genome.fa.s25.2.7.7.80.10.50.1000.113.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  113  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)
40610948--40611373	96	4.4	96	87	2	561	25	27	17	29	1.98
40611000--40611373	144	2.6	144	81	2	412	25	28	17	28	1.97
40613482--40613755	50	5.4	50	78	4	239	31	27	15	24	1.96
40620602--40620627	13	2.0	13	100	0	52	30	0	7	61	1.24
40622005--40622290	40	7.2	40	92	2	434	24	22	24	29	1.99
40628548--40628573	13	2.0	13	100	0	52	30	0	7	61	1.24
40638392--40638469	29	2.7	28	84	11	104	25	15	30	28	1.96
40638422--40638748	173	1.9	174	92	0	557	30	13	24	31	1.94
40641784--40642137	179	2.0	179	97	1	665	22	14	27	35	1.93
40646756--40646940	79	2.3	81	84	7	236	24	22	27	25	2.00
40646757--40646940	40	4.6	40	83	9	216	24	22	27	25	2.00
40646809--40646973	79	2.1	79	84	6	210	26	21	27	25	1.99
40653734--40653917	79	2.3	81	83	7	234	25	22	27	25	2.00
40653733--40653917	40	4.7	40	82	6	216	24	22	27	25	2.00
40653734--40653950	79	2.7	79	80	7	192	26	21	26	25	2.00
40662891--40663016	28	4.5	28	92	2	191	32	27	12	26	1.93
40663467--40663496	2	15.0	2	92	0	51	46	0	3	50	1.18
40668081--40668267	62	3.0	62	100	0	374	30	20	12	35	1.90
40674633--40674673	19	2.2	19	95	0	73	34	9	21	34	1.87
40678155--40678214	29	2.1	29	93	0	102	21	31	6	40	1.79
40692221--40692287	34	2.0	34	90	0	107	22	26	20	29	1.99
40694377--40694420	19	2.4	18	88	7	63	25	2	0	72	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40694377--40694431	9	6.1	9	79	10	51	29	1	0	69	0.99
40696957--40697023	25	2.7	25	81	9	82	23	20	26	28	1.99
40696961--40697075	25	4.6	25	75	14	76	26	20	26	26	1.99
40697009--40697073	24	2.6	25	83	11	89	32	21	23	23	1.98
40697797--40697837	12	3.7	12	75	18	52	53	14	0	31	1.41
40697800--40697846	21	2.2	21	100	0	94	57	12	0	29	1.36
40698929--40698972	22	1.9	24	90	9	74	25	20	0	54	1.45
40699367--40699393	2	13.5	2	100	0	54	48	0	0	51	1.00
40702578--40702670	46	2.0	46	100	0	186	23	5	21	49	1.70
40705230--40705271	22	2.0	21	85	4	57	26	0	7	66	1.17
40707272--40707305	17	2.0	17	88	0	50	50	0	11	38	1.39
40709372--40709556	40	4.6	40	93	0	289	29	29	18	22	1.97
40719339--40719559	40	5.6	40	93	2	358	22	27	23	25	2.00
40729210--40729474	47	5.7	46	75	13	240	24	29	17	28	1.97
40729211--40729477	94	2.9	94	94	1	448	24	29	17	28	1.97
40731815--40732096	48	5.8	49	75	7	245	27	26	17	29	1.97
40731812--40732096	96	2.9	96	86	5	369	27	26	17	29	1.97
40738253--40738291	17	2.3	17	81	0	51	35	28	12	23	1.91
40738566--40738605	21	2.0	21	90	5	64	22	22	40	15	1.91
40739836--40740004	48	3.5	47	77	12	182	27	27	15	29	1.96
40741602--40741653	8	6.5	8	77	0	50	46	13	21	19	1.84
40741876--40741949	29	2.6	29	91	2	114	24	14	32	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40746621--40746650	11	2.6	12	94	5	53	0	13	0	86	0.57
40747674--40747721	13	3.8	13	80	5	62	14	16	14	54	1.72
40747690--40747722	6	5.3	6	96	3	57	18	15	15	51	1.77
40762426--40762603	49	3.6	49	79	8	189	29	25	18	26	1.98
40762410--40762609	98	2.0	98	83	4	249	29	25	18	26	1.98
40763414--40763474	30	2.0	30	90	0	95	29	24	4	40	1.76
40766034--40766129	28	3.4	28	89	1	129	32	28	13	26	1.94
40768425--40768689	40	6.7	40	84	5	261	25	27	21	25	1.99
40768621--40768698	40	1.9	41	82	10	97	26	28	20	24	1.99
40777663--40777784	47	2.6	47	90	0	190	36	13	22	27	1.91
40784542--40784631	33	2.7	33	91	3	146	34	23	17	24	1.96
40793348--40793688	47	7.3	46	70	11	158	20	27	21	29	1.98
40794394--40794457	31	2.1	31	90	0	101	25	23	15	35	1.94
40794651--40794816	24	7.0	24	88	4	239	26	21	22	28	1.99
40794650--40794816	47	3.5	48	89	4	241	26	21	22	29	1.99
40794651--40794816	71	2.3	71	91	3	262	26	21	22	28	1.99
40794866--40794926	20	3.0	20	95	0	113	34	19	11	34	1.88
40794866--40794921	11	5.5	11	71	16	57	32	19	12	35	1.89
40796054--40796106	27	2.0	27	84	0	70	35	15	15	33	1.88
40796064--40796119	27	2.1	26	87	9	78	39	12	10	37	1.78
40796127--40796258	27	4.9	26	75	13	99	28	8	21	41	1.82
40796152--40796346	81	2.4	81	90	0	293	29	7	21	41	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40796154--40796332	27	6.7	27	81	8	186	29	7	20	43	1.79
40796332--40796528	27	7.3	27	88	0	241	41	9	20	27	1.84
40797943--40798000	30	1.9	30	85	0	80	31	24	10	34	1.89
40798825--40798896	27	2.7	27	91	0	108	26	15	19	38	1.91
40798847--40798969	27	4.6	27	80	6	97	21	17	19	41	1.90
40806358--40806745	49	7.8	49	81	3	479	28	19	25	27	1.98
40806353--40806740	100	3.9	100	98	0	686	27	19	25	27	1.99
40808700--40808778	37	2.1	37	90	0	122	25	31	18	24	1.98
40808897--40809072	47	3.7	47	86	1	228	27	31	9	31	1.88
40813099--40813158	28	2.2	29	82	14	74	26	21	23	28	1.99
40813314--40813378	27	2.4	27	79	2	69	40	20	21	18	1.92
40813514--40813630	27	4.3	27	86	0	144	26	20	17	35	1.94
40813513--40813630	54	2.2	54	87	0	164	26	20	17	35	1.95
40813609--40813753	27	5.4	26	80	3	128	31	9	20	37	1.85
40813513--40813644	54	2.4	54	84	2	158	27	18	18	35	1.94
40813624--40813768	54	2.7	54	83	0	173	34	11	17	37	1.85
40813624--40813775	27	5.7	27	83	3	155	32	11	19	36	1.87
40817650--40817799	27	5.6	27	80	12	155	40	20	8	30	1.83
40817642--40817791	54	2.8	53	79	6	176	38	21	8	31	1.84
40817650--40817818	54	3.1	52	73	16	139	39	20	9	30	1.84
40817811--40817979	27	6.3	27	89	0	257	30	23	7	39	1.82
40817770--40817953	54	3.4	54	84	3	174	30	22	9	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40817824--40818009	81	2.3	81	87	0	264	30	23	8	38	1.83
40817644--40818044	27	14.9	27	76	5	119	35	22	8	34	1.84
40818029--40818197	27	6.3	27	85	0	203	36	17	18	27	1.94
40818002--40818198	81	2.4	81	82	1	198	37	18	16	27	1.92
40818592--40818679	6	14.3	6	73	17	74	19	18	14	47	1.82
40818592--40818670	31	2.5	31	91	0	122	18	18	13	48	1.81
40819836--40819954	27	4.4	27	85	0	166	35	20	21	23	1.96
40821394--40821446	18	3.1	18	66	33	53	43	28	11	16	1.83
40821384--40821446	33	1.9	33	100	0	126	42	28	9	19	1.82
40838783--40838842	27	2.2	27	84	3	75	33	20	10	36	1.86
40838796--40838875	27	3.0	27	88	3	108	26	16	17	40	1.90
40841883--40842041	47	3.7	38	69	20	93	25	30	11	31	1.92
40842015--40843037	49	21.0	49	99	0	1973	30	28	8	32	1.86
40844496--40844615	56	2.1	56	98	0	231	22	23	9	45	1.81
40854427--40854456	5	5.8	5	92	7	51	80	0	20	0	0.72
40863339--40863482	40	3.6	40	87	3	211	24	27	25	23	2.00
40865529--40865611	20	4.2	20	88	0	112	42	25	19	13	1.87
40865529--40865611	40	2.1	40	90	0	130	42	25	19	13	1.87
40866976--40867197	40	5.6	39	84	6	236	23	22	27	26	2.00
40866976--40867197	79	2.8	79	84	4	268	23	22	27	26	2.00
40875301--40875524	40	5.6	40	84	7	242	27	27	21	23	1.99
40875264--40875524	80	3.3	79	82	6	228	27	27	21	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40875304--40875524	120	1.8	120	84	9	308	27	27	21	23	1.99
40881802--40881903	52	2.0	52	94	0	177	29	25	13	31	1.94
40882787--40882930	40	3.6	40	82	10	152	27	27	20	24	1.99
40884911--40885137	40	5.7	39	86	6	255	24	23	27	24	2.00
40884911--40885157	79	3.1	79	80	11	242	24	23	27	24	2.00
40887283--40887414	20	6.6	20	90	0	201	40	24	18	15	1.90
40887256--40887414	40	4.0	40	85	0	201	38	23	21	16	1.93
40887256--40887414	60	2.7	60	87	0	228	38	23	21	16	1.93
40892256--40892287	16	2.0	16	100	0	64	18	50	18	12	1.78
40895638--40895774	43	3.2	43	75	10	111	27	18	24	29	1.98

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