genome.fa.s10.2.7.7.80.10.50.1000.19.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_chr6
Parameters: 2 7 7 80 10 50 1000
Length:  56482370

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   

This is table  19  of  172  ( 20562 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)
6079091--6079119	15	1.9	15	100	0	58	20	13	17	48	1.81
6080898--6080960	21	3.0	21	88	2	81	33	31	4	30	1.78
6083439--6083475	9	4.1	9	89	0	56	45	10	10	32	1.74
6085931--6086014	36	2.4	35	77	16	93	54	3	2	39	1.31
6089290--6089343	15	3.5	15	78	16	58	42	5	7	44	1.55
6089289--6089332	16	2.9	15	83	6	54	38	6	11	43	1.67
6089562--6089586	13	1.9	13	100	0	50	8	12	24	56	1.62
6091238--6091301	27	2.4	27	81	0	74	23	18	28	29	1.98
6092126--6092177	14	3.7	14	84	5	61	36	0	13	50	1.42
6092545--6092577	6	5.5	6	100	0	66	66	15	18	0	1.25
6100240--6100421	74	2.5	74	85	1	249	32	21	23	22	1.98
6100241--6100421	35	4.8	39	65	14	103	32	21	23	22	1.98
6105863--6105913	25	1.9	26	84	11	68	37	0	5	56	1.23
6110013--6110109	42	2.3	42	92	0	158	27	27	8	36	1.85
6110977--6111010	17	2.1	17	88	5	52	32	17	0	50	1.47
6112343--6112469	49	2.6	49	78	5	132	27	14	25	32	1.94
6114035--6114069	15	2.4	15	95	4	63	51	0	5	42	1.25
6117663--6117757	37	2.6	37	79	3	102	32	11	15	40	1.84
6131436--6131502	28	2.4	28	92	0	107	23	31	13	31	1.93
6131511--6131555	18	2.5	18	92	7	74	17	24	31	26	1.97
6133894--6134040	66	2.2	66	86	2	197	19	10	27	42	1.84
6136700--6136736	18	2.1	18	90	10	58	13	43	0	43	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6146185--6146381	48	4.1	48	75	2	198	23	29	20	26	1.99
6148046--6148246	48	4.2	48	80	3	224	27	19	27	24	1.99
6152200--6152706	252	2.0	252	96	0	924	25	18	21	35	1.96
6160235--6160330	36	2.7	36	90	1	140	30	7	19	42	1.78
6166446--6166505	23	2.4	26	83	10	81	61	0	5	33	1.17
6167243--6167291	16	3.1	16	93	0	89	36	4	36	22	1.73
6167270--6167359	45	2.0	44	89	6	137	32	5	27	34	1.80
6167565--6167762	66	3.2	65	67	19	177	47	7	3	41	1.46
6167503--6167829	120	2.7	120	95	0	575	49	5	2	42	1.37
6167621--6167666	16	2.9	16	78	12	51	52	2	0	45	1.13
6167621--6167675	15	3.7	15	79	13	53	52	1	0	45	1.11
6167765--6167812	18	2.8	18	74	22	50	56	0	0	43	0.99
6167744--6167795	15	3.6	15	80	12	56	53	1	0	44	1.11
6167721--6167804	43	1.9	43	83	7	107	53	2	2	41	1.27
6170288--6170322	8	4.5	8	85	7	54	85	2	11	0	0.69
6170291--6170320	15	1.9	16	93	6	53	83	3	13	0	0.77
6173850--6173906	5	11.4	5	76	0	60	38	3	0	57	1.16
6173850--6173896	15	3.1	15	84	0	67	34	4	0	61	1.15
6174089--6174135	22	2.1	22	85	14	62	68	8	23	0	1.17
6174591--6174618	3	9.3	3	100	0	56	32	0	0	67	0.91
6175202--6175285	21	4.0	21	79	4	89	19	21	23	35	1.96
6175102--6175469	184	2.0	184	100	0	736	25	16	25	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6175386--6175472	21	4.1	21	79	4	95	19	20	22	36	1.95
6179066--6179185	56	2.1	56	84	3	152	26	23	19	30	1.98
6183596--6183733	50	2.7	52	82	7	185	30	28	16	23	1.96
6193628--6193676	11	4.5	11	94	0	89	24	0	10	65	1.23
6194995--6195092	25	4.0	24	81	5	90	25	23	21	29	1.99
6198146--6198249	41	2.5	41	90	3	156	26	20	31	21	1.98
6205452--6205637	41	4.5	41	91	1	284	29	20	29	20	1.98
6205398--6205638	82	2.9	80	84	7	299	30	19	27	22	1.98
6230710--6230767	20	2.9	20	86	0	71	56	3	10	29	1.49
6231809--6231848	2	20.0	2	100	0	80	0	0	50	50	1.00
6232733--6232954	44	5.1	44	71	6	146	28	24	19	27	1.99
6232713--6232854	44	3.2	44	80	3	124	27	23	21	28	1.99
6232873--6233524	130	5.0	130	90	0	959	26	25	18	29	1.98
6232712--6233026	174	1.8	172	85	6	413	27	24	19	28	1.99
6233464--6233762	131	2.3	131	84	6	369	24	25	19	30	1.98
6233600--6233686	44	2.0	44	90	0	138	20	26	20	32	1.97
6232945--6233649	390	1.8	387	83	4	918	24	25	19	29	1.98
6233644--6233810	86	1.9	87	93	1	291	25	25	20	28	1.99
6235025--6235064	21	2.0	20	90	5	62	15	17	0	67	1.23
6235033--6235077	20	2.2	21	84	4	56	11	22	0	66	1.22
6235444--6235503	29	2.1	28	87	6	84	13	8	6	71	1.29
6235462--6235521	26	2.3	26	85	5	77	11	6	6	75	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6235487--6235521	13	2.7	13	86	0	52	11	2	5	80	1.00
6239589--6239644	20	2.9	19	86	5	60	57	1	10	30	1.43
6239598--6239644	20	2.3	20	92	0	76	57	2	8	31	1.41
6241511--6241537	13	2.1	13	100	0	54	25	0	0	74	0.83
6257319--6257523	101	2.0	103	94	3	360	32	8	25	34	1.86
6259674--6259702	6	4.8	6	100	0	58	0	13	17	68	1.20
6262862--6262922	20	3.0	20	83	6	79	67	1	31	0	1.01
6262865--6262914	12	3.8	13	80	20	59	68	2	30	0	1.01
6266501--6266832	27	12.4	27	84	4	406	42	19	20	18	1.89
6267191--6267291	28	3.6	28	84	0	121	19	23	24	31	1.98
6274135--6274413	27	10.3	27	79	6	253	42	19	20	18	1.90
6274135--6274408	54	5.1	54	82	2	309	42	19	20	18	1.90
6274135--6274408	81	3.4	81	83	2	327	42	19	20	18	1.90
6274773--6274843	28	2.5	28	88	8	117	25	26	23	23	2.00
6282053--6282112	26	2.3	26	82	2	77	26	21	21	30	1.99
6287355--6287443	44	2.0	44	100	0	178	22	15	22	39	1.92
6294854--6295135	21	12.9	22	71	20	184	55	12	0	31	1.42
6294854--6294997	48	3.0	48	88	5	227	55	12	0	31	1.42
6294950--6295135	41	4.5	41	73	17	170	54	12	0	32	1.42
6294896--6295136	83	2.8	85	74	16	239	54	12	0	31	1.43
6295304--6295360	3	19.3	3	92	3	98	0	35	0	64	0.93
6298949--6298993	19	2.4	18	89	10	72	24	17	8	48	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6321800--6321963	84	2.0	82	81	2	193	28	17	21	32	1.96
6323534--6323579	22	2.1	22	100	0	92	36	13	19	30	1.90
6326942--6326971	16	1.9	15	93	6	51	50	13	0	36	1.42
6332245--6332274	12	2.5	12	94	0	51	43	0	3	53	1.17
6333966--6334000	15	2.3	15	90	9	54	25	0	22	51	1.48
6334260--6334343	24	3.5	24	70	20	77	34	14	14	36	1.86
6334293--6334366	23	3.2	23	67	24	64	36	10	12	40	1.78
6334254--6334367	47	2.4	47	97	0	219	34	12	14	39	1.83
6334420--6334521	22	4.4	23	72	14	75	31	13	12	42	1.82
6334420--6334521	47	2.2	47	87	1	143	31	13	12	42	1.82
6334420--6334568	47	3.2	46	78	13	119	30	12	15	41	1.83
6337933--6337969	17	2.2	17	90	0	56	40	0	0	59	0.97
6337938--6337971	10	3.1	11	87	12	52	44	0	0	55	0.99
6337928--6337973	9	4.7	10	80	19	53	41	0	0	58	0.98
6342639--6342677	18	2.1	19	85	9	53	51	17	0	30	1.46
6349126--6349179	27	2.0	27	100	0	108	29	14	7	48	1.71
6351343--6351395	28	2.0	27	82	17	67	64	5	1	28	1.27
6352443--6352468	13	2.0	13	100	0	52	38	0	23	38	1.55
6355744--6355768	9	2.8	9	100	0	50	56	20	0	24	1.43
6368735--6368869	70	1.9	70	88	5	202	42	18	8	30	1.81
6368744--6368945	35	5.8	34	74	8	165	41	21	9	27	1.84
6368949--6369041	43	2.2	43	96	0	168	36	19	11	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6371010--6371234	113	2.0	112	97	0	414	39	20	16	23	1.92
6373834--6373877	11	4.0	11	85	11	54	65	13	6	13	1.44
6373917--6373954	12	2.9	14	81	18	55	68	0	10	21	1.19
6373921--6373954	14	2.5	14	90	4	52	76	0	8	14	1.01
6381991--6382016	11	2.4	11	100	0	52	50	7	42	0	1.31
6382677--6382725	18	2.7	18	93	0	80	36	0	8	55	1.30
6382679--6382726	3	16.0	3	82	0	60	35	0	6	58	1.23
6382679--6382726	12	4.0	12	91	0	69	35	0	6	58	1.23
6382867--6382938	24	2.9	24	78	15	67	44	0	22	33	1.53
6383082--6383177	39	2.5	39	80	6	108	20	23	28	27	1.99

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