genome.fa.s4.2.7.7.80.10.50.1000.179.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  179  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)
60781985--60782114	66	1.9	67	84	10	174	33	16	30	20	1.94
60793114--60793138	12	2.1	12	100	0	50	76	0	8	16	1.02
60793140--60793206	30	2.2	30	81	5	82	55	1	23	19	1.52
60798294--60798360	34	2.0	34	93	0	116	22	8	11	56	1.63
60800709--60800742	17	2.0	17	100	0	68	35	23	17	23	1.95
60806242--60806281	21	1.9	21	85	10	55	30	10	25	35	1.88
60812207--60812282	26	2.9	26	88	0	107	39	9	19	31	1.83
60815622--60815680	30	2.0	30	83	6	75	28	23	3	44	1.70
60818188--60818245	15	3.9	15	81	0	62	58	12	17	12	1.63
60820167--60820350	40	4.6	39	80	9	185	24	21	27	26	1.99
60820220--60820373	79	1.9	79	82	7	188	25	19	27	27	1.99
60820791--60820877	44	2.0	44	97	0	165	22	13	20	42	1.88
60827318--60827502	79	2.3	81	84	7	236	24	22	27	25	2.00
60827319--60827502	40	4.6	40	83	9	216	24	22	27	25	2.00
60827371--60827535	79	2.1	79	84	6	210	26	21	27	25	1.99
60829116--60829282	43	3.9	44	75	16	154	26	25	20	26	1.99
60829111--60829277	86	1.9	87	82	10	209	26	26	20	25	1.99
60832558--60832632	28	2.7	27	81	2	87	29	21	20	29	1.98
60838362--60838440	27	2.9	27	76	0	86	24	17	20	37	1.93
60840354--60840386	14	2.5	14	90	9	52	21	9	27	42	1.83
60840355--60840785	50	8.5	50	76	3	355	25	16	25	31	1.97
60840403--60840788	101	3.8	101	75	1	281	25	17	25	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60840398--60840788	151	2.6	151	85	0	530	25	17	26	30	1.97
60845181--60845248	33	2.1	33	97	0	127	29	23	16	30	1.96
60845224--60845639	48	8.7	48	77	5	369	25	28	18	26	1.98
60845224--60845649	96	4.4	96	83	2	464	26	28	18	26	1.98
60851365--60851411	24	2.0	24	95	0	85	36	0	38	25	1.56
60851365--60851424	24	2.5	23	86	10	77	36	0	38	25	1.56
60852829--60852941	27	4.2	26	78	11	102	15	22	22	39	1.91
60852881--60852941	28	2.3	26	88	8	95	13	21	22	42	1.87
60852829--60852941	54	2.1	54	81	3	129	15	22	22	39	1.91
60859193--60859257	24	2.7	24	92	0	103	36	0	36	26	1.57
60860687--60860779	27	3.4	27	80	7	98	16	23	22	37	1.93
60885054--60885141	46	1.9	46	88	4	133	18	34	21	26	1.96
60892361--60892536	47	3.7	47	73	10	153	22	28	18	29	1.98
60892835--60892868	13	2.8	12	91	8	59	52	17	0	29	1.45
60892835--60892873	17	2.3	17	90	0	60	53	17	0	28	1.44
60897692--60897726	12	2.8	12	91	4	52	14	20	17	48	1.81
60904531--60904571	21	2.0	21	100	0	82	24	31	24	19	1.98
60904638--60904706	30	2.3	30	100	0	138	18	30	30	20	1.97
60906078--60906112	16	2.2	16	100	0	70	71	5	5	17	1.25
60914429--60914598	43	4.0	42	78	3	153	25	14	25	34	1.94
60917653--60917765	54	2.1	54	89	0	181	23	27	31	16	1.96
60918032--60918071	21	2.0	21	90	5	64	10	40	27	22	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60922258--60922370	51	2.2	51	90	0	172	29	23	14	32	1.94
60922957--60923328	198	1.9	198	95	0	672	29	13	23	33	1.94
60924756--60925765	40	25.3	40	97	0	1581	24	20	27	27	1.99
60924779--60925765	80	12.4	80	98	0	1805	25	20	27	27	1.99
60924779--60925765	120	8.2	120	98	0	1805	25	20	27	27	1.99
60936799--60936859	28	2.2	28	81	0	77	27	6	21	44	1.77
60945208--60945431	40	5.6	40	85	3	279	25	23	25	26	2.00
60945216--60945431	83	2.7	80	86	4	274	24	23	25	26	2.00
60963187--60963298	22	4.9	22	69	15	68	33	17	23	25	1.96
60971366--60971408	21	2.0	21	86	0	59	37	16	0	46	1.47
60987501--60987732	84	2.8	84	82	5	256	44	10	11	32	1.75
60987696--60987896	87	2.3	86	82	2	242	38	12	12	36	1.82
60990181--60990249	34	2.0	34	94	0	120	23	8	23	44	1.80
60991727--60991777	15	3.4	15	74	15	52	35	0	3	60	1.15
61003762--61004002	44	5.5	44	84	6	335	24	21	28	24	1.99
61003754--61004002	89	2.8	89	96	1	448	25	21	27	25	1.99
61011703--61011855	44	3.5	45	84	7	206	24	20	28	26	1.99
61021088--61021436	27	12.9	27	84	4	391	28	21	8	41	1.82
61021446--61021641	27	7.3	27	85	2	241	35	18	18	26	1.95
61022033--61022106	27	2.8	27	85	6	89	17	24	21	36	1.95
61022224--61022356	6	21.8	6	75	17	123	19	18	14	48	1.81
61022224--61022356	31	4.4	30	91	6	205	19	18	14	48	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61022224--61022377	30	5.1	30	86	7	186	19	18	14	48	1.82
61023167--61023211	10	4.8	10	81	10	51	46	13	2	37	1.55
61024142--61024213	35	2.1	35	94	0	126	30	22	16	30	1.96
61024330--61024439	22	5.0	22	84	9	136	33	21	16	28	1.95
61030076--61030104	15	1.9	15	100	0	58	37	27	13	20	1.91
61032192--61032476	142	2.0	142	100	0	570	44	14	14	26	1.84
61035854--61035976	63	2.0	63	88	0	183	23	26	22	27	2.00
61037245--61037380	69	2.0	69	86	0	191	27	18	16	38	1.92
61042693--61043015	49	6.5	47	85	7	358	29	28	8	34	1.86
61042693--61043015	104	3.3	96	84	8	407	29	28	8	34	1.86
61044098--61044538	40	11.1	40	89	1	634	25	28	21	24	1.99
61046765--61047297	49	11.1	49	94	2	847	28	30	8	32	1.87
61049162--61049202	20	2.2	20	86	8	59	17	24	0	58	1.38
61065757--61065799	16	2.8	15	75	6	50	39	0	20	39	1.53
61074400--61074455	11	5.5	11	71	16	57	35	12	19	32	1.89
61074389--61074455	20	3.3	20	93	0	116	34	11	20	32	1.90
61074498--61074626	25	5.2	25	86	6	149	31	20	22	26	1.98
61074811--61074871	31	2.0	31	86	0	86	31	14	27	26	1.95
61076417--61076485	34	2.0	34	97	0	129	30	4	14	50	1.62
61079794--61079826	17	1.9	17	93	0	57	24	9	9	57	1.58
61090094--61090316	40	5.6	39	85	3	241	26	27	20	24	1.99
61090094--61090316	120	1.9	119	81	6	272	26	27	20	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61090794--61090953	80	2.0	81	92	1	268	30	30	10	29	1.90
61102516--61102777	39	6.7	40	87	7	319	24	27	22	25	2.00
61103891--61104061	85	2.0	86	96	1	317	35	17	21	25	1.95
61106678--61106716	20	2.0	20	89	0	60	48	12	10	28	1.74
61106700--61106739	14	2.9	14	84	0	53	42	17	7	32	1.77
61118754--61118969	46	4.6	46	78	7	204	27	18	31	22	1.97
61119574--61119606	12	2.6	13	85	9	50	9	45	0	45	1.35
61120671--61120735	28	2.3	28	89	0	94	33	26	9	30	1.88
61120841--61120903	28	2.2	29	88	8	94	22	22	23	31	1.98
61120851--61120914	28	2.2	28	86	2	83	25	25	18	31	1.98
61125081--61125225	40	3.6	40	85	4	184	24	26	24	25	2.00
61138351--61138540	9	20.6	9	71	13	100	38	1	12	47	1.51
61138351--61138513	71	2.3	69	84	4	202	38	1	12	47	1.50
61138387--61138571	96	2.0	91	86	9	261	38	2	11	47	1.52
61138327--61138540	114	1.9	114	84	5	290	38	1	12	47	1.50
61138387--61138571	87	2.1	87	83	9	227	38	2	11	47	1.52
61138645--61138674	15	2.0	15	100	0	60	53	0	0	46	1.00
61138802--61139039	73	3.3	72	97	1	433	60	4	5	28	1.39
61139506--61139534	15	1.9	15	100	0	58	48	20	6	24	1.74
61139739--61140286	183	3.0	183	96	0	1024	42	15	15	26	1.86
61142432--61142534	50	2.0	51	96	3	190	43	21	3	31	1.70
61143263--61143311	15	3.5	15	73	21	61	28	0	53	18	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61143262--61143314	26	2.0	26	100	0	106	30	0	49	20	1.50
61143592--61143649	28	2.1	28	83	6	73	36	29	1	32	1.68
61143626--61143669	21	2.1	21	91	0	70	34	34	2	29	1.70
61143891--61143924	7	4.9	7	100	0	68	29	55	0	14	1.40
61144030--61144290	41	6.4	41	89	0	380	22	24	19	34	1.97
61144345--61144370	12	2.2	12	100	0	52	46	30	15	7	1.74
61152561--61152733	46	3.7	46	79	3	186	29	20	28	21	1.98
61152561--61152836	93	3.0	93	80	7	285	29	19	28	22	1.98
61152560--61152875	47	6.8	47	77	10	258	29	18	28	22	1.98
61156036--61156080	23	1.9	23	86	4	63	60	2	8	28	1.39

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