genome.fa.s23.2.7.7.80.10.50.1000.23.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  23  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)
6901573--6901618	10	4.6	10	89	5	67	23	8	0	67	1.18
6901585--6901623	20	2.0	20	89	0	60	23	7	5	64	1.40
6907350--6907403	23	2.3	23	93	0	90	48	7	0	44	1.31
6912768--6912795	14	2.0	14	100	0	56	14	0	0	85	0.59
6914727--6914751	2	12.5	2	100	0	50	52	0	0	48	1.00
6919859--6919893	18	2.0	18	88	5	54	54	0	25	20	1.45
6920477--6920501	11	2.3	11	100	0	50	44	20	0	36	1.52
6920656--6920680	12	2.1	12	100	0	50	0	16	24	60	1.36
6926092--6926239	40	3.7	40	93	0	251	21	27	20	31	1.98
6941359--6941406	10	4.8	10	87	10	62	22	8	2	66	1.29
6947795--6947826	15	2.1	16	88	11	50	18	6	0	75	1.01
6947814--6947858	19	2.3	20	88	3	65	20	6	0	73	1.05
6950377--6950560	96	1.9	97	87	1	271	27	13	27	32	1.93
6951197--6951246	10	5.0	10	81	13	59	22	8	2	68	1.26
6958228--6958252	7	3.6	7	100	0	50	0	16	12	72	1.13
6959218--6959433	62	3.5	62	100	0	432	39	19	3	37	1.68
6962021--6962099	29	2.6	30	78	11	81	36	1	2	59	1.19
6962101--6962139	20	2.0	19	85	5	51	25	0	2	71	0.98
6962079--6962136	29	2.0	29	82	0	71	34	0	1	63	1.04
6963346--6963372	11	2.5	11	100	0	54	22	37	18	22	1.95
6963742--6963808	14	4.7	14	92	3	107	37	5	19	37	1.76
6964264--6964352	22	4.0	22	73	15	83	43	21	6	28	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6965304--6965376	32	2.5	30	84	10	89	50	20	4	24	1.65
6967524--6967548	3	8.3	3	100	0	50	0	32	0	68	0.90
6969730--6969789	18	3.4	17	72	6	57	51	3	31	13	1.57
6970406--6970445	20	2.0	20	85	0	53	35	5	2	57	1.34
6971531--6971564	16	2.1	16	100	0	68	38	0	5	55	1.24
6973309--6973543	131	1.8	130	85	2	337	31	14	17	36	1.89
6974090--6974131	21	2.0	21	100	0	84	47	9	19	23	1.78
6975736--6976283	143	3.8	143	85	3	744	28	23	18	29	1.98
6976027--6976283	44	5.6	44	69	14	151	26	24	19	29	1.98
6977657--6977738	26	3.2	26	92	0	137	32	7	23	36	1.82
6980410--6980521	6	18.0	6	79	15	95	2	12	0	83	0.79
6980411--6980523	1	113.0	1	69	0	73	2	11	0	84	0.76
6980417--6980522	13	8.3	13	77	19	107	2	11	0	84	0.77
6980411--6980523	33	3.3	32	79	17	129	2	11	0	84	0.76
6981956--6982113	81	1.9	81	84	11	210	51	2	17	28	1.59
6984581--6984815	131	1.8	130	87	4	357	32	13	17	37	1.88
6987305--6988341	173	6.0	173	100	0	2074	30	18	15	35	1.92
6992195--6992259	31	2.1	31	82	2	78	47	10	6	35	1.63
6992215--6992275	31	2.0	31	90	0	95	44	13	6	36	1.69
7000016--7000125	57	1.9	57	100	0	220	46	11	15	26	1.80
7001854--7002064	93	2.3	91	87	2	296	21	25	14	39	1.91
7001854--7002067	46	4.6	46	88	3	288	21	25	14	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7004213--7004264	11	4.7	11	76	9	52	63	3	0	32	1.12
7004794--7004840	18	2.5	18	86	6	58	72	8	12	6	1.27
7005015--7005057	3	14.7	3	80	4	52	67	0	32	0	0.91
7005014--7005063	23	2.1	24	96	3	93	70	0	30	0	0.88
7005022--7005068	17	2.8	17	77	3	51	72	0	27	0	0.85
7005101--7005164	14	4.6	14	71	5	51	71	0	28	0	0.86
7005572--7005611	17	2.4	17	100	0	80	80	5	5	10	1.02
7005665--7005937	133	2.0	134	84	5	356	54	7	7	30	1.56
7008528--7008589	27	2.3	27	94	0	106	41	6	9	41	1.63
7008864--7008916	20	2.6	20	90	3	79	9	15	5	69	1.33
7010327--7010406	17	5.0	15	71	13	52	68	6	3	21	1.27
7010371--7010404	17	1.9	18	94	5	61	76	8	2	11	1.12
7010592--7010624	12	2.6	13	85	4	50	75	3	0	21	0.93
7021966--7022106	70	2.0	70	98	0	273	37	17	16	28	1.92
7026094--7026226	46	2.9	47	88	3	198	19	22	15	42	1.88
7028366--7028391	11	2.4	11	100	0	52	73	0	0	26	0.84
7035210--7035240	11	2.8	11	95	0	53	83	0	12	3	0.75
7036612--7036711	44	2.2	45	82	8	116	36	17	18	29	1.93
7036691--7036778	45	2.0	45	84	4	115	32	17	19	30	1.94
7036510--7038207	178	9.4	178	80	8	1620	31	18	21	28	1.97
7037146--7037245	44	2.2	45	82	8	116	36	17	18	29	1.93
7037216--7037405	45	4.2	44	74	10	166	32	17	21	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7037221--7037405	93	2.0	93	93	0	316	32	17	20	29	1.96
7037507--7037669	45	3.6	45	77	6	193	25	21	21	31	1.98
7037550--7037696	47	3.2	44	72	7	150	25	23	19	31	1.98
7037512--7037699	92	2.1	92	93	1	324	26	22	20	30	1.98
7037063--7037877	270	3.0	269	89	2	1208	30	19	21	28	1.97
7038054--7038154	44	2.3	45	83	8	118	36	16	17	28	1.92
7037819--7038176	190	1.9	190	92	1	601	31	18	22	27	1.97
7038145--7038259	38	2.7	45	74	22	147	27	19	22	30	1.98
7038270--7038370	44	2.3	45	83	8	118	36	16	17	28	1.92
7038357--7038482	45	2.8	45	80	9	166	31	19	20	28	1.97
7038494--7038593	44	2.2	45	82	8	116	36	17	18	29	1.93
7038386--7038746	178	2.0	177	87	5	498	32	17	21	27	1.96
7037991--7038867	223	4.0	222	90	4	1253	32	18	21	28	1.96
7038573--7038660	45	2.0	45	84	4	115	32	17	19	30	1.94
7038671--7038782	44	2.5	44	94	2	190	31	16	25	27	1.96
7038010--7038946	222	4.2	219	88	4	1074	32	18	20	28	1.96
7038510--7039060	222	2.5	220	85	5	648	32	17	22	27	1.96
7038718--7039216	178	2.8	175	88	3	705	31	20	21	26	1.98
7037603--7039255	400	4.1	399	76	11	1527	32	18	21	27	1.97
7039208--7039416	88	2.4	88	84	2	260	33	20	24	21	1.97
7041017--7041050	10	3.4	10	95	0	59	35	0	11	52	1.38
7041463--7041686	120	1.9	120	80	1	270	29	16	16	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7043093--7043951	22	39.0	22	99	0	1655	18	22	27	31	1.97
7046414--7046444	3	10.3	3	100	0	62	67	0	0	32	0.91
7050734--7050814	8	10.0	8	71	17	51	54	0	2	43	1.13
7050776--7050817	19	2.2	19	86	0	57	61	0	4	33	1.17
7067273--7067340	30	2.3	30	84	0	91	32	41	14	11	1.82
7067395--7067431	18	2.1	18	94	0	65	24	27	8	40	1.83
7070488--7070563	35	2.1	37	87	4	111	39	23	2	34	1.69
7070518--7070596	30	2.7	30	80	5	81	41	20	2	35	1.66
7071848--7071872	2	12.5	2	100	0	50	48	0	0	52	1.00
7074167--7074198	3	10.7	3	100	0	64	65	0	34	0	0.93
7080452--7080510	27	2.3	27	79	5	77	27	6	3	62	1.36
7088151--7088176	5	5.2	5	100	0	52	80	0	19	0	0.71
7088630--7088685	17	3.2	17	68	22	53	28	7	16	48	1.72
7088634--7088721	35	2.5	35	92	1	140	28	9	14	47	1.75
7088712--7088804	21	4.5	21	67	24	63	25	9	13	50	1.72
7088702--7088850	61	2.6	56	82	9	183	24	10	14	50	1.74
7089647--7089674	14	2.0	14	100	0	56	42	14	7	35	1.73
7091236--7091276	11	3.7	11	80	0	55	19	14	9	56	1.66
7093562--7093698	35	3.9	35	74	9	118	40	18	9	30	1.83
7098856--7098947	47	2.0	47	93	4	159	26	23	15	34	1.94
7101304--7101440	35	3.9	35	74	9	118	40	18	9	30	1.83
7102197--7102255	30	1.9	31	86	3	84	47	3	20	28	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7102509--7102533	8	3.1	8	100	0	50	24	0	0	76	0.80
7103988--7104067	12	7.2	12	71	25	61	32	1	2	63	1.15
7103974--7104039	3	22.3	3	76	14	66	31	3	1	63	1.19
7104569--7104625	24	2.3	25	78	3	71	43	8	1	45	1.45
7104782--7104876	22	4.0	23	71	16	70	31	9	5	53	1.55
7105167--7105227	20	3.0	20	72	13	52	32	6	6	54	1.52
7108648--7108783	51	2.7	51	87	0	209	27	27	16	29	1.97
7110248--7110328	38	2.1	38	100	0	162	22	35	2	39	1.67
7119881--7119962	41	2.0	41	92	4	139	45	4	21	28	1.73
7124817--7124895	25	3.2	23	72	21	61	46	3	2	46	1.34

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