genome.fa.s20.2.7.7.80.10.50.1000.50.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_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   

This is table  50  of  186  ( 22216 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)
15281151--15281203	26	2.0	26	82	7	63	39	20	15	24	1.91
15291256--15291368	27	4.2	27	82	3	120	16	23	23	37	1.94
15291254--15291368	54	2.1	54	87	3	160	16	22	23	37	1.94
15297589--15297698	26	4.2	26	95	0	175	32	6	23	37	1.80
15297810--15298356	273	2.0	274	96	1	999	30	9	25	34	1.87
15299591--15299703	27	4.2	27	85	3	129	16	23	23	36	1.94
15299589--15299703	54	2.1	54	88	3	169	16	23	23	36	1.94
15306139--15306285	41	3.6	41	86	0	206	24	17	26	31	1.97
15306150--15306326	81	2.2	82	80	4	189	27	17	24	30	1.97
15313534--15313609	40	1.9	40	86	0	107	27	14	25	32	1.94
15319984--15320033	23	2.2	23	92	0	82	54	8	2	36	1.42
15321026--15321075	9	5.7	9	77	18	52	46	0	0	54	1.00
15321598--15321651	20	2.6	21	82	11	67	35	0	7	57	1.27
15323810--15323921	23	4.8	23	71	12	93	15	27	24	33	1.95
15325547--15325640	40	2.4	39	84	8	120	37	37	11	13	1.82
15325565--15325643	40	2.0	40	92	0	131	36	34	15	13	1.87
15328384--15328451	27	2.5	27	85	0	91	10	5	30	52	1.59
15333276--15333625	3	115.0	3	65	26	93	32	3	1	62	1.22
15333269--15333625	39	9.6	38	65	23	120	32	3	1	62	1.21
15333337--15333572	7	33.1	7	68	20	125	34	2	1	61	1.18
15333335--15333617	45	6.5	44	70	21	163	33	3	1	61	1.20
15333369--15333464	50	1.9	51	85	10	135	34	3	0	62	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15333340--15333624	21	13.1	22	70	21	106	33	3	1	61	1.22
15333337--15333620	102	2.7	104	73	20	239	33	3	1	61	1.20
15333342--15333662	149	2.2	145	78	12	316	33	3	2	61	1.26
15344132--15344275	74	1.9	74	92	0	243	39	11	23	25	1.88
15345498--15345665	83	2.0	83	95	0	300	31	17	17	33	1.93
15345595--15345647	26	2.0	26	82	13	65	26	13	22	37	1.91
15347129--15347282	26	5.9	26	89	0	245	36	24	7	32	1.82
15347293--15347443	77	2.0	77	97	0	284	32	19	19	29	1.96
15349898--15349946	24	2.0	25	88	4	73	65	6	0	28	1.16
15349936--15349973	19	2.0	19	90	10	60	73	7	0	18	1.06
15355007--15355114	26	4.2	26	92	0	180	33	6	24	36	1.81
15356735--15356875	27	5.2	26	83	6	165	17	22	24	35	1.95
15356735--15356851	54	2.2	54	96	0	216	17	23	23	35	1.95
15356748--15356893	27	5.4	26	81	8	114	19	23	20	36	1.95
15364799--15364921	41	3.0	41	84	5	160	36	26	19	17	1.94
15367608--15367657	21	2.4	22	81	18	63	20	42	20	18	1.90
15382529--15382569	19	2.3	17	91	8	64	46	9	2	41	1.50
15382529--15382569	17	2.3	18	87	8	57	46	9	2	41	1.50
15389343--15389386	17	2.4	18	88	7	63	13	9	4	72	1.24
15389390--15389443	18	3.2	17	76	21	60	50	1	0	48	1.11
15395056--15395136	18	4.5	18	72	9	67	33	14	17	34	1.90
15395056--15395155	36	2.8	35	76	10	96	35	14	16	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15399916--15400153	26	9.2	26	100	0	476	30	7	26	34	1.84
15407095--15407305	26	8.1	26	90	0	341	31	6	25	36	1.82
15407095--15407305	78	2.7	78	100	0	422	31	6	25	36	1.82
15407707--15407846	70	2.0	70	97	0	262	44	8	15	31	1.77
15408857--15408909	26	2.0	25	82	13	63	37	22	13	26	1.91
15413716--15413770	14	3.9	14	76	4	58	20	5	32	41	1.75
15413796--15413827	15	2.1	15	94	0	55	65	0	6	28	1.16
15415230--15415254	12	2.1	12	100	0	50	16	16	8	60	1.58
15416905--15416952	24	2.0	24	83	4	60	27	4	6	62	1.38
15431734--15431874	47	3.0	47	92	0	228	19	7	24	49	1.72
15431968--15432151	43	4.3	43	89	2	246	24	22	26	26	2.00
15431968--15432188	85	2.6	85	83	5	241	23	22	25	27	2.00
15433459--15433492	8	4.1	8	85	7	50	11	11	0	76	1.02
15433458--15433492	17	2.0	18	94	5	63	11	11	0	77	1.00
15433471--15433514	23	1.9	23	85	0	61	20	6	2	70	1.21
15434237--15434443	108	1.9	107	89	1	315	20	16	14	47	1.82
15434790--15434900	42	2.6	42	82	0	123	26	24	32	17	1.96
15443122--15443154	13	2.6	13	90	4	50	48	12	0	39	1.40
15446072--15446134	6	10.5	6	77	6	65	76	1	6	15	1.07
15446062--15446118	17	3.3	17	79	13	62	75	1	5	17	1.07
15446077--15446118	17	2.4	17	92	4	66	80	2	2	14	0.90
15453854--15453886	13	2.6	13	90	4	50	48	12	0	39	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15456531--15456628	49	2.0	49	90	4	153	19	43	17	19	1.88
15460663--15460687	13	1.9	13	100	0	50	36	40	16	8	1.77
15461640--15461908	47	5.8	44	73	14	168	20	28	22	27	1.99
15461547--15461899	94	3.8	93	78	8	324	22	28	20	28	1.99
15466842--15467415	186	3.1	184	87	1	779	27	10	17	44	1.81
15467357--15467549	104	1.9	102	83	4	253	20	7	22	49	1.73
15469589--15469638	21	2.4	21	90	6	75	44	36	8	12	1.71
15481809--15481865	26	2.2	26	100	0	114	63	0	17	19	1.32
15481879--15481913	16	2.1	16	89	10	52	48	0	0	51	1.00
15482092--15482136	2	22.5	2	100	0	90	48	0	0	51	1.00
15484994--15485075	26	3.2	26	100	0	164	30	7	26	35	1.84
15486671--15486815	54	2.7	54	85	7	195	18	24	22	35	1.96
15486674--15486815	27	5.2	27	76	15	141	19	23	21	35	1.96
15491003--15491062	31	1.9	31	89	0	93	53	10	13	23	1.69
15491246--15491612	181	2.0	181	98	0	716	27	17	16	38	1.91
15491756--15492235	96	5.0	96	99	0	942	30	19	25	24	1.98
15492614--15492676	30	2.1	30	96	0	117	26	3	12	57	1.51
15492799--15492831	12	2.8	12	90	4	50	69	0	0	30	0.88
15498043--15498086	22	2.0	22	86	0	61	13	29	15	40	1.86
15506448--15506498	17	2.7	19	82	17	70	41	15	15	27	1.88
15508508--15508546	20	1.9	21	94	5	71	28	2	5	64	1.28
15508509--15508548	10	4.0	10	87	9	55	30	2	2	65	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15513359--15513390	15	2.1	16	94	5	57	37	0	0	62	0.95
15515670--15515769	44	2.3	43	81	3	128	31	30	14	25	1.94
15523323--15523442	3	40.0	3	100	0	240	33	0	0	66	0.92
15524170--15524211	20	2.0	22	86	9	61	54	0	0	45	0.99
15526150--15526180	12	2.6	12	100	0	62	25	58	6	9	1.54
15526231--15526308	22	3.3	22	72	19	68	14	2	21	61	1.44
15526231--15526304	26	3.0	25	79	16	84	14	2	22	59	1.48
15526844--15526887	23	1.9	23	95	0	79	47	2	31	18	1.61
15526971--15527046	27	2.6	30	83	12	113	55	2	0	42	1.14
15528184--15528240	30	1.9	29	86	10	80	35	0	45	19	1.50
15531720--15531763	23	2.0	23	86	13	65	54	4	9	31	1.52
15540005--15540065	22	2.5	22	82	12	59	50	0	0	49	1.00
15541531--15541775	117	2.1	117	92	3	404	42	11	7	38	1.69
15543696--15543730	6	5.8	6	93	0	61	51	17	14	17	1.77
15544646--15544683	13	2.9	13	80	11	51	36	0	0	63	0.95
15547656--15547695	21	1.9	21	89	0	62	45	7	5	42	1.54
15552110--15552148	19	2.1	19	95	0	69	35	0	28	35	1.58
15559686--15559766	41	2.0	41	95	0	144	34	12	13	39	1.82
15562754--15562803	25	1.9	25	84	8	64	46	2	0	52	1.12
15564776--15564800	12	2.1	12	100	0	50	24	0	0	76	0.80
15564776--15564810	17	2.0	18	88	5	54	28	0	0	71	0.86
15567328--15567387	30	2.0	30	86	0	84	26	5	11	56	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15568468--15568520	26	2.0	26	82	7	63	26	15	20	37	1.92
15570008--15570072	32	2.0	32	96	0	121	38	23	6	32	1.79
15573198--15573315	43	2.8	42	81	3	139	28	15	27	28	1.96
15573986--15574037	23	2.2	24	83	10	63	36	0	25	38	1.56
15576475--15576582	54	2.0	54	98	0	207	25	24	18	32	1.97
15580096--15580126	14	2.2	14	100	0	62	70	0	16	12	1.16
15580336--15580414	19	4.2	19	88	9	117	35	15	8	40	1.78
15580336--15580407	36	1.9	37	94	5	128	36	13	9	40	1.78
15580996--15581702	44	16.1	44	75	8	627	27	24	16	31	1.97
15580994--15581702	132	5.4	132	94	0	1204	27	24	16	31	1.97

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