genome.fa.s4.2.7.7.80.10.50.1000.159.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   

This is table  159  of  235  ( 28198 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)
53601687--53601733	23	2.1	23	92	4	78	27	12	8	51	1.69
53604805--53604854	20	2.6	19	87	6	82	32	0	32	36	1.58
53607006--53607032	12	2.2	12	100	0	54	51	7	18	22	1.70
53613054--53613199	44	3.3	42	80	12	152	62	1	7	28	1.31
53613092--53613199	29	3.8	28	71	19	96	62	1	7	28	1.33
53613089--53613154	15	4.5	15	83	14	84	63	0	6	30	1.18
53614227--53614549	44	7.3	44	63	14	155	21	24	21	31	1.98
53614179--53614565	88	4.4	88	89	0	567	22	23	20	33	1.98
53614652--53614742	45	2.0	45	85	4	121	31	18	16	32	1.93
53614542--53614862	178	1.8	178	88	0	489	30	20	17	31	1.96
53614697--53614995	133	2.2	133	86	1	420	30	21	17	31	1.96
53622115--53622180	26	2.5	27	75	9	64	62	6	9	22	1.47
53622415--53622456	15	2.6	17	88	7	61	66	2	7	23	1.28
53622415--53622460	17	2.9	15	90	6	65	65	2	6	26	1.28
53625665--53625728	26	2.5	26	80	14	64	48	0	6	45	1.27
53627302--53627349	22	2.3	21	79	10	53	31	2	2	64	1.16
53633748--53633874	25	5.1	25	80	4	141	35	19	29	15	1.93
53640595--53640680	43	2.0	43	82	8	104	29	27	18	24	1.98
53645700--53645738	18	2.2	18	100	0	78	33	12	43	10	1.77
53655083--53655208	55	2.3	55	81	1	146	27	26	29	16	1.97
53660236--53660262	14	1.9	14	100	0	54	59	7	14	18	1.58
53667432--53667456	13	1.9	13	100	0	50	44	32	8	16	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53683956--53684040	42	2.0	42	83	0	107	30	22	12	34	1.92
53687216--53687287	36	2.0	36	94	0	126	31	26	23	18	1.97
53687324--53687427	25	4.2	25	79	0	109	34	18	28	18	1.94
53692947--53692999	21	2.6	21	96	3	99	37	0	18	43	1.51
53698053--53698090	13	3.1	12	82	17	51	55	2	0	42	1.14
53698144--53698193	25	2.0	25	84	7	66	50	6	4	40	1.46
53709319--53709359	17	2.4	17	95	0	73	41	17	7	34	1.77
53711592--53711648	25	2.3	25	79	11	64	22	24	21	31	1.98
53723970--53724040	36	2.0	36	91	0	115	30	15	2	50	1.58
53732145--53732279	27	5.0	27	80	5	146	29	17	22	31	1.96
53735577--53735645	21	3.2	21	69	18	70	21	8	10	59	1.57
53735572--53735660	43	2.1	43	97	0	169	22	12	8	56	1.64
53735710--53735879	84	2.0	84	96	0	313	34	12	28	25	1.92
53738952--53738992	20	2.0	20	95	0	73	53	14	12	19	1.72
53744564--53744740	27	6.5	26	81	6	158	25	16	28	29	1.97
53744564--53744719	82	1.9	81	85	3	215	25	16	28	28	1.97
53744560--53744740	82	2.2	81	81	2	211	25	16	28	29	1.97
53746090--53746275	47	4.0	47	95	0	318	33	7	30	29	1.85
53751141--53751174	18	1.9	18	88	5	52	55	0	5	38	1.24
53752572--53752650	37	2.1	37	90	0	122	25	31	18	24	1.98
53752769--53753301	49	11.1	49	95	2	854	28	29	9	32	1.88
53759739--53759778	21	1.9	21	89	0	62	42	2	7	47	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53763862--53763889	8	3.5	8	100	0	56	75	0	14	10	1.06
53769759--53769784	13	2.0	13	100	0	52	30	0	38	30	1.58
53776582--53776628	10	4.6	10	80	12	51	34	2	0	63	1.06
53776765--53776797	16	2.1	16	88	11	50	42	3	0	54	1.15
53776754--53776798	22	2.0	22	87	8	65	42	4	0	53	1.21
53785567--53785800	41	5.6	40	81	8	279	35	26	17	21	1.95
53785563--53785799	84	2.8	84	94	0	393	34	26	17	21	1.96
53789402--53789457	24	2.2	26	81	6	62	58	0	1	39	1.08
53789440--53789524	9	9.4	9	77	8	59	70	1	2	25	1.06
53789470--53789518	16	2.8	18	75	9	57	69	0	2	28	1.00
53789450--53789524	17	4.3	17	76	10	71	70	1	2	25	1.08
53789469--53789533	9	7.9	8	77	17	53	67	0	3	29	1.05
53789469--53789559	42	2.1	43	84	9	116	64	1	2	31	1.12
53789468--53789558	34	2.7	34	80	13	91	63	1	2	32	1.13
53789600--53789950	174	2.0	172	93	1	605	39	18	7	33	1.80
53790233--53790319	27	3.1	28	85	4	106	36	5	0	57	1.23
53790233--53790319	28	3.1	27	82	8	104	36	5	0	57	1.23
53790325--53790363	21	2.0	20	85	10	53	20	0	10	69	1.17
53790184--53790446	9	28.9	9	65	18	75	30	3	2	62	1.26
53790376--53790442	27	2.5	28	80	7	84	28	4	0	67	1.10
53790376--53790442	19	3.7	19	67	15	52	28	4	0	67	1.10
53790844--53790942	49	2.0	49	100	0	198	34	2	19	44	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53794250--53794318	30	2.4	28	79	13	77	33	2	7	56	1.42
53795648--53795851	108	1.9	106	88	11	310	44	0	3	50	1.25
53795854--53795887	17	2.0	17	100	0	68	41	0	0	58	0.98
53796044--53796141	44	2.2	46	90	3	155	36	28	4	30	1.76
53796051--53796141	46	2.0	44	91	4	146	38	29	4	27	1.76
53796121--53796157	16	2.3	16	95	0	65	24	32	5	37	1.78
53797647--53797691	18	2.5	18	82	7	56	57	0	0	42	0.98
53807011--53807057	20	2.3	20	85	0	58	10	31	23	34	1.89
53807224--53807259	7	5.1	7	100	0	72	41	0	13	44	1.44
53807519--53807555	15	2.5	15	90	0	56	45	8	18	27	1.77
53809131--53809203	34	2.1	35	84	2	94	32	6	16	43	1.74
53809320--53809441	43	2.8	42	70	16	97	23	16	27	32	1.96
53809536--53809674	68	2.0	68	100	0	278	34	4	24	36	1.75
53820123--53820151	13	2.2	13	100	0	58	24	0	41	34	1.55
53820059--53820210	81	1.9	81	95	0	277	37	6	23	32	1.80
53824924--53824972	15	3.2	16	80	11	59	44	10	16	28	1.80
53860126--53860277	27	5.6	27	92	3	232	30	28	13	27	1.94
53860126--53860302	55	3.2	55	89	0	246	31	29	12	26	1.93
53864984--53865042	22	2.6	23	79	10	59	33	6	18	40	1.77
53871737--53871794	19	2.8	20	80	17	64	36	6	13	43	1.71
53875921--53875965	23	2.0	23	81	0	54	62	4	4	28	1.34
53877709--53877838	41	3.1	41	66	18	113	30	20	20	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53877709--53877879	85	2.0	84	86	4	236	29	21	18	30	1.97
53877799--53878212	142	2.9	142	93	0	711	28	20	18	32	1.96
53878178--53878510	142	2.3	141	91	0	531	27	19	19	33	1.96
53877998--53878410	186	2.2	186	91	0	664	27	21	19	31	1.97
53877850--53878513	328	2.0	328	92	0	1103	28	20	18	32	1.96
53890580--53890630	27	1.9	26	84	11	68	54	13	9	21	1.67
53896401--53896433	17	1.9	17	100	0	66	18	30	9	42	1.81
53900680--53900712	17	1.9	17	100	0	66	18	30	9	42	1.81
53902703--53902746	21	2.1	21	100	0	88	40	13	18	27	1.88
53903345--53903392	22	2.2	22	100	0	96	29	31	0	39	1.57
53903426--53903488	29	2.2	30	94	5	112	34	0	1	63	1.04
53905240--53905308	25	2.7	25	86	2	102	46	2	11	39	1.55
53905301--53905335	18	2.0	18	94	5	54	51	22	0	25	1.48
53905311--53905456	29	5.0	29	94	0	256	44	26	0	28	1.55
53905511--53905746	55	4.3	55	98	0	445	38	12	5	43	1.65
53905730--53905754	10	2.5	10	100	0	50	44	8	0	48	1.32
53905986--53906025	7	5.4	7	88	5	53	45	37	2	15	1.59
53905987--53906025	8	5.1	8	90	3	55	46	38	2	12	1.56
53906016--53906086	18	3.7	18	79	17	88	49	23	0	26	1.51
53906059--53906202	29	4.9	29	95	0	252	45	24	0	29	1.58
53906179--53906219	18	2.3	18	95	0	73	48	21	0	29	1.50
53906281--53906305	10	2.5	10	100	0	50	44	8	0	48	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53906538--53906855	160	2.0	161	93	0	539	25	19	24	30	1.98
53910991--53911139	55	2.7	55	96	0	271	38	12	6	42	1.67
53911123--53911147	10	2.5	10	100	0	50	44	8	0	48	1.32
53913924--53914148	123	1.8	123	92	1	380	32	21	16	30	1.95
53914295--53914414	61	2.0	61	91	0	195	20	30	27	21	1.98
53916757--53916782	12	2.2	12	100	0	52	30	7	23	38	1.83
53917150--53917253	52	2.0	52	98	0	199	26	25	11	35	1.90
53917819--53917863	22	2.0	22	100	0	90	28	31	8	31	1.88
53919861--53920044	40	4.6	39	80	9	194	25	22	27	24	2.00
53919913--53920077	79	2.1	79	83	6	201	26	21	27	24	1.99

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