genome.fa.s7.2.7.7.80.10.50.1000.137.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  137  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)
46416561--46416591	12	2.6	12	100	0	62	12	51	25	9	1.70
46418198--46418250	26	2.0	27	85	7	74	24	15	22	37	1.92
46420146--46420342	39	5.1	39	88	2	279	33	31	19	15	1.93
46421287--46421328	22	1.9	22	100	0	84	30	11	0	57	1.35
46427551--46427607	28	2.1	28	93	3	98	61	3	3	31	1.30
46431882--46431957	40	1.9	40	88	0	116	14	13	34	38	1.85
46432590--46432634	22	2.0	22	100	0	90	15	40	4	40	1.67
46433213--46433303	45	2.0	45	100	0	182	41	15	2	40	1.59
46438102--46438146	20	2.2	20	88	0	63	48	0	11	40	1.39
46465106--46465189	44	1.9	44	82	4	107	38	13	23	25	1.91
46465283--46465388	47	2.3	47	91	0	176	35	12	24	27	1.91
46478438--46478653	47	4.6	47	97	0	396	35	14	25	25	1.93
46478640--46478828	55	3.5	55	77	9	174	35	17	23	23	1.95
46478632--46478839	54	3.9	54	78	7	197	36	16	23	24	1.94
46484030--46484133	44	2.4	44	98	0	199	26	25	23	25	2.00
46484165--46484261	40	2.4	40	91	0	167	25	25	18	29	1.98
46491586--46491683	40	2.5	40	86	5	153	26	24	18	30	1.98
46495601--46495642	21	2.0	21	95	0	75	26	23	30	19	1.98
46496334--46496393	6	9.7	6	90	3	93	83	1	1	13	0.80
46498301--46498350	25	2.0	25	84	7	66	60	2	2	36	1.20
46499880--46499918	16	2.4	16	78	0	51	48	0	0	51	1.00
46508845--46509035	6	33.0	6	64	27	67	43	2	3	50	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46508858--46508917	25	2.3	26	78	16	63	41	3	5	50	1.41
46508908--46509036	11	10.9	12	65	31	50	44	2	3	49	1.30
46508910--46509029	32	3.6	33	74	15	129	45	2	3	49	1.32
46508845--46509043	69	2.9	69	93	1	330	43	2	4	49	1.36
46509966--46510054	34	2.6	34	85	0	124	25	16	12	44	1.83
46513009--46513158	45	3.3	44	85	2	192	28	16	18	36	1.92
46519091--46519142	27	1.9	27	84	0	68	28	15	15	40	1.88
46519788--46519916	64	2.0	64	87	3	188	27	18	7	45	1.77
46522764--46522931	45	3.7	44	77	3	147	28	15	17	38	1.90
46523090--46523215	67	1.9	67	85	3	173	40	13	19	26	1.88
46527735--46527765	16	1.9	16	93	0	53	41	0	3	54	1.16
46527845--46527875	12	2.6	12	94	0	53	74	0	25	0	0.82
46540092--46540413	67	4.8	67	82	1	378	33	17	24	24	1.96
46542405--46542654	27	9.3	27	89	0	356	23	23	19	34	1.97
46542406--46542683	81	3.4	81	84	3	339	24	22	19	34	1.96
46542409--46542654	54	4.6	54	95	0	413	23	23	18	34	1.96
46542639--46542751	54	2.1	54	81	0	127	34	9	21	34	1.86
46542712--46542820	27	4.0	27	87	2	157	42	7	21	29	1.79
46542712--46542820	54	2.0	54	90	0	173	42	7	21	29	1.79
46542830--46542979	27	5.6	27	81	6	178	30	8	20	40	1.82
46549373--46549411	19	2.0	20	85	5	53	64	5	2	28	1.28
46553178--46553239	21	2.9	19	76	19	54	66	0	4	29	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46553263--46553304	21	2.0	22	90	4	68	73	2	2	21	1.06
46553624--46553688	14	4.6	14	75	9	53	63	0	3	33	1.10
46576077--46576138	21	2.9	19	76	19	54	66	0	4	29	1.12
46576162--46576205	23	1.9	23	95	0	79	77	2	0	20	0.88
46580255--46580283	13	2.1	14	93	6	51	79	0	17	3	0.87
46582453--46582620	56	3.0	55	79	7	178	27	13	23	35	1.92
46591285--46591416	56	2.4	56	89	0	201	28	13	23	34	1.93
46592732--46592769	2	19.5	2	83	5	51	50	0	2	47	1.15
46595082--46595137	23	2.5	22	82	8	60	12	7	1	78	1.02
46597665--46597699	18	2.0	17	88	5	52	37	17	5	40	1.73
46598912--46598943	16	2.0	16	100	0	64	31	0	12	56	1.37
46605462--46605514	23	2.5	20	80	16	70	33	11	0	54	1.36
46605468--46605514	23	2.1	23	92	4	78	31	10	0	57	1.33
46609306--46609371	18	3.7	18	97	0	123	34	13	12	39	1.82
46611560--46611621	13	4.8	13	83	0	88	35	24	8	32	1.85
46614146--46614221	27	2.8	27	85	0	98	43	19	10	26	1.83
46614147--46614221	9	8.3	9	84	0	87	42	20	10	26	1.84
46614243--46614283	6	6.5	6	89	10	64	17	0	2	80	0.82
46614243--46614280	14	2.9	13	92	7	60	18	0	2	78	0.86
46634693--46634831	29	4.8	29	83	2	147	26	12	32	28	1.93
46646593--46646749	24	6.4	25	67	13	87	38	20	23	17	1.93
46646658--46646749	25	3.7	25	71	8	89	36	20	25	17	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46646732--46646791	26	2.3	26	80	5	68	41	20	20	18	1.90
46647739--46647764	12	2.2	12	100	0	52	61	15	7	15	1.55
46648457--46648530	22	3.3	22	66	26	64	36	4	20	39	1.71
46648436--46648530	46	2.1	46	97	0	181	34	4	21	40	1.72
46648632--46648753	41	2.9	42	85	3	156	30	15	24	29	1.96
46650639--46650695	28	2.0	28	93	0	96	26	7	17	49	1.72
46653917--46654014	44	2.3	44	82	7	121	31	24	20	23	1.98
46662781--46662830	21	2.3	23	83	13	70	32	22	14	32	1.93
46666128--46666159	16	1.9	17	93	6	57	9	6	34	50	1.60
46668766--46668824	30	2.0	30	83	3	75	37	11	23	27	1.90
46669151--46669321	46	3.7	45	77	9	157	28	16	30	24	1.96
46671886--46672059	49	3.5	48	80	4	213	27	18	24	29	1.98
46671881--46672062	99	1.8	99	91	0	301	26	19	24	29	1.99
46691189--46691361	46	3.8	45	72	14	147	22	19	27	31	1.98
46691185--46691356	93	1.8	93	86	2	247	22	19	28	30	1.98
46695736--46695874	49	2.8	50	86	4	183	28	29	17	23	1.97
46695746--46695877	50	2.7	50	88	3	178	29	29	17	23	1.97
46697786--46697899	42	2.7	43	73	5	115	28	21	19	30	1.98
46700356--46700381	7	3.7	7	100	0	52	26	15	11	46	1.80
46708406--46708527	48	2.6	46	84	5	147	31	26	14	27	1.95
46711086--46711142	30	1.9	30	85	7	80	57	15	14	12	1.65
46711104--46711142	15	2.6	15	91	0	69	58	20	12	7	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46711353--46711890	268	2.0	268	98	0	1049	38	20	14	26	1.91
46713764--46713895	43	3.0	43	83	3	131	28	27	17	27	1.98
46719822--46719872	15	3.5	15	72	5	50	47	27	1	23	1.63
46720119--46720320	41	5.0	41	87	3	203	23	25	19	32	1.98
46721068--46721196	48	2.7	48	90	1	197	31	24	14	29	1.95
46731933--46731978	22	2.0	24	84	12	62	45	0	2	52	1.13
46733083--46733147	20	3.0	20	70	12	58	41	3	1	53	1.25
46748851--46748882	11	2.9	11	90	0	55	31	3	46	18	1.65
46752669--46752739	18	3.9	18	83	0	97	32	12	22	32	1.92
46752667--46752737	36	2.0	36	91	0	115	30	12	22	33	1.91
46753276--46753317	21	2.0	22	90	4	68	28	2	47	21	1.63
46753276--46753317	11	4.0	10	87	3	57	28	2	47	21	1.63
46759282--46759334	23	2.3	23	96	0	97	35	3	24	35	1.74
46769205--46769264	24	2.5	24	88	2	93	48	21	15	15	1.81
46769343--46769404	25	2.4	25	84	12	74	37	20	24	17	1.94
46769906--46769935	5	6.0	5	92	0	51	16	0	3	80	0.85
46772531--46772576	18	2.6	18	89	0	65	26	36	23	13	1.91
46776937--46776983	12	3.8	12	86	10	60	82	0	17	0	0.66
46776941--46776980	14	2.9	14	88	0	62	82	0	17	0	0.67
46779889--46779918	5	6.0	5	92	0	51	16	0	3	80	0.85
46783209--46783251	23	1.9	23	90	4	70	51	6	2	39	1.42
46783200--46783279	23	3.6	22	74	21	69	52	6	1	40	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46783197--46783278	40	2.0	40	81	9	96	50	6	2	41	1.40
46784032--46784072	19	2.1	19	90	4	64	51	4	2	41	1.36
46784189--46784366	60	3.0	60	80	5	189	41	3	12	42	1.61
46797352--46797400	21	2.3	21	96	0	89	51	18	6	24	1.69
46805096--46805130	15	2.3	15	90	0	52	80	0	20	0	0.72
46807724--46807772	24	2.0	24	100	0	98	57	12	12	18	1.65
46816310--46816401	27	3.4	27	67	16	66	47	1	3	47	1.25
46820751--46820783	14	2.4	14	94	0	57	36	0	15	48	1.45
46823190--46823339	43	3.5	44	77	4	171	30	25	16	28	1.96
46837897--46838047	68	2.3	64	81	10	162	29	15	27	26	1.96

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