genome.fa.s4.2.7.7.80.10.50.1000.93.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  93  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)
32230918--32230988	35	2.0	35	91	0	115	36	11	25	26	1.90
32233551--32233601	25	2.0	25	88	0	75	33	21	23	21	1.97
32235275--32235514	28	8.5	28	91	3	349	26	11	27	34	1.91
32235303--32235513	57	3.7	57	95	1	363	27	11	26	34	1.91
32258796--32259162	27	13.6	27	79	3	348	38	21	7	31	1.82
32258796--32259055	54	4.8	54	93	1	434	40	20	7	32	1.80
32258787--32259126	108	3.2	108	86	3	436	39	20	7	32	1.82
32259147--32259314	27	6.2	27	92	0	237	36	16	19	27	1.93
32262911--32262955	2	22.5	2	81	0	54	44	2	6	46	1.42
32263654--32263838	39	4.7	39	92	2	307	19	21	30	29	1.97
32263654--32263838	80	2.3	78	95	1	334	19	21	30	29	1.97
32268074--32268258	38	4.9	38	79	2	147	16	19	25	38	1.92
32268077--32268262	76	2.4	76	80	1	194	15	19	26	38	1.91
32268093--32268262	38	4.5	38	79	2	171	15	20	25	38	1.92
32270030--32270164	66	2.0	66	94	0	234	23	15	12	48	1.79
32272736--32272859	27	4.6	27	93	2	140	30	28	13	27	1.94
32272736--32272859	55	2.3	54	90	1	185	30	28	13	27	1.94
32280743--32281222	27	17.6	27	97	1	474	30	29	14	25	1.95
32280743--32281222	54	8.8	54	96	1	852	30	29	14	25	1.95
32280743--32281222	82	5.9	82	97	1	874	30	29	14	25	1.95
32283561--32283647	40	2.2	40	85	0	129	39	17	20	22	1.92
32283946--32284055	53	2.1	53	87	0	157	33	16	15	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32284461--32284508	25	1.9	25	83	8	62	18	0	43	37	1.51
32284486--32284558	21	3.4	22	78	12	80	20	1	42	35	1.61
32284489--32284546	14	4.1	14	78	12	57	20	0	43	36	1.52
32284486--32284606	7	17.0	7	71	12	50	20	0	38	40	1.59
32284748--32284797	22	2.3	21	79	3	55	24	0	30	46	1.53
32284789--32284835	14	3.3	15	82	8	62	14	2	48	34	1.56
32285355--32285402	8	6.2	8	85	4	55	70	2	0	27	0.98
32285362--32285396	15	2.4	14	90	4	52	74	2	0	22	0.95
32285355--32285388	7	4.7	7	96	3	59	73	0	0	26	0.83
32285397--32285421	7	3.6	7	100	0	50	40	0	0	60	0.97
32285548--32285670	41	3.1	39	74	9	113	41	14	17	26	1.88
32289134--32289287	43	3.6	43	84	3	193	24	19	29	26	1.98
32289067--32289287	86	2.6	86	81	5	238	25	18	28	27	1.98
32290578--32290660	41	2.0	41	100	0	166	55	7	16	20	1.65
32291115--32291143	8	3.8	8	95	4	51	55	0	0	44	0.99
32301685--32301718	15	2.3	15	89	0	50	50	5	26	17	1.69
32301691--32301721	15	2.1	15	100	0	62	45	6	19	29	1.75
32320534--32320577	19	2.3	19	100	0	88	50	15	9	25	1.74
32325253--32325292	16	2.6	15	84	7	53	5	10	0	85	0.75
32325953--32326067	3	39.0	3	73	6	83	32	7	0	59	1.32
32326197--32326232	15	2.4	15	90	0	54	38	11	0	50	1.38
32326197--32326240	15	2.9	15	89	0	52	36	13	0	50	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32326305--32326368	29	2.1	29	83	11	76	17	9	4	68	1.34
32338176--32338892	45	15.8	44	69	14	399	33	17	20	28	1.96
32338177--32338478	137	2.2	136	89	0	460	33	19	19	28	1.96
32338177--32338529	136	2.6	137	86	2	471	32	19	20	28	1.97
32338313--32338840	181	2.9	181	91	0	840	32	17	20	28	1.96
32338450--32338837	89	4.3	89	75	12	328	31	17	21	29	1.96
32338717--32338939	52	4.7	49	70	16	148	36	17	17	28	1.92
32338676--32339020	137	2.5	138	87	1	478	34	17	19	28	1.95
32339539--32339581	23	2.0	21	81	9	50	51	13	18	16	1.77
32340333--32340486	3	52.7	3	72	10	113	31	7	0	61	1.28
32341041--32341150	54	2.0	54	94	0	193	28	17	20	34	1.95
32360786--32360841	23	2.4	23	90	0	94	10	32	32	25	1.90
32366672--32366701	15	2.0	15	100	0	60	46	0	26	26	1.53
32367231--32367370	60	2.3	60	97	0	262	25	17	22	34	1.96
32372440--32372769	48	6.9	48	72	7	231	24	29	19	26	1.99
32372974--32373000	12	2.2	12	100	0	54	40	18	0	40	1.51
32374389--32374445	28	2.0	28	100	0	114	45	21	0	33	1.52
32384754--32384854	29	3.5	29	90	1	150	29	28	14	26	1.95
32394940--32395258	48	6.6	48	73	0	242	25	30	17	26	1.97
32403377--32403405	9	3.2	9	100	0	58	31	24	10	34	1.89
32416046--32416070	13	1.9	13	100	0	50	44	0	8	48	1.32
32420311--32420501	27	7.1	27	78	2	177	40	23	8	27	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32420316--32420501	54	3.5	53	78	8	205	41	22	8	27	1.83
32420310--32420502	81	2.4	80	80	6	201	40	23	8	27	1.83
32420481--32420534	27	2.0	27	92	0	90	35	16	16	31	1.92
32420322--32420529	108	1.9	108	87	1	301	40	22	9	27	1.85
32427464--32427595	47	2.8	47	82	3	149	24	12	25	37	1.91
32436383--32436447	34	1.9	34	90	0	103	30	24	20	24	1.98
32436776--32436840	33	2.0	33	90	0	103	30	27	13	27	1.94
32444110--32444138	13	2.3	13	94	5	51	24	6	0	68	1.13
32446842--32446879	13	2.9	13	96	0	67	15	31	39	13	1.86
32451811--32451948	44	3.2	42	81	5	143	31	24	15	27	1.96
32457120--32457297	52	3.5	50	79	8	191	27	29	15	28	1.96
32457159--32457297	52	2.7	51	85	12	196	27	29	13	29	1.94
32459743--32459787	19	2.3	19	92	3	72	26	17	15	40	1.90
32460625--32460664	20	2.0	20	85	0	53	37	12	0	50	1.41
32461663--32461728	27	2.4	27	77	5	71	24	39	18	18	1.92
32463738--32463785	22	2.2	22	96	0	87	18	37	20	22	1.94
32465110--32465203	31	3.2	31	69	22	103	57	15	1	25	1.45
32465090--32465203	56	2.0	56	98	0	219	57	15	0	26	1.45
32473884--32473962	37	2.1	37	90	0	122	25	31	18	24	1.98
32474081--32474414	47	7.0	47	92	3	535	29	30	8	31	1.87
32474081--32474414	96	3.5	94	93	2	535	29	30	8	31	1.87
32474081--32474414	143	2.3	142	92	3	537	29	30	8	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32478052--32478183	57	2.3	58	84	3	171	28	30	19	21	1.98
32478211--32478447	40	5.9	40	95	0	438	27	26	19	26	1.99
32479806--32479884	37	2.1	37	88	0	113	25	32	18	22	1.97
32480296--32480425	62	2.1	62	100	0	260	28	19	18	33	1.95
32483015--32483159	53	2.7	53	81	2	164	21	22	18	37	1.94
32484905--32484947	20	2.2	20	100	0	86	72	4	13	9	1.26
32485745--32485903	43	3.7	43	77	7	164	25	16	25	32	1.96
32489508--32489545	13	2.8	13	92	4	58	31	10	15	42	1.81
32489696--32489742	23	2.0	23	100	0	94	12	17	21	48	1.79
32494518--32494779	131	2.0	131	91	1	427	29	15	20	34	1.94
32499126--32499301	46	3.8	46	76	12	198	22	20	29	27	1.98
32499123--32499293	93	1.8	93	93	0	297	22	21	29	27	1.99
32502225--32502355	65	2.0	65	95	0	235	22	14	19	42	1.88
32513511--32513561	26	2.0	26	84	7	68	60	17	7	13	1.56
32514335--32514549	108	2.0	108	89	0	331	31	16	17	34	1.92
32518827--32518860	13	2.6	13	90	0	50	8	32	8	50	1.64
32519221--32519264	11	3.9	11	82	5	52	65	6	6	20	1.39
32525602--32525670	30	2.3	30	87	0	93	15	21	33	28	1.95
32525775--32525801	12	2.2	12	100	0	54	29	40	22	7	1.81
32532360--32532525	24	7.0	24	86	4	221	26	20	23	29	1.99
32532360--32532525	71	2.3	71	89	3	244	26	20	23	29	1.99
32532360--32532525	47	3.5	48	86	4	221	26	20	23	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32533848--32533921	26	2.8	26	76	13	71	21	18	21	37	1.94
32539625--32539692	27	2.5	27	87	0	91	25	13	19	42	1.87
32539625--32539704	27	3.0	27	86	0	88	22	12	21	43	1.86
32545780--32545920	50	2.8	50	88	2	185	29	24	19	26	1.98
32553024--32553179	47	3.3	47	82	4	192	33	9	29	26	1.88
32553250--32553334	40	2.2	40	86	2	118	17	21	31	29	1.96
32555885--32556062	40	4.5	40	88	3	227	24	28	24	23	1.99
32559112--32559212	51	2.0	51	92	0	166	38	10	18	31	1.86
32560940--32561011	24	3.0	24	74	9	67	19	22	18	40	1.92
32563175--32563415	37	6.6	37	73	12	187	39	15	18	26	1.90

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