genome.fa.s10.2.7.7.80.10.50.1000.98.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  98  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)
33050105--33050140	18	2.0	18	100	0	72	44	5	22	27	1.75
33056438--33056471	16	2.2	15	89	5	50	55	0	0	44	0.99
33056537--33056595	30	2.0	30	83	6	75	49	11	5	33	1.62
33069816--33069908	42	2.2	43	81	9	118	29	25	16	29	1.96
33072674--33072704	16	1.9	16	93	0	53	35	22	0	41	1.54
33072671--33072710	20	2.0	20	85	0	53	37	22	0	40	1.54
33072894--33073148	55	4.8	54	79	7	247	21	26	17	34	1.95
33073484--33073542	30	2.0	30	86	0	82	28	27	3	40	1.72
33080362--33080392	16	1.9	16	93	0	53	35	22	0	41	1.54
33080640--33080825	55	3.4	53	82	7	223	22	25	18	33	1.96
33087163--33087347	67	2.9	64	76	10	180	30	17	29	22	1.97
33090209--33090333	42	2.9	42	84	9	148	36	22	15	26	1.93
33090209--33090333	43	2.9	42	83	4	153	36	22	15	26	1.93
33093957--33094073	42	2.8	42	78	8	139	29	23	15	31	1.95
33094241--33094282	20	2.1	20	95	0	75	40	11	4	42	1.63
33098970--33099017	11	4.4	11	79	10	53	64	2	0	33	1.05
33100226--33100391	64	2.6	64	93	2	298	33	11	11	43	1.77
33104414--33104452	19	2.1	19	86	13	55	71	2	25	0	0.98
33111793--33112002	40	5.3	39	87	5	233	24	21	28	25	1.99
33111740--33112002	120	2.2	120	81	4	300	25	21	27	25	1.99
33111793--33112037	80	3.1	80	81	3	228	25	21	28	24	1.99
33119747--33119918	79	2.2	79	84	3	220	25	21	27	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33119694--33119916	40	5.6	39	81	8	209	25	21	27	25	1.99
33119774--33119951	79	2.2	80	80	3	191	25	21	28	24	1.99
33121896--33121976	32	2.5	32	83	0	108	22	40	18	18	1.91
33123821--33123848	4	7.0	4	100	0	56	75	0	25	0	0.81
33126475--33126758	100	2.8	100	84	4	333	26	19	26	28	1.99
33126475--33126763	49	5.8	49	82	4	321	26	19	26	28	1.99
33136080--33136120	20	2.0	22	85	9	59	31	2	7	58	1.38
33136489--33136602	30	3.4	34	77	11	92	28	1	12	57	1.44
33136532--33136594	30	2.1	30	93	0	108	25	0	15	58	1.37
33136716--33136746	11	2.8	11	90	0	53	67	0	0	32	0.91
33136716--33136750	11	3.1	11	91	4	52	65	0	0	34	0.93
33149096--33149957	60	14.4	60	99	0	1661	36	21	11	29	1.89
33162698--33162839	60	2.4	60	92	0	239	37	22	12	27	1.90
33165257--33165611	71	5.1	71	62	20	192	47	5	7	39	1.56
33165190--33165540	67	5.1	66	62	20	148	45	5	7	41	1.55
33165161--33165723	138	4.1	138	91	1	880	46	5	7	41	1.55
33169581--33169952	40	9.3	40	77	3	392	24	21	26	26	1.99
33169585--33169952	80	4.6	80	95	0	621	24	21	27	26	1.99
33172362--33172455	25	3.8	25	71	5	73	28	19	20	31	1.97
33173348--33173452	45	2.3	45	90	3	156	28	13	20	38	1.90
33181129--33181273	42	3.4	42	74	13	118	24	21	24	30	1.99
33181121--33181245	42	2.9	41	75	13	119	23	21	24	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33184920--33185007	42	2.1	42	95	0	158	21	15	29	32	1.95
33184940--33185007	22	3.2	22	65	23	63	19	17	30	32	1.95
33190593--33190652	27	2.3	27	85	2	77	21	23	20	35	1.96
33195902--33196007	53	2.0	53	94	0	185	24	40	3	31	1.73
33197380--33197409	15	2.1	15	93	6	53	30	6	26	36	1.82
33198203--33198319	43	2.7	43	86	1	146	28	21	27	23	1.99
33203305--33203567	40	6.6	40	88	3	325	26	27	20	24	1.99
33211255--33211517	40	6.6	40	88	3	325	26	27	20	24	1.99
33217143--33217186	23	1.9	23	95	0	79	40	4	15	38	1.68
33217201--33217278	40	2.0	39	85	12	106	51	12	8	26	1.70
33218653--33218693	18	2.3	18	95	0	73	41	19	14	24	1.89
33223036--33223120	28	3.0	28	81	3	100	30	28	15	25	1.96
33228339--33228373	17	2.1	17	100	0	70	34	0	34	31	1.58
33239945--33240008	32	2.0	32	100	0	128	43	9	18	28	1.81
33240185--33240209	12	2.1	12	100	0	50	16	24	32	28	1.96
33242536--33242560	13	1.9	13	100	0	50	40	0	12	48	1.40
33242568--33242620	22	2.4	22	87	6	72	30	0	9	60	1.28
33242551--33242662	56	2.0	56	100	0	224	28	1	10	58	1.41
33242590--33242654	34	1.9	34	87	6	96	27	1	9	61	1.35
33245032--33245101	25	2.8	25	91	2	104	24	24	24	27	2.00
33249562--33249609	25	1.9	25	91	0	78	33	22	14	29	1.94
33249742--33249812	25	2.8	25	89	2	106	26	25	22	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33255846--33255889	21	2.0	22	87	12	65	29	15	4	50	1.64
33256156--33256366	56	3.8	56	89	1	309	33	24	16	26	1.96
33259242--33259416	80	2.2	79	85	5	237	25	19	28	27	1.99
33259242--33259383	40	3.5	40	94	1	232	23	19	28	28	1.98
33267264--33267408	40	3.6	40	85	4	193	25	24	26	23	2.00
33278903--33278976	26	2.8	26	93	0	121	31	17	12	39	1.86
33282860--33282912	26	2.0	26	82	7	63	26	15	20	37	1.92
33284401--33284456	26	2.2	26	93	0	94	37	25	7	30	1.82
33293839--33294053	45	4.9	44	85	2	279	26	28	21	23	1.99
33300638--33300675	19	2.0	20	85	15	53	39	21	0	39	1.53
33300905--33301075	93	1.8	93	92	0	288	29	28	20	22	1.98
33300900--33301072	46	3.7	46	77	10	190	30	27	20	22	1.98
33301497--33301556	30	2.0	30	86	0	84	30	25	6	38	1.81
33304854--33304906	26	2.0	26	96	0	97	37	20	11	30	1.88
33318585--33318620	18	2.1	18	89	5	56	66	0	2	30	1.06
33318873--33318930	22	2.6	22	84	7	73	43	17	3	36	1.66
33318921--33318991	35	2.0	36	94	2	126	36	14	9	39	1.79
33318909--33318999	19	4.9	19	88	8	143	37	15	8	38	1.78
33319118--33319158	21	2.0	21	85	0	55	12	2	12	73	1.20
33320150--33320203	21	2.6	20	77	8	54	35	29	22	12	1.91
33320942--33320989	10	4.8	10	79	7	53	75	8	10	6	1.20
33322361--33322406	18	2.5	18	82	13	58	32	2	2	63	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33327085--33327219	29	4.6	28	73	5	90	24	27	10	37	1.88
33344518--33344546	15	2.0	15	93	6	51	6	0	27	65	1.18
33344982--33345016	18	1.9	18	88	0	52	17	37	0	45	1.48
33345215--33345243	9	3.2	9	100	0	58	20	0	0	79	0.74
33345215--33345264	17	2.9	18	82	8	59	28	0	2	70	0.99
33348348--33348514	83	2.0	83	98	0	325	28	13	2	55	1.50
33351305--33351332	14	2.0	14	100	0	56	21	21	35	21	1.96
33361572--33361828	135	1.9	135	82	1	327	32	18	20	28	1.96
33363308--33363482	87	2.0	89	94	2	309	27	8	6	57	1.52
33365758--33365848	29	3.1	28	89	6	121	36	12	19	31	1.89
33365776--33365848	29	2.5	29	95	0	128	34	13	20	31	1.92
33366579--33366638	27	2.2	27	96	0	111	28	10	25	36	1.88
33367233--33367361	46	2.8	44	80	9	132	27	21	29	21	1.99
33368515--33368554	21	1.9	21	100	0	80	10	40	30	20	1.85
33370466--33370556	46	2.0	46	86	0	128	27	31	6	34	1.83
33370573--33370694	22	5.3	21	65	30	54	24	27	13	35	1.92
33370570--33370767	47	4.2	47	88	0	279	26	28	11	34	1.90
33370536--33370767	94	2.5	93	82	2	293	25	29	10	33	1.90
33374689--33374713	12	2.1	12	100	0	50	40	36	8	16	1.77
33385893--33386086	96	2.0	96	82	2	237	14	34	15	35	1.89
33388563--33388680	40	3.0	39	88	3	166	16	22	29	31	1.96
33397179--33397207	7	4.1	7	100	0	58	0	31	13	55	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33400145--33400178	17	1.9	18	88	5	52	26	55	0	17	1.42
33402737--33402767	16	1.9	16	100	0	62	29	19	12	38	1.89
33402918--33402955	20	1.9	20	88	0	58	28	7	18	44	1.78
33402831--33403047	60	3.7	59	85	2	249	36	9	14	40	1.78
33403755--33403897	74	1.9	74	87	2	207	36	15	11	37	1.83
33407604--33407838	91	2.6	91	100	0	470	34	13	17	34	1.89
33408556--33408594	3	13.0	3	100	0	78	66	0	0	33	0.92
33413411--33413486	40	1.9	40	86	0	107	30	31	17	21	1.96
33415962--33415990	14	2.1	14	100	0	58	55	20	0	24	1.44
33417135--33417280	48	3.0	48	87	2	195	28	27	15	28	1.96

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