genome.fa.s7.2.7.7.80.10.50.1000.118.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  118  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)
40195361--40195454	31	3.3	31	60	20	76	17	23	31	27	1.96
40195331--40195453	55	2.2	55	98	0	237	16	26	30	26	1.97
40195984--40196031	19	2.6	18	83	6	60	56	2	8	33	1.41
40204687--40205729	522	2.0	522	100	0	2086	34	12	18	33	1.89
40206759--40206802	16	2.8	16	85	0	61	34	25	2	38	1.68
40219221--40219292	37	1.9	37	81	10	85	43	18	0	38	1.50
40220045--40220077	13	2.5	13	95	0	57	0	18	0	81	0.68
40220129--40220180	5	10.2	5	97	2	95	57	0	0	42	0.98
40220130--40220224	10	10.7	9	78	13	67	56	2	0	41	1.11
40224430--40224483	27	2.0	27	82	10	67	37	1	0	61	1.07
40226251--40226289	19	2.0	20	85	5	53	58	7	0	33	1.26
40226856--40226892	18	2.2	17	86	13	51	5	8	5	81	0.99
40227696--40227781	28	3.1	26	76	6	73	40	2	1	55	1.20
40230678--40230746	34	2.0	34	94	0	120	44	14	11	28	1.80
40231445--40231472	4	7.0	4	100	0	56	75	0	25	0	0.81
40232136--40232161	5	5.2	5	100	0	52	0	19	0	80	0.71
40236437--40236469	17	1.9	17	93	0	57	45	12	0	42	1.41
40238881--40239057	46	3.8	46	88	4	225	24	24	19	31	1.98
40246324--40246642	46	6.8	48	75	13	233	24	29	18	27	1.98
40248196--40248239	22	2.0	21	86	4	61	15	34	29	20	1.94
40252131--40252333	46	4.3	48	88	7	265	35	14	21	28	1.92
40252065--40252333	98	2.7	98	93	0	457	34	14	22	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40252297--40252442	37	4.0	37	93	1	242	36	16	21	24	1.94
40254703--40254831	48	2.7	48	92	1	215	21	13	31	33	1.93
40254857--40254914	29	2.0	29	100	0	116	24	20	20	34	1.97
40259494--40259698	104	2.0	104	87	0	293	27	25	12	34	1.92
40263607--40263693	21	4.0	23	80	10	92	37	25	21	14	1.92
40265177--40265231	27	1.9	30	82	10	71	3	20	5	70	1.22
40267625--40267873	128	2.0	127	91	0	408	38	21	14	26	1.91
40270062--40270525	178	2.6	177	85	5	563	28	23	18	29	1.98
40275164--40275207	21	2.1	21	91	0	70	54	9	11	25	1.65
40281872--40282068	100	2.0	99	95	1	358	38	22	15	24	1.92
40285652--40285765	43	2.7	43	83	0	129	21	21	23	33	1.97
40297695--40297756	3	21.0	3	79	9	56	56	4	4	33	1.42
40297984--40298027	14	3.1	14	78	15	54	52	4	9	34	1.54
40297983--40298072	26	3.4	25	79	11	74	51	2	11	35	1.50
40300162--40300186	13	1.9	13	100	0	50	12	16	32	40	1.84
40306002--40306028	2	13.5	2	100	0	54	51	0	0	48	1.00
40308557--40308600	20	2.2	20	87	0	61	34	2	0	63	1.07
40308743--40308789	19	2.6	18	76	6	51	63	4	4	27	1.31
40310586--40310640	22	2.5	23	77	13	62	43	0	3	52	1.18
40323116--40323337	75	2.9	75	97	0	408	27	17	23	32	1.96
40323442--40323745	72	4.0	72	79	14	313	27	19	21	31	1.97
40323568--40323863	89	3.4	85	82	9	321	26	18	18	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40323111--40324248	408	2.8	400	78	9	1075	27	17	20	34	1.95
40323571--40323912	177	1.9	175	79	9	381	27	18	19	34	1.95
40323831--40324069	74	3.2	74	86	7	299	30	16	19	33	1.94
40323977--40324296	87	3.6	85	78	7	277	29	14	18	37	1.90
40323514--40324246	326	2.2	328	78	8	772	28	17	19	34	1.95
40325172--40325219	19	2.6	18	86	6	60	81	4	2	12	0.93
40325172--40325213	10	4.3	10	78	6	50	83	4	2	9	0.88
40325311--40325345	11	3.2	11	88	11	54	0	54	0	45	0.99
40325823--40325857	3	11.7	3	87	0	52	31	2	2	62	1.24
40326046--40326100	22	2.5	23	77	13	62	43	0	3	52	1.18
40330640--40330707	32	2.1	32	81	10	77	22	4	17	55	1.59
40330703--40330775	32	2.5	27	76	19	83	26	4	19	50	1.65
40330716--40330776	32	1.9	32	93	0	104	27	4	18	49	1.68
40331756--40331804	22	2.2	22	92	0	80	28	4	20	46	1.68
40331720--40331817	22	4.5	22	69	23	64	28	7	21	42	1.79
40332248--40332314	14	4.7	14	87	3	89	37	14	7	40	1.75
40332248--40332314	29	2.3	29	89	2	100	37	14	7	40	1.75
40334790--40334830	20	2.1	20	86	4	57	31	2	9	56	1.45
40335019--40335079	30	2.0	31	84	9	81	60	0	3	36	1.13
40335020--40335070	23	2.2	23	82	6	59	64	0	1	33	1.05
40338510--40338549	20	2.0	20	100	0	80	55	5	15	25	1.60
40345580--40345940	186	1.9	186	83	2	467	26	17	13	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40345808--40346590	410	1.9	413	84	2	1056	30	18	12	38	1.88
40349225--40349320	29	3.5	29	64	23	80	18	9	22	48	1.76
40349207--40349310	53	2.0	53	100	0	208	15	6	26	50	1.68
40356855--40356884	6	5.0	6	100	0	60	33	33	0	33	1.58
40366643--40366699	30	1.9	30	92	7	98	21	33	29	15	1.94
40366732--40366769	19	2.0	19	85	10	51	23	31	26	18	1.97
40370922--40370982	30	2.1	29	93	3	104	34	22	16	26	1.95
40389256--40389299	18	2.4	18	96	0	79	22	15	40	20	1.90
40389874--40389912	18	2.1	19	85	4	53	28	12	15	43	1.83
40390720--40390744	11	2.3	11	100	0	50	40	0	16	44	1.47
40403665--40403721	24	2.4	24	96	0	105	24	12	3	59	1.48
40403735--40403773	20	2.1	18	86	13	53	48	7	0	43	1.31
40404251--40404304	19	2.9	18	76	17	58	40	3	3	51	1.37
40415972--40416133	83	2.0	82	97	1	306	31	14	26	26	1.95
40419735--40419898	83	2.0	82	83	5	199	30	17	23	28	1.97
40419820--40420179	177	2.1	166	84	9	451	26	17	20	35	1.94
40420110--40420142	15	2.2	15	94	0	57	21	6	3	69	1.24
40419859--40420179	89	3.6	90	85	5	445	26	17	18	38	1.92
40421948--40422046	53	1.9	51	86	12	139	33	2	4	60	1.27
40421973--40422037	32	2.0	32	88	5	96	33	3	4	58	1.34
40421949--40422059	53	2.1	52	81	9	127	35	3	3	57	1.33
40422044--40422132	26	3.3	26	78	10	90	37	7	3	51	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40423973--40424029	21	2.6	22	83	8	64	42	0	7	50	1.29
40425119--40425158	18	2.1	20	86	9	57	37	2	0	60	1.11
40425153--40425223	32	2.3	31	76	16	74	42	0	7	50	1.29
40425119--40425231	8	13.9	8	68	23	58	39	0	4	54	1.26
40428168--40428251	16	4.8	17	72	19	50	38	2	2	57	1.25
40437299--40437360	31	2.0	31	100	0	124	22	16	22	38	1.92
40443949--40444187	125	1.9	125	96	0	442	37	9	17	36	1.81
40444451--40444580	46	2.8	46	79	9	138	30	19	26	23	1.98
40444553--40444680	48	2.8	46	84	7	136	26	17	31	24	1.97
40444587--40444774	48	3.8	50	81	6	188	23	18	32	25	1.97
40452073--40452109	10	3.7	10	92	0	56	18	13	0	67	1.23
40456458--40456525	16	4.2	16	96	0	127	26	0	35	38	1.57
40456741--40456795	15	3.4	16	80	16	53	50	1	0	47	1.11
40456761--40456795	18	2.0	17	88	5	52	54	0	0	45	0.99
40456881--40456915	18	2.0	17	88	5	52	54	0	0	45	0.99
40456776--40456966	61	3.2	60	67	20	155	48	5	2	43	1.38
40456739--40457022	120	2.4	120	90	2	446	48	4	1	44	1.34
40458934--40458970	19	1.9	19	94	0	65	29	18	18	32	1.96
40460648--40460688	21	2.0	21	100	0	82	34	24	12	29	1.91
40460830--40460872	20	2.1	21	91	4	70	32	9	9	48	1.67
40467683--40467733	26	2.0	26	88	3	77	60	1	0	37	1.08
40474195--40474228	16	2.1	17	88	5	52	73	0	14	11	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40477533--40477566	15	2.2	16	89	5	52	32	0	0	67	0.91
40479440--40479479	21	2.0	21	90	5	64	70	5	0	25	1.08
40480369--40480423	17	3.3	17	76	5	58	36	1	0	61	1.06
40480327--40480422	36	2.7	37	84	7	112	32	3	1	63	1.17
40485153--40485196	19	2.4	18	85	14	56	61	4	0	34	1.16
40505629--40505664	13	2.7	13	91	4	54	50	0	2	47	1.15
40507957--40507992	3	12.0	3	100	0	72	33	0	0	66	0.92
40509802--40509905	31	3.2	33	77	9	88	42	2	1	52	1.27
40511058--40511217	80	2.0	80	98	0	311	31	15	14	38	1.87
40511244--40511295	16	3.2	16	71	10	52	67	3	0	28	1.08

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