genome.fa.s13.2.7.7.80.10.50.1000.168.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_chr11
Parameters: 2 7 7 80 10 50 1000
Length:  102024878

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   298   299   300   301   302   303   304   
          305   306   307   308   309   310   

This is table  168  of  310  ( 37082 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)
55099681--55099714	6	5.7	6	100	0	68	32	0	32	35	1.58
55105696--55105724	5	6.0	5	92	8	51	79	0	0	20	0.74
55106164--55106201	20	1.9	20	84	10	51	60	0	5	34	1.19
55120007--55120039	17	1.9	17	88	11	50	45	6	6	42	1.53
55122664--55122737	29	2.6	28	78	4	76	72	5	18	2	1.15
55130515--55130594	26	3.0	26	80	3	88	57	7	5	30	1.48
55135914--55136011	25	3.9	25	71	2	81	35	14	29	20	1.92
55136507--55136549	19	2.3	19	84	8	52	34	9	4	51	1.55
55137846--55137879	17	1.9	18	94	5	61	47	23	0	29	1.52
55138645--55138692	16	3.1	17	72	25	52	52	10	0	37	1.36
55139278--55139311	4	8.5	4	100	0	68	50	26	0	23	1.50
55142360--55142432	34	2.2	34	82	2	85	30	0	4	65	1.11
55142947--55142976	16	1.9	15	93	6	51	40	3	0	56	1.16
55143861--55144051	98	1.9	99	89	6	298	45	1	3	49	1.27
55144129--55144181	27	2.0	28	85	7	74	50	0	1	47	1.12
55144481--55144520	21	2.0	20	90	5	62	20	22	7	50	1.73
55145452--55145509	30	2.0	29	86	3	80	36	3	1	58	1.25
55145766--55145901	69	2.0	69	95	0	245	32	8	11	47	1.69
55150129--55150177	15	3.2	16	81	16	52	12	6	44	36	1.67
55155673--55155709	19	1.9	19	88	0	56	72	2	16	8	1.19
55166753--55166779	14	1.9	14	100	0	54	66	0	0	33	0.92
55167038--55167084	14	3.4	15	77	16	57	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55168177--55168233	29	1.9	30	85	3	80	47	0	3	49	1.18
55168293--55168324	16	1.9	17	93	6	57	21	0	6	71	1.07
55174107--55174145	19	2.1	19	95	0	69	38	10	28	23	1.87
55181557--55181608	23	2.3	24	78	15	58	46	1	15	36	1.57
55183871--55184148	136	2.0	137	88	2	416	32	14	5	47	1.67
55184494--55184524	13	2.3	14	94	5	55	35	0	6	58	1.24
55184715--55184764	12	4.5	11	79	18	50	64	6	2	28	1.28
55184715--55184770	22	2.6	22	83	8	71	62	5	1	30	1.28
55184980--55185033	27	2.0	28	85	10	76	61	0	0	38	0.96
55186633--55186737	39	2.7	38	69	15	97	37	19	8	35	1.82
55190227--55190340	43	2.7	42	84	2	156	33	24	12	29	1.92
55197573--55197696	42	2.9	42	78	2	122	32	23	14	29	1.94
55200991--55201211	41	5.4	41	81	5	221	23	16	21	37	1.93
55200991--55201247	124	2.1	124	80	3	288	24	16	21	37	1.93
55201597--55201641	25	1.9	24	82	13	58	2	22	2	73	1.05
55206640--55206668	12	2.3	13	94	5	51	86	0	3	10	0.69
55209824--55209849	13	2.0	13	100	0	52	30	30	15	23	1.95
55210762--55210821	29	2.1	29	83	0	75	33	10	18	38	1.84
55215071--55215184	43	2.7	43	84	5	133	24	16	25	33	1.96
55215114--55215224	43	2.6	43	78	1	107	27	16	24	31	1.96
55215301--55215394	46	2.0	46	97	0	179	38	9	21	30	1.85
55216232--55216350	61	1.9	62	94	1	213	25	22	24	27	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55220294--55220335	21	2.0	21	95	0	75	16	9	30	42	1.80
55230940--55231011	16	4.4	16	68	10	56	48	2	2	45	1.31
55231275--55231336	30	2.0	31	81	9	74	46	1	1	50	1.20
55231349--55231493	71	2.0	72	93	2	249	60	2	4	32	1.29
55231745--55231821	29	2.7	27	73	13	75	44	0	0	55	0.99
55232711--55232778	33	2.1	33	100	0	136	29	26	19	25	1.98
55235041--55235125	44	1.9	44	87	0	125	31	27	17	23	1.97
55237074--55237105	15	2.1	15	94	0	55	50	0	0	50	1.00
55258496--55258548	26	2.0	26	82	7	63	26	15	20	37	1.92
55276501--55276944	46	9.7	46	88	1	554	41	14	22	21	1.89
55276516--55276974	182	2.5	183	83	3	566	42	14	21	21	1.89
55280521--55280651	20	6.3	20	72	22	85	41	0	2	55	1.12
55280523--55280568	11	4.2	11	89	8	67	36	0	4	58	1.18
55280521--55280634	43	2.7	43	80	18	132	42	0	2	55	1.14
55280519--55280649	19	6.2	20	76	15	97	42	0	2	54	1.12
55286125--55286163	20	1.9	20	89	5	60	69	0	0	30	0.89
55289094--55289119	2	13.0	2	100	0	52	50	0	0	50	1.00
55290485--55290569	33	2.3	38	82	11	108	52	0	12	34	1.40
55290554--55290595	19	2.3	18	87	4	57	69	2	2	26	1.13
55290971--55291041	13	5.8	13	82	12	87	9	0	52	38	1.35
55290967--55291047	35	2.3	35	91	4	128	11	0	51	37	1.37
55291536--55292216	206	3.3	205	95	1	1220	27	22	19	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55295935--55295987	25	2.1	25	82	0	61	33	24	5	35	1.79
55295948--55295999	25	2.1	25	96	0	95	26	28	9	34	1.88
55302354--55302543	95	2.0	95	98	0	371	34	15	20	28	1.94
55304502--55304586	23	3.6	23	69	10	64	58	2	9	29	1.42
55304532--55304613	33	2.3	38	83	12	102	52	0	13	34	1.41
55304598--55304639	19	2.3	18	87	4	57	69	2	2	26	1.13
55305016--55305086	13	5.8	13	80	12	87	9	0	52	38	1.35
55305005--55305088	35	2.4	35	91	0	141	10	0	53	35	1.36
55305029--55305073	22	2.0	22	95	0	81	6	0	55	37	1.26
55305175--55305204	15	1.9	16	93	6	53	10	3	33	53	1.51
55317344--55317384	18	2.2	19	87	12	59	29	24	0	46	1.53
55317485--55317696	38	5.4	38	70	6	172	30	27	20	21	1.98
55317523--55317728	41	5.2	41	69	7	190	32	27	18	21	1.97
55317476--55317735	79	3.3	79	99	0	511	31	26	20	22	1.98
55318497--55318530	12	2.8	12	83	16	52	52	5	0	41	1.25
55320952--55320992	18	2.2	19	87	12	59	29	24	0	46	1.53
55321945--55321978	12	2.8	12	83	16	52	52	5	0	41	1.25
55322373--55322428	3	18.0	3	87	7	76	62	3	0	33	1.12
55322427--55322451	3	8.3	3	100	0	50	68	32	0	0	0.90
55326418--55326461	16	2.8	16	83	10	54	54	2	2	40	1.25
55332202--55332257	29	1.9	29	96	0	103	28	8	25	37	1.86
55333547--55333601	27	2.1	25	83	6	65	45	7	5	41	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55333989--55334017	15	2.0	15	93	6	51	68	0	0	31	0.89
55334390--55334414	12	2.1	12	100	0	50	76	0	0	24	0.80
55341243--55341288	18	2.5	19	89	10	78	50	0	4	45	1.21
55346254--55346325	3	24.7	3	79	10	78	34	0	30	34	1.58
55346837--55346935	44	2.2	44	94	0	171	41	5	10	43	1.60
55346865--55346934	21	3.2	21	65	21	54	42	5	5	45	1.51
55347011--55347069	21	2.7	22	86	5	84	32	1	0	66	1.02
55347035--55347094	31	2.0	30	87	9	86	31	5	0	63	1.16
55349121--55349179	27	2.2	27	82	11	68	40	3	0	55	1.16
55349203--55349246	22	2.0	22	86	0	61	52	0	0	47	1.00
55352593--55352827	85	2.7	85	84	5	285	36	20	9	34	1.85
55352922--55352969	19	2.5	20	82	6	62	62	2	0	35	1.07
55352908--55353015	10	11.4	9	69	17	51	63	0	3	31	1.18
55352908--55353008	29	3.6	28	75	11	82	64	0	3	30	1.18
55352971--55353069	10	9.7	10	67	14	51	62	2	6	29	1.30
55353024--55353096	22	3.3	22	80	3	67	65	1	5	27	1.22
55354172--55354230	28	2.1	28	83	3	73	40	13	3	42	1.61
55358375--55358402	8	3.5	8	100	0	56	75	0	0	25	0.81
55360120--55360235	59	2.0	60	89	1	180	35	10	22	31	1.88
55361770--55361802	12	2.8	12	95	0	57	63	0	9	27	1.24
55362686--55362733	20	2.5	20	86	3	62	64	2	6	27	1.28
55363087--55363194	26	4.2	26	96	0	198	31	6	25	36	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55366826--55366873	21	2.3	20	83	16	62	77	0	2	20	0.88
55366823--55366883	6	10.5	6	78	21	60	77	0	1	21	0.86
55366823--55366881	11	5.2	11	82	13	75	77	0	1	20	0.85
55366823--55366883	17	3.5	17	82	17	81	77	0	1	21	0.86
55370218--55370249	10	3.3	10	95	4	57	62	0	6	31	1.20
55370274--55370303	15	2.0	15	93	0	51	40	10	0	50	1.36
55383713--55383759	18	2.5	19	75	3	51	61	4	0	34	1.15
55383890--55383933	20	2.2	20	83	4	52	68	4	2	25	1.20
55386770--55386932	42	3.7	42	83	8	184	29	26	14	30	1.95
55386839--55387046	49	4.2	48	78	8	197	32	27	13	26	1.94

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   298   299   300   301   302   303   304   
          305   306   307   308   309   310