genome.fa.s25.2.7.7.80.10.50.1000.30.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  30  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)
10243541--10243696	82	1.9	81	88	3	233	26	15	28	29	1.96
10243537--10243717	82	2.2	81	83	2	229	27	15	27	29	1.96
10260236--10260301	32	2.1	32	97	0	123	39	30	9	21	1.84
10264574--10264746	55	3.5	48	83	13	217	26	26	16	31	1.96
10264586--10264696	55	2.0	55	100	0	222	27	23	16	32	1.96
10275777--10275947	46	3.7	45	77	12	152	23	30	18	26	1.98
10275776--10275950	94	1.9	92	82	11	223	23	30	18	26	1.98
10279342--10279509	40	4.2	40	82	8	148	27	27	20	24	1.99
10279379--10279509	40	3.3	40	89	2	201	28	27	20	23	1.99
10279342--10279562	80	2.8	80	79	11	229	26	27	21	24	1.99
10283802--10283851	18	2.8	18	90	0	64	38	20	24	18	1.93
10284166--10284260	27	3.6	27	81	1	111	42	20	16	21	1.90
10289030--10289089	12	5.0	12	74	8	59	26	33	23	16	1.96
10291256--10291426	93	1.8	94	85	1	245	36	18	25	20	1.95
10295079--10295109	16	1.9	16	93	0	53	35	22	0	41	1.54
10295076--10295115	20	2.0	20	85	0	53	37	22	0	40	1.54
10295322--10295447	55	2.4	53	79	7	125	20	26	15	37	1.93
10306629--10306785	28	5.5	28	72	12	97	29	29	17	22	1.97
10306657--10306785	29	4.5	29	78	12	124	31	29	17	22	1.96
10306657--10306817	57	2.8	57	91	0	241	29	29	18	22	1.97
10306823--10307698	40	21.9	40	98	0	1657	29	29	20	20	1.97
10311866--10311925	22	2.8	21	75	7	57	18	21	23	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10316646--10316884	74	3.3	74	86	5	303	30	25	13	30	1.94
10316701--10316817	35	3.2	35	68	17	112	30	28	11	29	1.91
10316689--10316916	69	3.2	69	83	4	181	29	25	15	29	1.96
10321553--10321721	42	4.0	43	74	9	130	33	25	17	24	1.96
10328260--10328528	46	5.8	46	79	15	313	21	20	28	29	1.98
10328257--10328520	93	2.8	93	97	1	494	22	20	28	28	1.98
10337999--10338183	40	4.6	40	91	0	289	25	29	21	22	1.99
10338117--10338399	141	2.0	140	89	5	437	36	24	11	27	1.90
10345892--10346069	27	6.6	27	84	3	205	29	28	15	26	1.96
10345913--10346068	82	1.9	81	88	3	233	29	28	15	26	1.96
10353947--10354124	27	6.6	27	84	3	205	29	28	15	26	1.96
10353968--10354123	82	1.9	81	88	3	233	29	28	15	26	1.96
10358842--10358908	30	2.3	29	97	2	125	34	25	16	23	1.95
10363664--10363804	29	4.9	29	78	6	108	28	31	12	26	1.93
10369781--10369921	22	6.4	22	89	0	192	28	14	20	36	1.92
10369814--10369936	44	2.8	44	87	2	140	27	16	20	35	1.94
10372093--10372118	12	2.2	12	100	0	52	50	7	0	42	1.31
10372564--10372661	27	3.5	28	90	2	135	26	13	28	31	1.94
10372592--10372674	27	3.0	27	87	5	96	30	12	25	32	1.92
10378484--10378699	94	2.3	91	83	3	254	25	18	30	25	1.98
10378430--10378790	47	7.7	47	69	16	171	26	19	31	22	1.98
10386566--10386598	17	2.0	17	94	5	59	36	15	0	48	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10386879--10387127	46	5.4	45	83	2	273	20	22	14	41	1.89
10386884--10387102	91	2.4	92	83	1	269	21	23	14	41	1.89
10407173--10407236	33	1.9	33	96	0	119	32	23	18	25	1.97
10412741--10412862	47	2.6	47	94	0	208	36	13	23	26	1.91
10412833--10413047	54	4.0	54	77	7	204	36	14	25	23	1.93
10412849--10413072	108	2.1	109	83	4	274	37	15	24	22	1.93
10415837--10415982	40	3.7	40	82	7	172	23	22	28	25	2.00
10415837--10416015	80	2.2	80	80	6	186	25	21	27	25	2.00
10422465--10422889	40	10.6	40	93	2	669	24	20	27	26	1.99
10423761--10423887	64	2.0	64	96	0	236	18	20	26	33	1.96
10430061--10430239	85	2.1	85	100	0	358	39	8	26	26	1.84
10439053--10439235	40	4.6	39	80	9	192	24	20	28	26	1.99
10439088--10439268	79	2.3	78	77	11	197	25	19	27	27	1.99
10447394--10447563	55	3.1	54	76	4	155	19	23	19	37	1.94
10460318--10460489	93	1.8	93	96	0	317	27	29	21	20	1.98
10460311--10460486	46	3.8	46	79	12	216	28	29	21	20	1.98
10465457--10465500	22	2.0	22	95	0	79	31	31	11	25	1.91
10480623--10480845	46	4.7	48	76	12	187	27	19	29	23	1.98
10480668--10480843	92	1.9	95	85	4	250	26	18	30	23	1.98
10481905--10481931	5	5.4	5	100	0	54	0	37	0	62	0.95
10483419--10483583	43	3.8	43	80	6	142	33	21	15	29	1.95
10488043--10488137	24	4.0	24	94	0	163	32	1	38	27	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10489339--10489395	28	2.0	28	100	0	114	45	17	10	26	1.81
10489341--10489407	28	2.4	28	92	0	107	44	20	8	25	1.80
10489568--10489678	27	4.1	27	80	4	82	16	24	20	38	1.92
10489597--10489675	27	3.0	26	85	9	88	16	26	18	37	1.92
10495945--10496045	24	4.2	24	88	0	139	32	2	40	23	1.70
10497462--10497572	27	4.2	26	84	3	116	15	22	21	40	1.90
10497462--10497572	54	2.1	53	84	5	143	15	22	21	40	1.90
10501148--10501207	29	2.0	29	83	3	75	40	21	20	18	1.92
10507089--10507167	38	2.1	37	86	6	106	26	30	17	25	1.97
10507290--10508346	48	22.1	48	97	1	1869	29	30	8	31	1.87
10518608--10518701	27	3.5	26	85	5	125	41	20	22	15	1.90
10519664--10519713	25	2.0	25	92	0	82	28	32	8	32	1.86
10525105--10525213	27	4.0	27	81	7	114	39	20	22	18	1.92
10534024--10534090	13	4.9	13	71	25	50	22	0	4	73	1.01
10534024--10534092	10	6.4	10	82	12	52	21	0	4	73	1.00
10534238--10534282	15	2.9	15	83	12	56	17	0	2	80	0.82
10534252--10534282	7	4.3	7	95	4	53	16	0	0	83	0.64
10541537--10541593	28	2.0	28	93	0	96	38	15	22	22	1.92
10541677--10541752	38	2.0	38	100	0	152	28	10	10	50	1.70
10542279--10542410	49	2.7	49	80	4	142	31	20	25	23	1.98
10549559--10549714	43	3.7	42	73	10	120	32	26	17	23	1.97
10549600--10549715	43	2.7	43	86	4	146	31	27	19	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10551080--10551119	20	2.0	21	85	5	55	42	0	20	37	1.52
10551775--10551901	46	2.7	46	80	6	139	26	19	29	24	1.99
10551874--10552001	49	2.6	49	76	7	125	31	23	23	21	1.99
10554354--10554450	26	3.7	26	84	0	104	21	26	21	29	1.99
10557090--10557161	26	2.8	26	82	0	81	40	20	16	22	1.91
10557584--10557621	17	2.1	19	85	9	53	21	42	26	10	1.85
10564796--10564846	26	2.1	25	82	10	61	39	19	17	23	1.92
10564803--10564867	26	2.5	26	84	0	85	35	21	21	21	1.96
10565473--10565518	24	2.0	23	82	4	56	15	26	10	47	1.78
10568984--10569166	101	1.8	101	86	0	267	31	25	16	26	1.97
10568936--10569178	50	4.9	50	77	1	236	31	25	16	25	1.97
10571915--10571944	15	2.0	15	93	0	51	56	13	16	13	1.67
10574615--10574650	18	2.0	18	100	0	72	50	16	5	27	1.68
10576505--10576893	40	9.8	40	78	6	441	24	21	27	25	1.99
10576506--10576913	79	5.1	79	96	0	717	24	21	27	26	1.99
10578583--10578688	43	2.5	42	82	1	131	30	13	25	31	1.93
10591631--10593059	750	1.9	745	81	5	1754	32	21	13	32	1.92
10613940--10614080	3	47.0	3	100	0	282	33	0	0	66	0.92
10617099--10617166	30	2.2	31	82	7	77	47	22	10	20	1.80
10617313--10617346	3	11.3	3	100	0	68	35	0	32	32	1.58
10617987--10618094	54	2.0	54	98	0	207	23	16	31	28	1.96
10618174--10618207	3	11.7	3	87	6	52	0	26	0	73	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10618166--10618209	12	3.8	12	85	8	65	0	22	0	77	0.77
10618522--10618587	29	2.3	26	80	16	78	59	4	4	31	1.38
10623208--10623300	25	3.7	25	82	4	98	35	19	24	20	1.96
10623243--10623331	24	3.6	25	77	8	78	34	19	28	17	1.95
10624805--10624946	59	2.4	58	79	1	158	38	14	27	19	1.90
10630562--10630623	31	2.0	31	100	0	124	19	3	22	54	1.58
10640136--10640286	43	3.5	44	83	6	202	28	15	23	31	1.96
10642308--10642464	43	3.7	43	78	6	158	32	28	17	22	1.96
10642307--10642464	86	1.8	86	82	5	203	32	27	17	22	1.96
10651603--10651829	27	8.4	26	79	7	168	37	21	8	31	1.84

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