genome.fa.s7.2.7.7.80.10.50.1000.174.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  174  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)
59693380--59693431	24	2.2	24	100	0	104	69	11	11	7	1.37
59698368--59698402	18	1.9	18	88	0	52	40	11	14	34	1.82
59702327--59702368	19	2.2	18	84	16	50	26	21	14	38	1.91
59703189--59703233	20	2.2	20	88	0	63	37	13	2	46	1.55
59705328--59705439	27	4.2	26	82	7	125	38	22	22	16	1.93
59705328--59705439	54	2.1	54	84	3	145	38	22	22	16	1.93
59707222--59707277	11	5.5	11	75	16	66	35	10	19	33	1.87
59707221--59707277	20	2.8	20	100	0	114	35	10	19	35	1.86
59707327--59707399	26	2.8	26	93	0	128	26	24	24	24	2.00
59707330--59707426	26	3.8	26	73	16	69	25	23	24	25	2.00
59712777--59712952	46	3.8	45	75	10	176	21	19	29	29	1.98
59712773--59712945	93	1.9	93	91	0	283	21	20	30	28	1.98
59718014--59718069	11	5.5	11	75	16	66	35	12	19	32	1.89
59718016--59718069	20	2.7	20	97	0	99	35	12	20	31	1.90
59718119--59718190	26	2.8	26	87	2	110	26	26	22	25	2.00
59719250--59719312	26	2.3	26	83	5	72	31	11	23	33	1.90
59727504--59727728	49	4.5	49	88	2	297	29	27	17	25	1.98
59727491--59727735	99	2.5	100	85	2	314	28	27	18	25	1.98
59730918--59731070	39	3.9	39	91	0	243	26	20	25	27	1.99
59739118--59739236	39	3.1	39	85	0	166	26	20	26	26	1.99
59741539--59741645	27	3.9	27	80	13	112	37	22	22	17	1.94
59741538--59741644	54	2.0	54	87	3	153	38	22	21	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59745836--59745862	12	2.2	12	100	0	54	7	22	44	25	1.79
59747270--59747353	43	2.0	43	90	0	132	23	19	30	26	1.98
59751535--59751707	43	4.0	43	78	11	192	24	18	25	31	1.97
59752236--59752281	23	2.0	24	82	4	58	17	4	26	52	1.63
59754207--59754253	10	4.6	10	82	12	51	34	0	2	63	1.06
59754209--59754244	12	3.3	11	88	11	56	33	0	0	66	0.92
59755115--59755220	55	1.9	55	94	0	185	32	15	15	37	1.88
59756393--59756546	41	3.8	41	76	9	161	28	26	20	24	1.99
59763561--59764434	40	21.9	40	98	0	1637	24	17	29	27	1.98
59772657--59773568	40	22.8	40	98	0	1657	24	18	29	27	1.98
59779368--59779543	46	3.8	46	79	7	203	21	21	28	29	1.98
59779364--59779535	93	1.8	93	92	0	290	20	21	29	28	1.98
59784602--59784860	129	2.0	129	99	0	509	25	15	21	37	1.93
59785374--59785428	20	2.8	20	88	0	83	25	29	16	29	1.97
59788890--59789049	84	1.9	83	92	1	266	26	13	23	36	1.92
59791006--59791144	70	2.0	70	95	0	251	27	12	23	35	1.92
59791342--59791459	59	2.0	59	96	0	218	18	13	22	45	1.84
59813377--59813487	54	2.1	54	98	0	213	47	15	9	27	1.75
59814787--59814825	10	3.8	10	89	3	51	7	2	5	84	0.84
59814911--59814939	10	2.7	11	94	5	51	6	3	6	82	0.93
59825104--59825171	21	3.2	20	80	12	66	76	4	17	1	1.03
59825115--59825171	5	11.0	5	77	17	55	77	3	17	1	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59825115--59825171	16	3.7	14	80	17	60	77	3	17	1	1.00
59825240--59825264	12	2.1	12	100	0	50	76	0	16	8	1.02
59825234--59825289	18	3.1	18	76	5	51	69	3	19	7	1.27
59825240--59825321	30	2.7	31	81	5	105	64	1	21	12	1.33
59829107--59829169	21	3.0	21	90	2	90	28	4	33	33	1.78
59829945--59830001	27	2.0	29	83	12	75	63	8	12	15	1.52
59832494--59832572	40	2.0	40	94	0	140	29	18	16	35	1.93
59834702--59834752	24	2.2	23	82	3	57	17	3	33	45	1.67
59843304--59843356	23	2.4	22	76	20	56	9	18	1	69	1.25
59845716--59845743	4	7.0	4	100	0	56	75	0	0	25	0.81
59847504--59847763	131	2.0	132	83	3	337	30	24	25	20	1.99
59851446--59851583	41	3.4	42	82	7	167	31	23	14	29	1.94
59851445--59851605	41	4.0	40	79	6	137	31	23	14	30	1.95
59851447--59851607	81	2.0	83	85	4	220	30	24	14	30	1.95
59851605--59851643	19	2.1	19	100	0	78	30	25	10	33	1.89
59853648--59853689	11	3.7	11	87	6	66	78	0	9	11	0.96
59853648--59853693	12	3.9	12	91	2	76	73	0	10	15	1.08
59854495--59854528	15	2.3	15	89	0	50	35	29	32	2	1.73
59858363--59858459	30	3.2	30	73	2	97	29	15	25	28	1.96
59860585--59860721	65	2.1	67	95	2	251	35	18	15	30	1.92
59861133--59861179	23	2.1	23	84	7	62	51	12	4	31	1.59
59866513--59866570	15	3.6	16	88	4	82	20	10	6	62	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59866513--59866570	16	3.7	15	88	9	80	20	10	6	62	1.50
59866612--59866646	12	2.9	12	91	8	54	22	0	8	68	1.16
59872775--59872853	40	2.0	40	87	0	113	46	16	7	29	1.74
59873824--59873892	33	2.1	33	97	0	129	30	5	26	37	1.80
59874268--59874319	27	1.9	27	84	0	68	65	1	25	7	1.30
59876572--59876645	37	2.0	37	89	0	112	20	29	16	33	1.94
59885535--59885701	43	3.9	43	79	6	178	32	24	13	28	1.94
59888504--59888591	33	2.7	33	75	12	90	27	26	20	26	1.99
59900658--59900755	43	2.3	42	77	18	112	26	16	26	30	1.97
59901058--59901099	22	2.0	22	86	9	61	42	2	19	35	1.64
59903773--59903940	40	4.2	40	83	3	214	26	26	22	25	2.00
59903764--59903940	80	2.2	79	87	5	250	25	25	22	25	2.00
59906335--59906371	19	2.0	19	89	5	58	27	18	37	16	1.92
59906468--59906614	57	2.6	57	79	5	163	31	12	29	26	1.92
59906452--59906613	28	5.7	28	85	2	173	29	13	30	25	1.94
59929209--59929368	40	4.0	40	88	6	211	21	22	29	26	1.99
59940630--59940730	50	2.0	50	98	0	193	32	25	17	23	1.97
59945061--59945973	468	2.0	468	94	0	1603	28	23	17	30	1.97
59947379--59947432	9	6.0	9	78	8	56	16	1	9	72	1.19
59947290--59947819	265	2.0	266	94	1	940	29	13	12	44	1.81
59948428--59948481	12	4.6	12	93	4	92	77	9	0	12	0.98
59948428--59948481	23	2.3	23	93	3	90	77	9	0	12	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59948526--59948565	13	3.0	13	92	3	62	72	0	10	17	1.11
59948528--59948569	14	2.9	14	82	6	57	71	0	9	19	1.13
59948523--59948578	16	3.8	15	88	11	89	66	0	12	21	1.25
59952325--59952418	46	2.0	46	93	4	163	24	18	22	35	1.96
59953832--59953862	12	2.7	11	90	9	53	19	3	9	67	1.33
59957540--59957567	14	2.0	14	100	0	56	42	14	7	35	1.73
59958412--59958562	28	5.4	28	91	1	214	34	27	11	25	1.91
59967573--59967676	54	1.9	54	96	0	190	44	19	5	30	1.74
59979681--59979872	49	3.9	48	78	6	204	28	26	19	26	1.99
59979677--59979870	101	1.9	100	90	3	309	28	25	19	26	1.99
59983148--59983381	48	4.9	48	85	4	274	25	17	29	28	1.97
59987887--59988082	54	3.6	54	86	5	263	35	18	24	21	1.96
59987895--59988093	107	1.8	109	88	4	305	35	18	24	22	1.96
59992367--59992422	29	2.0	29	85	3	78	41	3	25	30	1.72
59994314--59994411	48	2.0	48	100	0	196	30	8	19	41	1.80
59995656--59995688	16	2.1	16	94	0	57	48	30	6	15	1.69
59997149--59997237	28	3.1	28	83	3	90	28	14	28	29	1.95
59998673--59998871	43	4.6	43	76	12	158	26	18	25	30	1.98
59998662--59998853	86	2.2	89	81	8	220	27	17	25	30	1.97
60001565--60001609	14	2.9	15	80	12	56	31	6	24	37	1.81
60005478--60005555	29	2.7	28	84	11	104	25	14	30	29	1.94
60005508--60005832	174	1.9	173	96	0	605	29	14	24	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60008879--60008915	16	2.4	15	91	8	65	5	27	5	62	1.39
60009992--60010067	27	2.8	26	84	7	89	17	25	23	34	1.96
60010002--60010075	27	2.6	28	85	10	98	17	25	20	36	1.94
60013505--60013534	10	3.0	10	95	0	51	53	10	0	36	1.35
60035113--60035294	40	4.6	40	90	2	269	23	20	26	29	1.99
60038039--60038085	23	2.0	23	91	0	76	44	10	12	31	1.77
60038192--60038216	12	2.1	12	100	0	50	52	0	0	48	1.00
60042255--60042475	40	5.6	40	96	1	392	23	23	27	26	2.00
60059227--60059257	14	2.2	14	100	0	62	35	6	12	45	1.68
60063084--60063288	27	7.6	27	78	7	173	42	18	12	26	1.85

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