genome.fa.s4.2.7.7.80.10.50.1000.117.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  117  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)
39941860--39941917	19	3.1	19	78	12	66	58	1	3	36	1.25
39942162--39942217	25	2.4	24	85	14	73	57	5	3	33	1.39
39942738--39942804	9	7.6	8	73	17	53	25	4	0	70	1.06
39942783--39942882	37	2.7	37	75	9	98	32	3	1	64	1.16
39942888--39943110	91	2.5	91	83	5	274	30	8	22	38	1.85
39943961--39944058	40	2.5	40	86	0	142	38	22	8	30	1.83
39945282--39945328	22	2.1	22	96	0	85	23	31	0	44	1.54
39951353--39951568	46	4.7	46	97	0	407	20	24	28	26	1.99
39962676--39962896	79	2.8	79	87	0	318	31	23	14	31	1.94
39962991--39963128	40	3.5	40	83	0	141	35	21	13	30	1.91
39962794--39963066	119	2.3	119	91	0	438	35	22	10	30	1.89
39964763--39964796	11	3.2	10	88	12	50	70	0	0	29	0.87
39965529--39965627	34	2.9	34	72	13	94	26	4	34	35	1.75
39968576--39968677	50	2.0	50	100	0	204	21	11	20	46	1.83
39971047--39971077	12	2.6	12	100	0	62	32	35	25	6	1.82
39975669--39975710	3	14.0	3	100	0	84	33	0	0	66	0.92
39982491--39982522	3	10.7	3	100	0	64	68	0	0	31	0.90
39986755--39986782	6	4.7	6	100	0	56	14	17	50	17	1.79
39987070--39987155	41	2.1	40	82	6	102	29	13	15	41	1.85
39987330--39987365	14	2.5	15	90	4	56	25	0	0	75	0.81
39987510--39987554	22	2.0	22	83	8	56	35	4	13	46	1.63
39987816--39987848	7	4.7	7	96	0	57	45	36	0	18	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39987824--39987925	14	7.2	14	74	12	75	48	27	0	23	1.58
39987816--39987920	21	5.0	21	69	11	61	46	29	0	22	1.58
39988134--39988181	7	6.7	7	76	4	51	50	29	0	20	1.49
39988656--39988888	39	5.6	39	70	16	162	27	19	21	31	1.97
39988599--39988888	132	2.2	132	90	3	458	26	20	22	30	1.98
39995254--39995358	27	3.9	27	86	9	135	19	24	21	34	1.96
39998254--39998673	50	8.8	48	72	11	262	25	18	31	24	1.97
39998393--39998665	99	2.8	99	94	2	464	24	18	32	24	1.97
39998260--39998674	49	8.6	50	73	16	292	25	18	31	25	1.97
40003943--40004155	105	2.0	105	97	0	399	26	12	18	42	1.86
40004620--40004653	17	2.0	17	88	0	50	35	0	20	44	1.52
40008405--40008439	13	2.7	13	86	0	52	45	0	2	51	1.16
40013392--40013598	33	6.4	32	81	6	195	32	23	10	33	1.89
40013394--40013618	32	6.9	32	80	6	177	32	23	10	33	1.89
40013981--40014034	27	2.0	27	85	0	72	38	14	7	38	1.75
40016213--40016709	249	2.0	249	97	0	949	34	19	6	39	1.78
40026550--40026729	90	2.0	90	98	0	351	33	18	20	28	1.96
40035511--40035571	27	2.3	27	85	0	77	36	16	19	27	1.93
40044682--40044823	39	3.6	39	85	2	196	31	16	16	35	1.91
40046831--40046870	4	10.0	4	94	0	62	5	25	0	70	1.08
40048384--40048524	57	2.5	57	80	5	151	24	18	24	33	1.97
40049685--40049755	21	3.4	21	100	0	142	16	32	35	15	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40049659--40049798	21	6.5	21	83	3	136	17	32	31	17	1.94
40050464--40050881	75	5.7	75	81	3	440	30	15	16	37	1.90
40050488--40050881	112	3.5	112	77	8	408	30	15	16	37	1.90
40050488--40050887	37	10.7	37	80	1	377	31	15	16	37	1.90
40053824--40053897	30	2.5	30	91	8	125	12	35	31	21	1.90
40054723--40054839	62	1.9	59	86	5	162	41	4	3	50	1.38
40058236--40058279	22	2.0	22	90	0	70	54	0	0	45	0.99
40058306--40058339	15	2.1	16	89	10	52	58	0	0	41	0.98
40058372--40058428	15	3.5	15	71	17	51	49	1	1	47	1.22
40059906--40059953	20	2.5	20	82	3	53	60	4	2	33	1.27
40064872--40064929	29	2.0	30	86	3	82	41	17	6	34	1.76
40085590--40085662	21	3.4	21	88	3	92	17	23	26	32	1.97
40096823--40096855	16	1.9	18	88	11	52	15	15	21	48	1.81
40098365--40098681	161	2.0	156	97	0	553	33	23	5	35	1.78
40103326--40103500	18	9.3	18	67	13	84	41	16	10	32	1.82
40103353--40103426	36	2.1	36	84	0	94	37	16	9	36	1.81
40103622--40103742	53	2.3	53	86	2	172	41	22	19	16	1.90
40104016--40104083	18	3.7	19	76	5	68	45	14	8	30	1.76
40131291--40131325	18	1.9	18	88	0	52	5	48	0	45	1.26
40136265--40136340	38	2.1	36	82	9	91	53	1	3	40	1.27
40141255--40141290	18	2.0	18	88	0	54	30	0	8	61	1.26
40141267--40141332	18	3.3	18	72	22	60	34	0	3	62	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40141371--40141413	18	2.4	18	96	0	77	51	0	2	46	1.13
40141518--40141555	14	2.7	15	92	8	62	42	5	2	50	1.39
40143710--40143748	12	3.2	12	100	0	78	33	23	0	43	1.54
40150584--40150626	19	2.3	18	84	4	59	60	4	0	34	1.17
40150583--40150637	19	2.9	18	81	10	56	58	3	0	38	1.16
40152792--40152835	13	3.5	13	75	12	56	70	6	6	15	1.31
40154743--40154793	25	2.0	25	96	0	93	41	1	11	45	1.52
40154747--40154800	25	2.2	25	89	0	81	37	5	12	44	1.66
40155231--40155290	26	2.3	26	82	0	75	18	21	20	40	1.92
40155384--40155442	24	2.5	24	100	0	118	16	25	20	37	1.93
40156615--40156647	12	2.8	12	100	0	66	54	0	15	30	1.41
40174481--40174508	14	2.0	14	100	0	56	64	7	7	21	1.43
40178234--40178287	23	2.4	22	79	11	56	37	3	11	48	1.57
40178663--40178715	27	2.0	27	96	0	97	30	11	24	33	1.90
40185761--40185859	49	2.0	49	94	0	171	32	25	18	24	1.97
40190498--40190628	55	2.4	56	83	3	167	25	15	25	33	1.95
40190498--40190628	27	4.8	28	83	7	151	25	15	25	33	1.95
40192123--40192170	20	2.4	20	92	0	78	10	27	39	22	1.87
40196116--40196212	40	2.5	39	80	8	110	31	28	22	16	1.96
40197378--40197422	3	14.7	3	95	4	81	64	0	2	33	1.06
40200337--40200370	14	2.5	14	90	4	52	32	29	17	20	1.96
40203348--40203444	40	2.5	39	81	8	110	30	28	23	16	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40204610--40204651	3	13.0	3	85	14	57	64	0	4	30	1.14
40204618--40204662	15	3.3	14	90	9	67	66	0	4	28	1.11
40206085--40206129	22	2.0	22	86	0	63	35	28	8	26	1.87
40206403--40206432	13	2.3	13	94	0	51	30	33	33	3	1.74
40215693--40215809	62	1.9	60	82	5	146	47	4	5	42	1.45
40215788--40215895	11	9.4	11	67	25	55	54	1	1	41	1.22
40230856--40230902	23	2.0	23	95	0	85	42	21	21	14	1.88
40235062--40235217	45	3.5	45	83	7	201	32	17	25	25	1.97
40235062--40235217	23	6.9	23	83	7	196	32	17	25	25	1.97
40235075--40235228	68	2.3	68	91	1	247	33	16	25	24	1.96
40235063--40235251	23	8.3	23	81	7	183	31	17	24	25	1.97
40235062--40235238	45	3.9	45	80	12	184	31	17	25	25	1.97
40235075--40235251	68	2.6	68	88	2	223	32	17	24	24	1.97
40238069--40238108	17	2.4	17	86	0	53	57	7	2	32	1.40
40238361--40238411	16	3.2	16	74	0	57	31	25	3	39	1.74
40241454--40241529	7	10.9	7	89	0	116	17	2	36	43	1.63
40246856--40246924	34	2.0	34	97	0	129	49	11	18	20	1.78
40251081--40251384	149	2.0	149	97	0	572	31	18	14	34	1.91
40255112--40255161	26	2.0	24	88	7	73	64	6	0	30	1.18
40261934--40261983	19	2.7	18	87	9	73	36	2	14	48	1.55
40261998--40262088	42	2.2	42	93	0	155	28	5	13	52	1.62
40266678--40266768	42	2.1	43	93	2	157	30	3	12	53	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40272600--40272633	2	17.5	2	93	6	61	50	0	0	50	1.00
40277514--40277563	24	2.1	24	100	0	100	32	14	24	30	1.94
40281831--40281866	14	2.6	14	100	0	72	19	5	13	61	1.52
40283152--40283209	30	1.9	30	96	0	107	37	6	8	46	1.61
40285081--40285119	21	1.9	20	89	5	60	43	10	5	41	1.61
40286707--40286758	17	2.9	17	85	5	59	32	3	0	63	1.12
40288165--40288243	34	2.3	34	82	0	95	31	11	15	41	1.82
40291587--40291629	11	3.7	11	82	11	59	46	16	0	37	1.47
40291580--40291629	24	2.1	24	100	0	100	48	16	0	36	1.46
40291807--40291855	19	2.5	20	87	9	66	55	0	4	40	1.19

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