genome.fa.s2.2.7.7.80.10.50.1000.138.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_chr1
Parameters: 2 7 7 80 10 50 1000
Length:  106989029

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   311   312   313   314   315   316   317   318   319   320   
          321   322   

This is table  138  of  322  ( 38559 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)
45068932--45069081	53	2.9	51	77	8	133	32	26	15	26	1.95
45079720--45079811	46	2.0	46	100	0	184	39	17	10	32	1.84
45082308--45082505	105	1.9	102	83	7	256	27	26	13	32	1.94
45090712--45090757	21	2.3	20	78	14	51	45	17	6	30	1.73
45091581--45091624	22	2.0	22	86	0	61	54	2	2	40	1.25
45095291--45095348	29	2.0	29	83	6	73	48	13	6	31	1.69
45102743--45102786	22	2.0	22	90	0	70	54	4	0	40	1.21
45103345--45103481	39	3.7	39	76	19	141	34	29	18	16	1.94
45103402--45103462	30	2.0	30	93	0	104	34	29	21	14	1.93
45103809--45103855	17	2.7	18	78	18	55	44	14	0	40	1.46
45110255--45110283	9	3.0	10	90	10	51	89	0	10	0	0.48
45110257--45110282	9	2.9	9	100	0	52	92	0	7	0	0.39
45119117--45119287	92	1.9	91	85	1	234	25	23	19	30	1.98
45121217--45121298	29	2.8	29	84	0	119	41	6	20	31	1.77
45124822--45124921	50	2.0	50	92	0	164	45	6	8	41	1.58
45124872--45124996	59	2.1	59	89	2	189	50	8	5	36	1.55
45124781--45124980	109	1.8	108	89	3	312	48	7	7	37	1.57
45125367--45125402	18	2.0	18	88	0	54	41	5	22	30	1.76
45126935--45126999	32	2.1	31	82	8	78	67	0	1	30	1.00
45138495--45138519	12	2.1	12	100	0	50	52	16	0	32	1.44
45141702--45141736	15	2.3	16	90	9	56	77	8	11	2	1.10
45141862--45141967	29	3.8	29	73	15	98	50	0	0	49	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45141952--45141995	22	2.0	22	90	0	70	50	0	0	50	1.00
45141953--45142111	81	2.0	81	83	5	205	50	0	0	48	1.05
45142010--45142080	29	2.4	29	84	9	90	50	0	0	49	1.00
45142211--45142245	15	2.3	15	90	9	54	2	11	8	77	1.10
45143404--45143447	20	2.2	20	80	4	54	45	4	13	36	1.64
45149201--45149279	38	2.1	37	95	2	140	11	18	31	37	1.87
45154634--45154672	16	2.4	16	86	4	51	51	10	7	30	1.64
45154643--45154675	16	2.1	16	100	0	66	48	6	6	39	1.53
45160986--45161049	32	2.0	32	87	0	92	15	25	25	34	1.95
45160997--45161050	16	3.4	16	77	10	65	12	27	27	31	1.93
45161018--45161130	38	3.0	38	83	6	140	16	21	24	37	1.94
45161914--45162000	42	2.1	42	84	0	111	22	21	27	27	1.99
45168198--45168382	40	4.7	40	82	6	216	25	27	22	24	2.00
45168198--45168380	79	2.3	81	81	8	214	25	27	21	25	1.99
45176291--45176468	27	6.6	27	83	3	151	30	28	14	26	1.95
45176494--45176652	80	2.0	79	98	1	309	25	28	15	30	1.96
45186149--45186181	13	2.6	13	90	4	50	48	12	0	39	1.40
45188716--45188819	53	2.0	52	86	1	145	53	8	15	22	1.68
45189138--45189222	6	14.3	6	75	11	68	76	1	7	15	1.06
45189150--45189224	25	2.8	26	86	11	100	76	1	6	16	1.07
45189157--45189221	16	4.6	16	70	26	56	76	0	7	15	0.99
45195411--45196279	46	18.7	46	72	17	620	30	25	18	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45195470--45196282	93	8.8	93	96	1	1422	30	25	17	25	1.97
45199599--45199820	40	5.6	40	86	4	272	27	26	21	25	1.99
45206988--45207901	93	9.8	93	99	0	1774	30	26	17	25	1.97
45209370--45209394	5	5.0	5	100	0	50	60	0	0	40	0.97
45209675--45209707	13	2.6	13	90	4	50	48	12	0	39	1.40
45209754--45209873	60	2.0	60	98	0	231	33	25	15	25	1.95
45213284--45213548	40	6.7	40	85	5	286	26	27	21	24	1.99
45213251--45213548	80	3.7	80	79	9	263	25	27	21	25	1.99
45213480--45213557	40	1.9	41	82	10	97	26	28	20	24	1.99
45215558--45216069	256	2.0	256	99	0	1006	29	23	16	31	1.96
45221520--45221704	40	4.7	40	81	5	178	27	28	20	24	1.99
45221487--45221704	40	5.5	39	77	7	165	25	27	20	25	1.99
45227653--45227763	20	5.6	20	83	4	134	7	27	21	43	1.79
45235654--45235717	31	2.1	31	93	0	110	23	23	15	37	1.93
45235929--45236750	70	11.7	70	99	0	1635	29	20	21	28	1.98
45236801--45236867	20	3.3	20	89	0	107	32	20	13	32	1.92
45244271--45244344	34	2.2	34	97	0	139	16	10	10	62	1.55
45244283--45244365	34	2.6	33	88	9	120	18	8	10	62	1.52
45246637--45246773	40	3.4	40	84	2	168	35	24	16	24	1.94
45271330--45271464	40	3.4	40	82	4	121	35	23	16	24	1.95
45271374--45271466	40	2.3	40	94	0	159	36	22	18	22	1.95
45289576--45289727	68	2.3	65	81	8	157	26	28	14	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45296863--45296999	51	2.7	51	77	0	166	40	6	13	39	1.71
45329670--45329715	19	2.4	19	85	7	58	19	17	13	50	1.78
45341497--45341725	44	5.3	44	70	14	188	34	21	24	20	1.97
45341707--45342770	43	24.6	43	81	4	1048	33	22	22	21	1.97
45341448--45342683	172	7.2	168	83	5	891	33	22	22	21	1.97
45341749--45342828	86	12.5	87	90	1	1284	34	22	21	21	1.97
45341411--45342814	43	32.5	44	77	5	506	33	21	22	21	1.97
45342794--45342862	35	2.0	35	85	0	93	37	17	21	23	1.94
45343452--45343515	30	2.1	30	97	0	119	18	53	6	21	1.67
45351309--45351351	20	2.0	22	86	8	63	6	25	13	53	1.65
45354377--45354428	22	2.3	23	80	3	61	42	1	1	53	1.23
45363932--45363956	13	1.9	13	100	0	50	20	40	24	16	1.91
45376494--45376658	43	3.9	43	81	4	165	26	20	29	24	1.99
45376548--45376738	43	4.6	40	77	6	150	27	19	28	24	1.98
45376594--45376739	40	3.5	40	77	4	114	28	19	28	23	1.98
45381057--45381138	39	2.1	39	90	0	128	19	25	32	21	1.97
45388104--45388163	29	2.1	28	84	9	77	36	0	23	40	1.55
45388113--45388172	29	2.1	29	81	12	70	35	0	25	40	1.56
45389044--45389168	43	3.0	43	85	2	128	27	21	28	23	1.99
45395867--45396108	123	2.0	123	94	0	430	30	15	26	27	1.96
45405265--45405316	25	2.1	25	100	0	104	48	15	11	25	1.78
45411768--45411814	18	2.6	18	83	6	51	34	27	17	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45423396--45423434	17	2.4	17	86	4	62	20	10	7	61	1.52
45435304--45435329	3	8.7	3	100	0	52	34	0	0	65	0.93
45437102--45437457	47	7.6	47	76	10	245	26	19	30	23	1.98
45437102--45437457	140	2.5	140	81	4	387	26	19	30	23	1.98
45437196--45437457	93	2.8	93	87	5	343	26	19	29	24	1.98
45439641--45439732	45	2.0	46	95	2	168	41	5	19	33	1.74
45439664--45439737	22	3.3	22	65	28	57	40	4	20	35	1.71
45439975--45440012	20	2.0	20	85	15	53	42	5	5	47	1.48
45442839--45442883	22	2.0	22	100	0	90	42	17	26	13	1.86
45443918--45443951	17	2.0	17	94	0	59	44	50	0	5	1.26
45448557--45448590	17	2.0	17	94	0	59	44	50	0	5	1.26
45449439--45449490	3	17.3	3	91	0	86	65	0	32	1	1.04
45452388--45452519	61	2.2	61	87	1	185	40	17	27	14	1.88
45458465--45458550	43	2.0	43	90	0	136	23	26	1	48	1.58
45460843--45460895	4	13.8	4	74	21	51	20	1	0	77	0.87
45460842--45460895	23	2.3	24	81	12	69	20	1	0	77	0.86
45460843--45460896	27	2.0	28	89	10	85	20	1	0	77	0.86
45460843--45460921	28	2.8	28	81	14	83	20	3	0	75	0.95
45460841--45460922	34	2.4	33	84	15	105	20	3	0	75	0.95
45465156--45465307	40	3.8	40	89	2	216	25	28	21	24	1.99
45469576--45469628	26	2.0	27	85	3	72	50	3	0	45	1.19
45469556--45469629	22	3.3	22	70	17	62	48	4	1	45	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45469560--45469665	49	2.3	44	81	14	115	47	4	0	47	1.29
45474351--45474407	26	2.2	26	93	0	105	40	17	15	26	1.90
45477462--45477505	21	2.1	21	86	0	61	34	9	27	29	1.87
45482359--45482383	13	1.9	13	100	0	50	32	4	24	40	1.73
45486996--45487120	43	2.9	43	78	7	139	28	19	21	31	1.97
45496059--45496192	40	3.3	41	80	5	148	24	22	27	25	2.00
45502948--45503358	47	8.7	47	96	0	741	31	8	30	29	1.86
45508784--45508819	12	2.9	12	87	4	54	69	2	0	27	1.02
45509175--45509286	3	37.0	3	68	12	50	27	6	3	62	1.36
45525815--45525891	38	2.0	38	92	0	127	19	35	19	25	1.95

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   311   312   313   314   315   316   317   318   319   320   
          321   322