genome.fa.s8.2.7.7.80.10.50.1000.99.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_chr9
Parameters: 2 7 7 80 10 50 1000
Length:  91122320

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   

This is table  99  of  279  ( 33431 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)
31943823--31943953	12	12.0	11	74	12	94	61	0	2	35	1.14
31943885--31943928	23	1.9	23	86	9	63	61	2	0	36	1.09
31943895--31943936	23	1.9	22	85	9	59	57	2	2	38	1.25
31949758--31949797	21	1.9	21	89	0	62	30	22	30	17	1.97
31951843--31951965	60	2.0	60	92	0	201	30	29	8	31	1.86
31955579--31955867	43	6.6	43	78	7	267	24	14	28	31	1.95
31957573--31957679	43	2.5	43	83	3	126	30	28	17	23	1.97
31957695--31957765	10	7.0	10	73	19	58	60	2	1	35	1.20
31957678--31957748	29	2.5	27	78	10	70	67	0	1	30	0.99
31959322--31959349	7	4.0	7	100	0	56	28	0	28	42	1.56
31962632--31962745	7	16.1	7	68	12	63	38	38	0	22	1.55
31962713--31962750	14	2.7	15	84	12	53	44	36	0	18	1.50
31962988--31963120	7	19.0	7	73	5	72	38	37	0	23	1.60
31963066--31963104	20	1.9	21	89	5	62	38	43	0	17	1.50
31967475--31967582	26	4.2	26	90	0	171	34	24	9	32	1.87
31967740--31967767	10	2.8	10	100	0	56	35	21	0	42	1.53
31969080--31969169	45	2.0	44	93	2	153	24	32	14	27	1.94
31972760--31972970	64	3.2	64	61	20	142	29	26	18	26	1.98
31972726--31973149	137	3.1	137	97	0	776	30	24	19	25	1.98
31974269--31974375	26	4.1	26	91	0	178	34	24	8	32	1.85
31974533--31974560	10	2.8	10	100	0	56	35	21	0	42	1.53
31974824--31974885	18	3.3	18	66	16	54	58	1	3	37	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31974817--31974897	38	2.2	38	97	2	155	49	3	6	40	1.45
31974911--31974954	22	2.0	22	86	0	61	38	0	4	56	1.20
31975832--31975858	9	3.0	9	100	0	54	44	0	11	44	1.39
31977010--31977054	25	1.9	22	86	9	54	17	8	6	66	1.40
31976934--31977358	73	6.1	72	80	10	438	28	7	3	61	1.38
31977025--31977358	65	4.9	64	77	12	294	28	7	3	61	1.39
31976953--31977314	138	2.6	137	87	6	498	28	7	3	60	1.39
31984731--31984775	22	2.0	23	95	4	83	42	0	35	22	1.54
31989479--31989586	53	2.0	53	94	0	189	36	21	14	27	1.93
31990685--31990819	63	2.1	65	84	6	177	40	20	25	14	1.90
31999244--31999314	37	1.9	37	100	0	142	30	14	21	33	1.92
32002270--32002297	14	2.0	14	100	0	56	35	7	28	28	1.84
32004377--32004409	17	1.9	17	93	0	57	45	6	15	33	1.70
32017725--32017872	74	2.0	74	95	0	269	40	19	9	30	1.83
32023209--32023284	35	2.2	35	85	0	98	23	25	22	28	1.99
32033365--32033445	19	4.2	19	95	3	135	37	9	18	34	1.84
32039023--32039091	7	9.7	7	75	12	61	82	0	14	2	0.78
32039021--32039077	9	6.6	9	80	8	64	84	0	14	1	0.71
32039031--32039091	24	2.5	24	84	10	88	83	0	13	3	0.76
32039022--32039091	8	8.6	8	77	19	74	82	0	14	2	0.77
32040035--32040547	44	11.7	44	75	7	443	30	17	23	27	1.97
32040068--32040555	132	3.7	132	95	1	852	31	17	23	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32039950--32040555	88	6.9	87	76	7	480	31	17	23	26	1.97
32039949--32040298	175	2.0	176	91	1	569	31	18	24	26	1.97
32039945--32040555	44	13.9	44	72	9	415	31	17	23	27	1.97
32040517--32041463	206	4.6	206	91	1	1488	31	18	21	28	1.97
32041847--32041914	19	3.7	19	82	7	95	35	11	17	35	1.87
32045935--32045995	13	4.7	13	77	0	59	31	1	27	39	1.66
32053387--32053417	11	2.8	11	95	0	53	19	48	3	29	1.64
32060493--32060580	39	2.3	39	91	0	140	20	25	26	28	1.99
32071059--32071087	12	2.4	12	100	0	58	48	31	13	6	1.69
32077599--32077636	18	2.1	19	90	5	60	47	28	10	13	1.76
32081318--32081365	19	2.6	19	80	9	55	35	2	14	47	1.56
32081379--32081471	43	2.2	43	90	3	143	29	6	12	51	1.65
32086058--32086105	19	2.6	19	80	9	55	35	2	14	47	1.56
32086119--32086211	43	2.2	43	86	3	125	27	6	12	52	1.64
32090690--32090753	21	3.0	21	79	0	74	17	18	12	51	1.76
32097629--32097711	3	28.3	3	73	13	57	2	31	1	65	1.13
32097629--32097695	17	3.9	17	76	7	73	1	31	0	67	1.00
32097628--32097693	14	4.6	14	72	9	53	1	31	0	66	1.01
32097622--32097711	37	2.4	37	87	7	119	3	31	1	64	1.17
32097644--32097711	28	2.4	28	78	4	75	2	29	1	66	1.15
32098986--32099046	27	2.3	27	94	0	104	22	1	29	45	1.62
32110686--32110735	11	4.3	12	77	10	50	22	12	0	66	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32110687--32110793	28	3.7	29	76	15	82	25	10	0	63	1.32
32110715--32110804	18	4.8	18	76	11	83	26	7	1	64	1.28
32110828--32110905	5	14.0	5	77	19	66	29	17	0	52	1.45
32110816--32110904	28	3.6	24	76	18	76	31	17	0	50	1.47
32110882--32110932	16	3.2	16	81	13	61	27	9	0	62	1.26
32111046--32111088	20	2.0	21	82	8	52	32	6	2	58	1.38
32111138--32111244	54	1.9	56	87	9	157	15	28	15	39	1.89
32111284--32111368	11	7.7	11	71	3	64	25	14	1	58	1.43
32111284--32111330	16	2.9	16	84	9	51	27	10	2	59	1.42
32111299--32111360	28	2.2	28	82	0	79	24	16	1	58	1.47
32111284--32111601	23	13.9	22	68	19	95	26	12	0	60	1.39
32111359--32111628	22	11.8	20	69	24	110	26	11	0	60	1.36
32111481--32111676	48	4.2	48	81	10	121	26	12	0	60	1.37
32111541--32111704	27	6.5	27	75	18	156	24	13	0	62	1.31
32111430--32111737	27	12.6	26	67	21	100	25	12	0	62	1.33
32125358--32125431	34	2.1	35	85	10	96	32	5	2	59	1.34
32125388--32125442	20	2.8	20	71	13	51	34	5	1	58	1.32
32125537--32125578	21	2.0	22	90	4	68	30	2	0	66	1.04
32131117--32131165	23	2.1	23	100	0	98	20	16	32	30	1.94
32131807--32131857	25	2.0	25	100	0	102	31	7	37	23	1.83
32131809--32131865	25	2.2	25	93	3	96	36	7	35	21	1.80
32135319--32135460	74	1.9	74	91	0	230	43	13	16	26	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32135581--32135730	43	3.5	43	86	0	221	23	33	24	19	1.97
32136374--32136551	43	4.1	43	89	2	259	25	18	32	23	1.97
32142603--32142783	9	19.6	9	71	12	98	37	1	13	47	1.53
32142632--32142691	17	3.4	17	75	6	66	38	1	10	50	1.46
32142612--32142814	96	2.1	96	87	1	291	37	1	12	47	1.52
32142717--32142749	17	1.9	17	93	0	57	36	3	9	51	1.49
32142888--32142917	15	2.0	15	100	0	60	53	0	0	46	1.00
32143071--32143616	275	2.0	275	100	0	1092	39	12	13	35	1.81
32143878--32143906	15	1.9	15	100	0	58	48	20	6	24	1.74
32144107--32144658	183	3.0	183	97	0	1014	42	15	15	26	1.87
32147475--32147523	15	3.5	15	68	21	52	30	0	51	18	1.47
32147474--32147526	26	2.0	26	96	0	97	32	0	47	20	1.51
32147804--32147861	28	2.1	28	83	6	73	36	29	1	32	1.68
32147838--32147881	21	2.1	21	91	0	70	34	34	2	29	1.70
32148228--32148446	41	5.4	41	90	2	309	20	24	21	33	1.97
32148501--32148526	12	2.2	12	100	0	52	46	30	15	7	1.74
32148943--32148995	22	2.4	22	87	6	72	43	20	5	30	1.75
32149400--32149707	23	13.5	23	75	10	256	37	23	5	33	1.77
32149384--32149707	46	7.1	46	80	6	331	37	23	5	33	1.78
32149394--32149707	114	2.8	114	79	7	386	37	23	5	33	1.77
32149397--32149707	91	3.4	90	78	9	310	37	23	5	34	1.77
32150874--32150923	12	4.2	12	73	14	50	42	24	0	34	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32153027--32153068	7	6.0	7	100	0	84	14	0	0	85	0.59
32153029--32153078	21	2.4	21	90	3	75	16	0	0	84	0.63
32153325--32153426	45	2.3	45	80	9	104	43	37	1	17	1.61
32153299--32153431	7	18.3	7	69	10	72	40	39	1	18	1.60
32153745--32153801	7	8.0	7	80	3	51	43	31	3	21	1.69
32153742--32153801	14	4.1	15	74	6	61	43	33	3	20	1.68
32153986--32154064	40	2.0	40	84	0	104	21	24	17	36	1.94
32156625--32156663	11	3.6	11	86	6	53	0	12	5	82	0.83
32166430--32166516	41	2.2	40	85	2	111	65	5	2	26	1.27
32178360--32178406	24	2.0	24	86	0	67	10	6	25	57	1.56

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