genome.fa.s23.2.7.7.80.10.50.1000.43.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  43  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)
13194228--13194264	18	2.1	18	94	0	65	27	2	0	70	1.01
13194801--13194830	15	2.0	15	93	0	51	66	3	0	30	1.07
13198697--13198772	22	3.7	21	76	15	68	40	17	6	35	1.75
13198726--13198823	35	2.7	37	87	12	150	35	16	10	37	1.82
13198733--13198823	19	4.9	19	92	8	161	36	15	10	37	1.83
13208597--13208761	35	4.7	35	82	1	188	30	10	25	33	1.90
13211409--13211451	19	2.3	19	91	0	68	30	9	30	30	1.88
13215954--13216118	35	4.7	35	87	1	224	31	12	24	32	1.92
13219264--13219323	31	1.9	31	89	0	93	16	23	18	41	1.90
13223601--13223629	14	2.0	15	93	6	51	58	0	0	41	0.98
13230184--13230240	7	8.0	7	75	11	53	36	1	1	59	1.18
13230123--13230198	18	4.3	18	72	20	54	30	2	2	64	1.21
13230184--13230222	15	2.6	15	84	11	53	38	0	0	61	0.96
13230279--13230381	11	8.6	11	70	27	52	36	3	0	58	1.23
13230302--13230381	23	3.3	23	71	28	67	38	3	0	57	1.17
13230376--13230415	18	2.2	19	86	13	57	22	7	5	65	1.38
13230805--13230853	24	2.0	26	84	8	66	32	6	4	57	1.42
13235814--13236795	43	22.8	43	92	0	1631	23	17	32	25	1.97
13236869--13236951	31	2.6	31	80	3	85	61	19	3	15	1.48
13242822--13242949	9	13.6	9	70	9	85	32	1	20	46	1.60
13242854--13242953	39	2.7	36	80	8	128	35	1	19	45	1.57
13242824--13242936	57	2.0	57	82	0	136	30	1	22	45	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13243069--13243503	241	1.8	241	99	0	861	32	15	18	33	1.92
13243626--13243675	23	2.2	23	100	0	100	34	16	16	34	1.90
13247854--13247943	43	2.0	45	82	4	112	38	25	6	28	1.81
13248138--13248193	29	1.9	29	85	7	78	26	0	23	50	1.50
13248485--13248752	41	6.6	40	79	7	247	25	17	23	33	1.96
13248975--13249085	49	2.2	52	88	6	165	42	9	15	33	1.78
13249216--13249267	7	7.1	7	78	8	59	55	0	0	44	0.99
13249299--13249347	7	6.7	7	79	9	53	55	0	0	44	0.99
13249191--13249347	83	1.9	83	100	0	314	41	7	14	36	1.74
13257049--13257213	43	3.9	44	78	5	169	27	13	24	33	1.93
13257851--13257895	24	2.0	22	82	8	54	44	2	26	26	1.66
13259556--13259614	21	2.8	22	80	7	61	22	0	8	69	1.15
13259585--13259634	26	2.0	24	88	7	73	30	0	6	64	1.18
13261481--13261536	26	2.2	26	100	0	112	30	7	26	35	1.83
13264304--13264541	26	9.2	26	88	0	368	32	5	23	38	1.79
13264306--13264541	52	4.5	52	100	0	472	32	5	23	38	1.79
13270210--13270241	16	2.0	16	93	0	55	59	12	3	25	1.48
13272936--13273064	65	2.0	65	95	0	231	27	13	31	27	1.94
13274570--13274677	26	4.2	26	93	0	189	32	7	24	36	1.83
13278902--13278926	11	2.3	11	100	0	50	72	0	0	28	0.86
13279195--13279253	30	1.9	31	86	10	86	28	20	0	50	1.48
13286750--13286824	27	2.6	29	85	8	91	53	8	16	22	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13289048--13289072	10	2.5	10	100	0	50	8	20	8	64	1.46
13288996--13290351	605	2.2	605	99	0	2694	28	16	20	33	1.95
13293926--13294148	88	2.5	90	83	8	273	37	21	8	32	1.83
13294627--13294667	21	2.0	21	85	9	57	29	2	2	65	1.18
13300746--13300834	35	2.5	35	80	3	99	20	23	25	30	1.98
13305503--13305633	39	3.4	39	88	0	199	38	21	25	14	1.92
13308667--13308873	43	4.8	43	93	0	351	25	19	31	23	1.98
13308947--13309013	31	2.2	31	86	0	89	61	17	2	17	1.47
13309272--13309318	21	2.2	21	77	7	51	2	46	19	31	1.61
13314963--13315179	9	23.6	9	73	10	134	38	0	13	47	1.49
13314963--13315179	18	12.3	18	75	10	162	38	0	13	47	1.49
13314939--13315210	123	2.3	120	85	6	351	38	1	12	47	1.49
13315284--13315339	15	3.8	15	78	21	73	53	0	0	46	1.00
13315516--13315583	24	2.8	24	86	8	102	45	7	19	27	1.76
13316601--13316668	24	2.8	24	86	8	102	45	7	19	27	1.76
13316756--13317666	372	2.4	372	99	0	1804	38	10	15	35	1.82
13319326--13319600	134	2.1	134	93	1	471	50	18	10	20	1.75
13322355--13322386	15	2.1	15	94	0	55	31	9	0	59	1.29
13323249--13323282	14	2.4	14	90	9	52	44	23	0	32	1.54
13323444--13323624	41	4.4	41	91	2	260	18	22	23	35	1.95
13329493--13329567	33	2.3	33	90	2	125	25	13	5	56	1.58
13336893--13336974	26	3.2	26	94	0	146	31	6	25	36	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13341982--13342095	57	2.0	58	87	1	167	29	16	7	46	1.73
13345504--13345536	14	2.2	15	89	10	50	45	0	0	54	0.99
13345506--13345546	18	2.3	18	80	20	50	39	2	0	58	1.11
13351837--13351873	18	2.1	18	100	0	74	21	29	16	32	1.95
13360553--13360604	19	2.8	18	77	5	59	50	0	0	50	1.00
13360553--13360610	18	3.2	18	78	4	62	48	0	1	50	1.11
13361765--13361809	12	3.4	14	76	17	51	22	8	0	68	1.16
13361775--13361817	6	7.0	6	78	5	50	18	6	0	74	1.04
13368713--13368769	30	1.9	30	88	0	87	17	36	31	14	1.89
13373866--13373913	3	15.7	3	80	20	55	27	2	4	66	1.21
13388540--13388688	43	3.4	44	70	18	130	19	21	22	36	1.95
13388495--13388815	44	7.5	44	68	17	185	18	21	22	38	1.94
13388649--13388808	79	2.0	81	89	4	245	17	21	20	40	1.91
13391797--13391932	68	2.0	68	95	0	245	26	16	22	33	1.96
13392483--13392601	60	2.0	60	100	0	238	30	23	15	31	1.95
13407511--13407560	21	2.5	20	84	9	75	46	4	0	50	1.20
13410018--13410156	26	5.0	26	67	24	97	35	2	13	48	1.58
13410042--13410141	21	5.2	20	67	26	56	36	4	12	48	1.59
13410034--13410134	30	3.5	30	73	20	115	35	3	11	48	1.59
13410045--13410149	18	5.8	17	73	16	86	35	3	13	47	1.61
13410018--13410156	56	2.5	56	93	0	251	35	2	13	48	1.58
13410560--13410674	33	3.5	33	78	0	122	19	17	40	22	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13412189--13413264	148	7.2	148	92	3	1558	29	5	6	57	1.48
13413297--13413359	16	3.9	16	76	0	63	20	3	4	71	1.18
13412206--13413269	446	2.4	441	88	3	1325	29	5	6	57	1.48
13412189--13413264	594	1.8	587	89	3	1577	29	5	6	57	1.48
13414121--13414153	12	2.8	12	95	0	57	48	3	30	18	1.63
13414353--13414424	35	2.1	35	86	0	99	29	23	9	37	1.87
13420989--13421018	14	2.1	14	100	0	60	40	20	0	40	1.52
13429581--13429681	42	2.4	42	81	3	123	19	22	11	45	1.83
13429650--13429716	21	3.2	21	80	0	80	14	20	17	46	1.84
13435978--13436050	33	2.2	33	82	4	85	23	32	24	19	1.97
13449066--13449097	2	16.0	2	100	0	64	0	0	50	50	1.00
13451553--13451592	20	2.0	20	85	9	55	40	20	15	25	1.90
13456641--13456745	39	2.7	39	92	0	174	13	25	23	37	1.92
13456663--13456727	21	3.2	21	70	12	73	12	27	21	38	1.89
13462549--13462592	21	2.0	23	82	13	56	11	6	6	75	1.20
13462608--13462687	42	1.9	42	100	0	160	20	18	7	53	1.68
13463266--13463303	19	2.0	19	100	0	76	21	10	5	63	1.46
13471289--13471327	19	2.1	19	95	0	69	53	12	5	28	1.60
13472665--13472748	45	1.9	43	85	4	114	34	5	4	54	1.46
13473090--13473130	20	2.1	19	86	4	55	21	9	31	36	1.86
13481135--13481171	18	2.1	18	89	0	56	13	0	18	67	1.23
13485004--13485117	31	3.7	29	79	10	111	55	4	0	39	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13484986--13485117	62	2.1	62	84	4	169	54	5	0	39	1.28
13488617--13488654	19	2.0	19	94	0	67	23	26	13	36	1.91
13498651--13498710	31	1.9	30	83	12	77	50	11	13	25	1.75
13502321--13502353	3	11.0	3	100	0	66	33	0	0	66	0.92
13505296--13505322	12	2.2	12	100	0	54	48	7	0	44	1.31
13506051--13506126	33	2.3	33	97	0	143	39	13	30	17	1.87
13509552--13509637	9	9.0	9	78	16	93	62	3	0	33	1.12
13509553--13509625	10	7.3	11	69	17	52	64	2	0	32	1.08
13509552--13509637	21	4.5	18	78	16	93	62	3	0	33	1.12
13510187--13510223	16	2.2	17	90	9	58	21	0	5	72	1.04

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