	3	448	33	19	24	22	1.97
93524204--93524399	44	4.5	43	72	15	152	33	21	26	18	1.97
93524204--93524399	43	4.5	43	71	11	148	33	21	26	18	1.97
93524414--93525024	88	7.0	88	87	2	820	33	22	24	20	1.97
93524451--93524594	44	3.3	44	65	11	114	35	22	21	20	1.96
93524757--93524989	44	5.3	44	67	13	147	32	23	25	18	1.97
93524869--93525006	44	3.1	44	72	12	147	31	21	28	18	1.97
93524882--93525024	44	3.3	43	71	14	130	30	23	23	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93529443--93529471	14	2.1	14	100	0	58	34	31	13	20	1.92
93531567--93531614	23	2.1	23	84	0	60	45	12	16	25	1.82
93531574--93531751	88	2.0	88	93	0	302	35	18	14	30	1.91
93532531--93532594	29	2.2	28	84	13	85	26	10	18	43	1.83
93533037--93533078	18	2.3	18	84	8	50	40	4	0	54	1.21
93540786--93540813	6	4.7	6	100	0	56	85	0	14	0	0.59
93543919--93543952	18	1.9	18	88	5	52	29	11	20	38	1.88
93545014--93545128	29	4.0	29	78	2	108	31	28	13	26	1.93
93553012--93553077	34	2.0	32	82	8	80	36	0	4	59	1.18
93554761--93554873	33	3.5	32	80	13	124	38	12	22	26	1.89
93554867--93555044	31	5.7	31	90	0	275	26	16	27	28	1.97
93555136--93555197	27	2.3	27	88	0	88	38	12	25	22	1.90
93555239--93555313	34	2.2	34	83	4	80	30	14	25	29	1.95
93555252--93555325	34	2.2	34	92	0	121	25	13	28	32	1.94
93561194--93561228	15	2.3	15	100	0	70	51	14	8	25	1.70
93561907--93562045	45	3.4	39	76	9	134	36	20	23	19	1.95
93561941--93562004	20	3.2	20	76	8	67	34	17	28	20	1.95
93562404--93562429	13	2.0	13	100	0	52	61	7	0	30	1.24
93562763--93562830	16	4.2	16	96	0	127	26	0	35	38	1.57
93563066--93563100	18	2.0	17	88	5	52	54	0	0	45	0.99
93564961--93565020	30	2.0	30	96	0	111	28	33	6	31	1.83
93570927--93571098	93	1.8	93	92	0	290	27	29	21	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93570920--93571095	46	3.8	46	78	10	196	28	28	21	21	1.98
93570971--93571114	46	3.1	45	74	13	132	29	28	20	22	1.98
93590658--93590832	45	4.0	45	85	3	223	26	29	22	22	1.99
93594294--93594351	29	2.0	29	93	0	98	31	20	17	31	1.96
93598207--93598431	49	4.5	50	84	2	292	25	17	26	30	1.97
93598207--93598443	99	2.4	98	86	2	312	25	18	26	30	1.98
93602403--93602574	46	3.7	45	78	11	179	27	26	22	23	1.99
93602408--93602578	93	1.8	93	92	0	288	27	27	22	22	1.99
93603837--93604155	48	6.5	48	83	7	338	26	16	29	28	1.97
93603913--93604102	103	1.8	103	93	0	326	25	16	29	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   280   281   282   283   284   285   286   287   288   
          289   290