genome.fa.s25.2.7.7.80.10.50.1000.88.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  88  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)
31875141--31875258	55	2.1	55	85	3	166	22	34	22	20	1.96
31877694--31877739	20	2.3	20	96	0	83	10	26	41	21	1.86
31878914--31879007	42	2.2	42	92	0	152	26	21	15	36	1.94
31880917--31881181	40	6.7	40	85	5	286	26	27	21	24	1.99
31880884--31881181	80	3.7	80	79	9	263	25	27	21	25	1.99
31881113--31881190	40	1.9	41	82	10	97	26	28	20	24	1.99
31888860--31889042	79	2.3	81	83	7	223	24	27	22	24	2.00
31888839--31889042	40	5.1	40	81	8	229	24	27	22	25	2.00
31896577--31896622	20	2.3	20	85	3	58	8	30	34	26	1.86
31897688--31897835	42	3.5	42	83	0	188	29	22	15	33	1.95
31902049--31902073	13	1.9	13	100	0	50	24	0	16	60	1.36
31902541--31902565	12	2.1	12	100	0	50	40	0	8	52	1.31
31902711--31902867	43	3.7	43	78	10	178	24	17	26	31	1.97
31905665--31905710	14	3.1	15	78	15	51	34	2	2	60	1.21
31906568--31906627	30	2.0	30	93	0	102	25	1	15	58	1.46
31909314--31909353	19	2.1	19	90	0	62	20	17	7	55	1.66
31909818--31909882	30	2.1	31	91	2	105	41	7	10	40	1.69
31919689--31919791	34	3.3	33	67	25	96	22	16	10	50	1.75
31919682--31919803	60	2.0	60	96	0	226	22	14	11	50	1.75
31925540--31925586	21	2.2	21	88	0	67	29	25	29	14	1.95
31929554--31929876	47	6.7	47	93	2	493	32	7	30	30	1.85
31929554--31929876	96	3.4	95	91	3	497	32	7	30	30	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31929554--31929876	143	2.2	143	92	1	529	32	7	30	30	1.85
31929995--31930073	37	2.1	37	90	0	122	24	18	31	25	1.98
31933038--31933192	42	3.7	41	83	3	175	30	14	24	30	1.94
31937210--31937241	15	2.1	15	94	0	55	68	9	6	15	1.36
31938279--31938325	22	2.1	22	84	0	58	17	17	36	29	1.92
31938751--31938785	14	2.5	14	90	0	52	25	25	8	40	1.84
31946761--31946820	27	2.3	27	85	2	86	40	23	23	13	1.90
31948283--31948359	24	3.2	24	94	0	127	20	40	3	35	1.71
31956005--31956046	15	2.6	16	77	7	50	28	4	9	57	1.51
31957009--31957102	27	3.5	26	80	5	107	40	20	20	19	1.92
31957009--31957118	27	4.1	26	77	5	103	39	21	20	19	1.93
31957009--31957118	54	2.1	53	82	1	130	39	21	20	19	1.93
31957424--31957553	65	2.0	65	100	0	260	40	16	9	33	1.81
31958616--31958692	24	3.2	24	90	0	109	22	38	2	36	1.68
31960573--31960750	27	6.6	27	84	3	205	29	28	15	26	1.96
31960594--31960749	82	1.9	81	88	3	233	29	28	15	26	1.96
31968758--31968935	27	6.6	27	84	3	205	29	28	15	26	1.96
31968779--31968934	82	1.9	81	88	3	233	29	28	15	26	1.96
31975115--31975152	16	2.3	17	86	4	51	39	10	0	50	1.37
31978304--31978455	23	6.5	23	71	7	83	32	19	23	25	1.97
31984765--31984873	26	4.2	26	97	0	182	36	24	5	33	1.79
31992006--31992113	26	4.2	26	93	0	189	36	24	7	32	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32006009--32006077	31	2.2	32	92	2	113	8	15	15	59	1.60
32006035--32006081	16	2.9	16	75	12	51	8	14	12	63	1.50
32010162--32010206	13	3.7	13	80	17	60	35	0	13	51	1.41
32010157--32010206	23	2.2	23	92	3	84	36	0	12	52	1.39
32023452--32023477	11	2.4	11	100	0	52	23	0	7	69	1.14
32023419--32023472	20	2.8	19	78	15	58	24	3	3	68	1.22
32028904--32029034	38	3.2	38	71	17	127	30	23	17	28	1.97
32028949--32029169	48	4.6	48	84	1	293	30	21	16	31	1.95
32028911--32029169	95	2.8	88	81	13	281	30	22	16	30	1.96
32028944--32029169	95	2.4	95	93	0	380	30	20	16	31	1.95
32031783--32031820	15	2.6	15	87	4	51	57	10	15	15	1.64
32036299--32036469	46	3.7	48	77	9	151	23	29	18	28	1.98
32054367--32054442	29	2.7	29	89	2	109	23	14	26	35	1.93
32061278--32061730	48	9.5	48	91	0	723	34	7	27	30	1.85
32066913--32066965	27	2.0	27	88	7	81	33	9	18	37	1.83
32069511--32070033	49	10.9	49	94	2	868	31	9	29	28	1.89
32069511--32070036	192	2.7	192	92	1	912	31	9	30	28	1.89
32081569--32081628	6	9.8	6	76	16	61	46	18	20	15	1.84
32081569--32081628	18	3.3	18	77	13	68	46	18	20	15	1.84
32081578--32081656	31	2.5	31	87	2	104	49	15	18	16	1.80
32081794--32081895	27	3.8	26	88	5	132	36	21	23	18	1.95
32082052--32082118	22	3.0	22	78	8	73	32	22	22	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32082545--32082720	27	6.6	27	86	0	228	25	21	19	34	1.96
32082546--32083095	54	10.3	54	79	9	554	26	20	17	35	1.95
32082545--32083095	81	6.9	81	80	8	570	26	20	17	35	1.95
32082681--32082765	44	1.9	44	95	0	152	29	23	10	36	1.88
32082725--32083095	27	13.5	27	83	7	406	26	20	17	36	1.94
32082932--32083006	35	2.1	35	87	0	105	25	14	14	45	1.83
32082965--32083114	81	1.9	81	85	2	212	24	18	17	39	1.92
32082590--32083114	196	2.8	196	83	6	512	26	19	17	36	1.94
32083152--32083276	27	4.6	27	85	5	130	28	8	22	40	1.84
32083339--32083413	27	2.8	27	87	4	98	42	8	18	30	1.79
32083072--32083512	230	1.9	229	81	1	533	32	9	19	37	1.85
32083392--32083597	27	7.6	27	83	0	250	33	9	18	38	1.83
32084572--32084727	51	3.2	50	74	14	146	33	26	14	24	1.94
32084630--32084794	43	3.9	43	82	1	152	31	30	16	21	1.96
32087274--32087320	23	2.0	23	100	0	94	34	17	12	36	1.87
32087840--32087883	15	2.9	15	83	10	54	56	18	15	9	1.65
32087858--32087900	15	2.9	15	86	6	52	53	20	11	13	1.71
32092052--32092090	21	1.9	21	89	5	62	48	10	5	35	1.59
32101854--32101953	51	2.0	51	81	0	119	31	26	18	25	1.97
32105241--32105296	30	1.9	28	86	13	78	14	46	25	14	1.82
32106455--32106677	49	4.7	49	70	11	183	22	29	18	29	1.97
32106409--32106620	93	2.2	95	79	9	229	26	28	18	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32113646--32113780	29	4.7	29	77	11	138	28	14	31	25	1.95
32113646--32113780	57	2.4	58	81	9	154	28	14	31	25	1.95
32118717--32118941	49	4.7	48	73	14	162	25	30	16	27	1.97
32118717--32118987	93	2.9	93	81	5	251	24	29	16	28	1.97
32120406--32120443	20	1.9	20	89	10	60	39	10	7	42	1.69
32124562--32124771	40	5.3	39	89	4	242	25	21	27	25	1.99
32124509--32124771	120	2.2	120	82	4	309	25	21	27	25	1.99
32124510--32124806	80	3.7	80	81	6	230	26	21	27	24	1.99
32126501--32126542	14	3.2	13	77	9	50	47	9	0	42	1.36
32127111--32127217	48	2.2	48	85	3	135	39	20	17	22	1.93
32132559--32132691	35	3.8	35	83	0	158	45	20	7	27	1.78
32150654--32150786	70	1.9	70	84	6	180	42	17	9	31	1.80
32150734--32150867	35	3.8	35	77	11	121	42	20	10	26	1.84
32161371--32161449	41	1.9	41	89	5	124	45	10	25	18	1.81
32161600--32161794	53	3.6	53	75	5	212	18	25	20	35	1.95
32161610--32161903	108	2.7	108	93	0	480	18	24	20	37	1.94
32171853--32172055	53	3.8	54	75	3	185	21	22	17	38	1.93
32177642--32177701	30	2.0	30	90	0	93	30	25	8	36	1.85
32184643--32184813	93	1.8	93	94	0	306	28	28	21	21	1.98
32184638--32184810	46	3.7	46	79	13	210	29	27	20	21	1.98
32185237--32185296	30	2.0	30	90	0	93	30	25	8	36	1.85
32188254--32188298	21	2.1	21	100	0	90	42	17	22	17	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32188650--32188953	40	7.6	40	89	3	427	24	21	27	26	1.99
32188650--32188987	120	2.8	119	85	5	380	25	21	26	26	1.99
32189537--32189631	48	2.0	48	97	0	181	24	8	28	38	1.84
32198246--32198564	40	8.0	40	90	3	466	27	20	25	26	1.99
32203839--32203872	9	3.8	9	92	0	59	91	2	0	5	0.51
32205953--32206006	20	2.7	20	97	0	99	20	22	3	53	1.61
32206871--32207012	45	3.1	44	82	7	169	18	20	17	43	1.88
32206960--32207301	45	7.6	45	78	4	172	24	20	17	38	1.93
32207001--32207259	88	2.9	89	85	3	315	25	20	17	36	1.95
32206960--32207259	90	3.4	89	79	8	281	24	20	17	37	1.94

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