genome.fa.s7.2.7.7.80.10.50.1000.88.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_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  88  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)
29493210--29493239	6	5.0	6	91	0	51	16	20	0	63	1.31
29493205--29493239	12	2.8	12	86	4	52	14	22	0	62	1.31
29493142--29493294	73	2.1	73	83	11	192	24	19	3	51	1.64
29495621--29495728	54	2.0	54	89	3	164	39	8	21	30	1.83
29497777--29497962	27	6.9	26	85	8	223	33	21	26	18	1.97
29497795--29497962	54	3.1	55	89	5	254	33	22	26	17	1.96
29497795--29497963	81	2.1	81	90	4	261	33	22	26	17	1.96
29505703--29505768	25	2.6	25	87	0	105	31	21	19	27	1.97
29510458--29510649	21	9.3	21	63	15	78	20	30	16	33	1.94
29510441--29510666	41	5.5	41	87	2	310	19	29	16	34	1.94
29510441--29510666	123	1.8	123	88	1	346	19	29	16	34	1.94
29512166--29512190	10	2.5	10	100	0	50	20	20	0	60	1.37
29517115--29517156	20	2.0	22	86	9	61	19	7	7	66	1.39
29517661--29517694	9	3.9	9	84	7	52	44	0	2	52	1.16
29537767--29537805	16	2.4	17	91	4	62	10	28	46	15	1.78
29538217--29538309	41	2.3	40	90	5	145	18	12	36	32	1.89
29542568--29542733	83	2.0	83	92	0	278	26	37	12	24	1.90
29553936--29554022	44	2.0	44	95	0	156	31	13	9	45	1.75
29560226--29560266	21	2.0	21	85	9	57	39	2	12	46	1.54
29564355--29564427	35	2.1	35	100	0	146	43	10	13	31	1.79
29570838--29570882	22	2.0	22	91	0	72	48	15	2	33	1.57
29576212--29576271	28	2.1	30	81	6	70	30	1	3	65	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29580159--29580724	279	2.0	279	97	0	1062	42	21	6	29	1.78
29581718--29581849	69	1.9	68	90	0	201	26	21	5	45	1.73
29582984--29583052	7	10.8	6	80	16	77	15	5	2	75	1.12
29582984--29583052	13	5.4	12	80	16	77	15	5	2	75	1.12
29582984--29583064	38	2.2	38	97	2	155	14	7	2	75	1.13
29583006--29583065	13	4.8	13	76	13	54	15	8	1	75	1.12
29582997--29583077	38	2.1	38	88	4	119	18	7	2	71	1.21
29594100--29594156	22	2.6	22	81	15	73	22	1	1	73	1.02
29604138--29604201	16	4.0	16	75	13	51	40	4	1	53	1.31
29604158--29604191	18	1.9	18	88	5	52	41	5	0	52	1.25
29615612--29615641	6	5.0	6	100	0	60	33	0	50	16	1.46
29615597--29615641	18	2.5	18	85	0	54	37	0	42	20	1.52
29631671--29631802	49	2.7	49	83	5	167	22	28	20	28	1.99
29631813--29631939	46	2.7	46	88	1	191	22	31	17	28	1.97
29632643--29632667	13	1.9	13	100	0	50	64	16	4	16	1.44
29638428--29638598	46	3.7	46	82	4	209	22	30	19	27	1.98
29638428--29638601	94	1.9	92	86	4	251	22	31	19	27	1.98
29639306--29639330	13	1.9	13	100	0	50	64	16	4	16	1.44
29641600--29641628	6	4.8	6	100	0	58	34	31	17	17	1.93
29646348--29646418	36	2.0	36	83	5	90	21	35	22	21	1.96
29646682--29646719	20	1.9	20	89	10	60	42	18	5	34	1.73
29650845--29650953	54	2.1	51	83	11	134	25	11	22	40	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29656111--29656137	13	2.1	13	100	0	54	22	7	22	48	1.75
29661510--29661702	40	4.8	40	91	2	300	24	28	23	23	2.00
29661510--29661699	81	2.4	81	91	2	305	24	27	24	23	2.00
29667238--29667361	43	2.9	42	77	15	121	29	25	19	26	1.98
29668238--29668273	9	4.0	9	100	0	72	44	22	0	33	1.53
29672021--29672069	15	3.1	16	80	8	55	65	8	4	22	1.37
29675122--29675174	26	2.0	26	100	0	106	28	15	26	30	1.96
29679773--29679925	28	5.5	28	91	0	198	24	28	18	28	1.98
29686769--29686835	28	2.4	28	84	0	89	28	31	13	26	1.94
29689656--29689685	10	3.0	10	90	0	51	63	26	0	10	1.26
29700797--29700823	11	2.5	11	100	0	54	44	18	0	37	1.50
29706280--29706304	13	1.9	13	100	0	50	28	8	0	64	1.22
29717080--29717213	56	2.4	56	87	1	189	34	24	16	24	1.95
29719214--29719371	68	2.3	68	78	11	169	20	29	15	34	1.94
29719509--29719663	77	2.0	77	93	0	265	52	8	7	30	1.60
29722709--29722758	16	3.2	16	78	13	59	36	6	0	58	1.23
29723631--29723722	44	2.1	44	85	4	123	22	19	22	34	1.96
29726053--29726111	30	2.0	30	100	0	118	22	16	37	23	1.94
29728706--29728926	49	4.6	49	72	8	179	26	28	18	27	1.98
29746844--29746972	46	2.8	46	92	0	204	32	30	18	18	1.95
29754207--29754265	25	2.2	27	82	11	68	42	5	5	47	1.47
29758068--29758232	43	3.9	42	95	0	267	30	20	26	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29758241--29758382	43	3.3	43	90	5	216	25	19	30	24	1.98
29758096--29758384	146	2.0	146	90	2	456	26	19	28	26	1.99
29758138--29758335	103	1.9	103	89	4	310	24	19	29	26	1.98
29758755--29758816	21	3.0	21	92	0	97	3	53	17	25	1.59
29759197--29759235	14	2.8	13	85	14	51	53	7	2	35	1.43
29759402--29759440	17	2.4	17	86	4	53	48	0	10	41	1.37
29764443--29764632	9	20.6	9	72	11	107	37	1	13	47	1.52
29764443--29764605	71	2.3	69	84	4	202	38	1	12	47	1.50
29764479--29764663	96	2.0	90	86	9	259	38	2	11	47	1.53
29764419--29764632	114	1.9	114	84	5	290	38	1	13	47	1.51
29764737--29764792	15	3.8	15	76	21	64	51	0	1	46	1.11
29765002--29766240	358	3.5	358	98	0	2399	38	11	14	35	1.83
29766464--29766492	15	1.9	15	100	0	58	48	20	6	24	1.74
29766814--29767654	420	2.0	420	99	0	1673	37	15	12	34	1.85
29767640--29767668	15	1.9	15	100	0	58	48	20	6	24	1.74
29767870--29768238	183	2.0	183	95	0	666	42	14	15	27	1.86
29768309--29768338	14	2.2	13	94	5	51	36	13	0	50	1.42
29770880--29770928	15	3.5	15	73	21	61	28	0	53	18	1.45
29770879--29770937	26	2.3	26	97	2	111	27	0	52	20	1.47
29771254--29771309	21	2.7	21	88	2	78	37	32	1	28	1.68
29771527--29771570	21	2.0	22	91	4	72	43	38	0	18	1.50
29771630--29771890	41	6.4	41	92	0	416	21	22	19	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29771630--29771921	123	2.4	122	90	1	433	21	22	19	36	1.95
29782191--29782236	24	1.9	24	82	8	58	36	21	34	6	1.80
29787825--29787949	42	3.0	42	80	0	142	44	16	20	18	1.86
29787875--29787952	21	3.7	21	74	6	68	44	12	23	19	1.84
29790348--29790373	9	2.9	9	100	0	52	57	23	0	19	1.40
29791012--29791071	30	2.0	30	96	0	111	25	0	15	60	1.35
29792208--29792272	28	2.3	27	79	7	76	61	0	10	27	1.29
29795643--29795717	28	2.7	28	78	0	87	29	18	25	26	1.98
29799620--29799649	16	1.9	15	93	6	51	56	3	0	40	1.16
29812494--29812531	20	2.0	20	90	10	62	2	18	0	78	0.86
29813740--29813785	25	1.9	23	86	8	65	67	0	0	32	0.91
29822045--29822158	23	5.0	23	69	17	76	23	15	20	40	1.91
29824167--29824435	47	5.8	45	77	11	231	20	30	21	27	1.98
29824165--29824435	94	2.9	91	78	12	309	20	30	21	28	1.98
29831123--29831254	60	2.2	59	82	8	160	29	18	25	26	1.98
29836814--29837014	54	3.7	54	78	5	210	19	24	19	36	1.95
29838293--29838338	20	2.3	20	100	0	92	34	30	26	8	1.86
29842494--29842674	90	2.0	90	92	0	299	44	15	17	22	1.86
29855547--29855644	41	2.3	43	84	10	123	26	14	30	28	1.95
29860239--29860725	81	6.0	81	99	0	947	39	20	17	22	1.92
29866121--29866218	49	2.0	49	89	0	151	53	7	18	21	1.68
29868810--29868896	9	9.0	9	72	14	57	37	3	1	57	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29872631--29872853	40	5.6	40	87	3	281	26	27	22	24	2.00
29873404--29873493	45	2.0	45	100	0	180	40	24	13	22	1.90
29880908--29880988	41	2.0	41	83	13	105	35	9	2	51	1.48
29887151--29887207	21	2.7	21	75	0	69	40	15	24	19	1.90
29887130--29887277	42	3.6	41	78	8	138	45	15	19	19	1.86
29887827--29887970	72	2.0	72	98	0	279	20	22	10	45	1.81
29892584--29893566	40	24.6	40	97	0	1756	27	27	20	24	1.99
29894996--29895141	73	2.0	73	98	0	283	21	30	22	26	1.99
29902978--29904957	844	2.3	844	91	0	3156	31	19	13	35	1.91
29906120--29906223	42	2.5	42	82	0	118	43	13	24	19	1.86

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