genome.fa.s23.2.7.7.80.10.50.1000.163.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_chr5
Parameters: 2 7 7 80 10 50 1000
Length:  55438857

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   

This is table  163  of  167  ( 19959 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)
54138289--54138365	29	2.8	27	79	13	93	37	2	1	58	1.20
54145889--54145919	15	2.1	15	100	0	62	45	41	6	6	1.55
54145997--54146109	25	4.5	25	72	8	86	19	24	18	37	1.94
54150658--54150716	29	2.0	29	100	0	118	22	6	23	47	1.75
54152583--54152629	23	2.1	23	92	4	78	65	19	2	12	1.35
54152594--54152642	22	2.2	23	85	3	64	73	12	4	10	1.22
54153956--54153996	11	4.2	10	81	15	50	36	0	2	60	1.10
54153966--54154016	17	3.0	17	81	16	61	35	3	1	58	1.28
54155790--54155875	43	2.0	42	95	2	154	30	11	22	34	1.89
54161491--54161580	46	2.0	46	90	0	144	34	18	17	28	1.94
54173092--54173289	105	1.9	102	82	9	249	33	16	24	25	1.96
54175058--54175103	18	2.6	18	92	0	74	21	39	23	15	1.92
54176381--54176428	23	2.0	24	88	4	71	52	0	8	39	1.32
54176404--54176441	15	2.4	16	86	8	51	47	0	5	47	1.24
54176676--54176738	21	2.9	22	75	11	67	44	4	7	42	1.54
54176920--54176974	27	2.0	29	85	7	78	63	3	1	30	1.22
54178472--54178527	15	3.7	15	77	15	53	66	5	26	1	1.23
54179165--54179203	3	13.0	3	88	0	60	30	2	2	64	1.21
54179486--54179591	48	2.2	48	87	0	149	18	17	27	35	1.94
54179501--54179594	48	2.0	48	91	0	152	18	18	28	35	1.94
54179739--54179782	18	2.4	18	92	0	70	29	11	18	40	1.85
54181116--54181242	41	3.1	40	85	2	155	33	23	19	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54181523--54181625	7	14.4	7	71	4	62	46	31	0	22	1.52
54181735--54181811	38	2.1	36	88	9	111	25	2	27	44	1.67
54182875--54182977	40	2.6	41	82	4	129	34	15	22	27	1.94
54186123--54186167	14	3.5	14	77	22	62	44	13	4	37	1.64
54186278--54186345	25	2.7	25	86	0	91	11	41	16	30	1.84
54186927--54186972	23	2.0	23	91	0	74	43	2	15	39	1.59
54189066--54189097	13	2.4	14	94	5	57	31	0	9	59	1.29
54189503--54189560	27	2.1	27	80	0	62	29	15	48	6	1.71
54189913--54190011	43	2.3	43	81	8	112	29	20	18	32	1.96
54191068--54191183	34	3.4	34	84	0	151	44	18	8	28	1.79
54197053--54197251	43	4.9	42	71	18	145	27	15	25	32	1.95
54197085--54197145	31	2.0	31	100	0	122	27	13	22	36	1.92
54206097--54206185	44	2.0	44	93	0	151	24	12	26	35	1.91
54207230--54207293	27	2.4	27	94	0	110	26	10	23	39	1.88
54207899--54208025	46	2.7	47	82	12	165	30	19	25	23	1.98
54208110--54208214	49	2.2	48	79	5	113	28	23	26	20	1.99
54218040--54218096	22	2.6	23	75	8	64	43	17	22	15	1.87
54219274--54219362	7	13.3	7	71	17	55	49	1	1	48	1.16
54221379--54221539	43	3.8	43	76	12	161	26	15	25	32	1.95
54232627--54233735	48	23.1	48	98	0	2137	35	6	27	31	1.82
54233882--54233990	37	3.0	36	93	4	182	23	19	31	25	1.98
54236085--54236290	40	5.2	40	91	0	315	28	26	21	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54251552--54251599	25	2.1	23	81	14	55	54	6	4	35	1.45
54252722--54252830	50	2.2	50	98	0	209	24	11	20	43	1.85
54255448--54255618	93	1.8	93	91	0	279	30	29	19	20	1.97
54255443--54255615	46	3.7	46	74	11	156	31	28	19	20	1.97
54263499--54263620	63	1.9	63	93	0	208	30	22	14	31	1.94
54265182--54265326	72	2.0	72	98	0	281	25	17	29	27	1.97
54268689--54268850	42	3.8	42	76	8	168	30	15	22	30	1.95
54275216--54275379	42	3.9	42	78	6	152	32	15	23	28	1.95
54284179--54284252	29	2.6	29	89	4	105	25	16	32	25	1.96
54284563--54284798	40	5.9	41	85	4	141	25	22	27	24	2.00
54284563--54284814	80	3.2	80	85	4	296	25	22	27	25	2.00
54284563--54284814	120	2.1	120	84	4	321	25	22	27	25	2.00
54284642--54284814	40	4.3	40	93	0	292	24	21	28	25	1.99
54286276--54286454	27	6.6	27	83	3	180	29	27	15	27	1.96
54286303--54286453	82	1.9	81	88	4	232	29	27	15	27	1.96
54288076--54288205	68	1.9	68	98	0	251	27	28	14	29	1.95
54295929--54296153	40	5.6	40	93	1	362	25	28	23	22	1.99
54301900--54302117	40	5.5	40	89	2	307	24	28	22	23	1.99
54306114--54306211	40	2.5	40	83	5	119	22	27	25	24	2.00
54306306--54306890	40	14.6	40	96	0	1039	27	27	21	24	1.99
54311558--54311733	40	4.4	40	80	5	171	23	27	25	23	2.00
54311558--54311733	80	2.2	79	82	4	203	23	27	25	23	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54313106--54313156	10	5.1	10	79	13	52	64	1	7	25	1.31
54313921--54314146	119	1.9	119	87	0	335	28	28	17	25	1.98
54315030--54315084	8	7.3	7	79	20	58	72	0	3	23	1.00
54315045--54315096	5	10.4	5	76	15	54	76	0	1	21	0.87
54315038--54315104	17	3.9	17	78	21	77	74	0	2	22	0.95
54315029--54315099	25	2.9	25	87	8	94	74	0	2	22	0.94
54315029--54315089	12	4.9	12	79	15	70	73	0	3	22	0.97
54316712--54316842	45	2.9	45	77	14	144	24	30	18	26	1.98
54321299--54321358	10	6.0	10	84	11	70	66	1	8	23	1.28
54322438--54322847	136	3.0	136	98	0	775	31	24	19	24	1.98
54323095--54323147	26	2.0	26	82	7	63	28	11	20	39	1.87
54324632--54324741	26	4.2	26	96	0	175	36	23	5	34	1.78
54327604--54328049	43	10.2	42	66	19	141	26	24	16	31	1.96
54327529--54328275	176	4.3	176	88	3	1057	26	24	17	31	1.97
54328101--54328219	38	3.0	38	80	8	105	25	26	16	31	1.97
54329365--54329405	22	2.0	21	90	9	66	7	21	0	70	1.11
54340112--54340253	71	2.0	71	94	0	248	43	9	11	35	1.74
54349646--54349689	20	2.1	21	83	4	54	63	0	2	34	1.07
54349648--54349691	23	1.9	23	86	9	63	63	0	2	34	1.07
54350924--54350997	37	1.9	39	81	10	91	50	2	10	36	1.52
54355701--54355797	33	3.0	33	90	1	151	18	42	21	17	1.89
54355711--54355821	32	3.4	32	86	2	105	20	40	20	18	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54358880--54358957	33	2.4	32	81	10	86	23	21	19	35	1.96
54358831--54358956	66	1.9	66	83	3	164	22	24	19	33	1.97
54361050--54361089	21	2.0	20	85	5	53	75	2	7	15	1.14
54369674--54369757	26	3.2	26	91	0	132	35	26	5	32	1.81
54371785--54371862	23	3.4	22	75	10	77	30	5	1	62	1.24
54371915--54372148	26	9.4	25	67	16	103	33	7	1	57	1.36
54371986--54372147	77	2.2	76	80	12	178	33	6	1	58	1.34
54372152--54372293	28	5.2	27	72	14	94	28	6	3	61	1.37
54372190--54372249	26	2.4	25	80	8	68	31	5	1	61	1.27
54372206--54372280	26	3.0	26	79	9	77	29	4	1	65	1.19
54377585--54377628	23	1.9	23	90	0	70	15	2	36	45	1.59
54378115--54378165	25	2.0	25	92	0	84	43	5	5	45	1.52
54380619--54380838	3	72.7	3	69	8	133	60	2	7	29	1.37
54380991--54381306	3	105.0	3	66	11	94	58	1	8	30	1.38
54380991--54381026	14	2.8	13	88	12	56	61	0	2	36	1.11
54382728--54382873	44	3.3	43	76	3	112	26	22	19	31	1.98
54382781--54382890	44	2.5	44	80	1	114	27	22	22	27	1.99
54382869--54383112	88	2.8	88	85	0	335	27	20	22	29	1.99
54382946--54383081	44	3.1	42	68	17	98	24	22	23	30	1.99
54383080--54383287	41	4.9	41	72	9	114	28	17	20	34	1.95
54383208--54383382	92	1.9	96	83	7	234	29	20	18	32	1.96
54383298--54383415	45	2.7	44	81	1	119	29	23	14	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54383418--54383522	47	2.2	47	93	0	174	23	26	26	22	2.00
54383463--54383720	68	3.8	68	87	1	356	29	23	23	24	1.99
54383736--54384154	86	4.9	86	86	0	552	22	22	22	32	1.98
54389025--54389195	93	1.8	93	93	0	297	27	29	21	22	1.99
54389020--54389192	46	3.7	46	76	13	192	28	28	20	22	1.99
54391587--54391675	30	3.0	30	80	8	101	57	15	16	10	1.65
54391587--54391666	15	5.4	15	80	7	92	58	13	17	10	1.62
54391598--54391675	15	5.2	15	78	9	79	56	15	16	11	1.67
54392637--54392762	47	2.7	47	85	2	146	29	24	15	30	1.96
54392766--54392794	7	4.1	7	100	0	58	13	27	13	44	1.82

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