genome.fa.s4.2.7.7.80.10.50.1000.124.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   

This is table  124  of  235  ( 28198 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)
42287303--42287383	26	3.1	26	100	0	162	27	7	23	41	1.81
42291949--42292022	21	3.7	21	85	7	102	48	17	16	17	1.81
42301536--42301574	5	7.8	5	94	0	69	41	20	0	38	1.53
42301900--42301976	30	2.6	28	79	16	93	38	1	5	54	1.31
42303169--42303232	18	3.6	18	75	8	67	35	14	10	39	1.81
42303160--42303242	36	2.3	36	82	0	94	37	14	9	38	1.79
42303492--42303516	6	4.2	6	100	0	50	52	16	16	16	1.76
42303500--42303639	45	3.1	45	85	3	176	42	20	18	18	1.90
42305474--42305553	42	2.0	40	85	5	106	55	3	1	40	1.26
42307555--42307584	15	1.9	16	93	6	53	30	0	3	66	1.07
42322941--42322966	2	13.0	2	100	0	52	50	0	0	50	1.00
42324640--42324686	21	2.2	22	92	3	78	21	38	19	21	1.94
42327849--42327895	21	2.2	22	92	3	78	21	38	19	21	1.94
42330836--42330888	22	2.5	21	81	6	54	50	1	0	47	1.12
42333059--42333139	20	4.2	19	70	13	58	39	2	1	56	1.20
42335783--42335822	17	2.4	16	84	12	53	47	2	2	47	1.29
42335739--42335827	44	2.0	44	82	4	108	41	6	4	47	1.50
42344968--42345093	49	2.6	49	87	5	166	42	1	3	52	1.29
42344991--42345052	12	5.8	11	75	21	53	40	1	3	54	1.26
42346973--42347010	20	1.9	20	84	10	51	42	10	0	47	1.38
42346838--42348069	616	2.0	616	99	0	2410	37	18	8	36	1.81
42349578--42349651	25	3.3	22	72	17	62	33	10	6	48	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42351294--42351338	18	2.5	18	85	10	65	37	26	11	24	1.89
42351981--42352034	26	2.1	26	100	0	108	29	11	22	37	1.89
42352975--42354069	106	10.3	108	82	7	1160	40	15	13	31	1.85
42352975--42354065	108	10.3	108	82	7	1172	40	15	13	31	1.85
42354097--42354666	109	5.2	110	82	7	626	34	11	14	38	1.83
42354094--42354666	217	2.6	217	80	7	678	35	11	14	38	1.83
42357453--42358467	109	9.3	108	81	9	1070	38	15	13	32	1.86
42358499--42358743	109	2.2	111	87	5	352	29	14	16	39	1.88
42359374--42359416	18	2.4	18	80	0	50	34	16	9	39	1.80
42359454--42359627	18	9.6	18	73	10	140	38	14	10	35	1.82
42359453--42359639	36	5.2	36	77	10	157	37	14	11	36	1.82
42359822--42360030	45	5.0	45	76	18	234	40	22	19	18	1.92
42359889--42359953	32	2.0	32	100	0	130	41	18	18	21	1.90
42359846--42359994	77	2.0	76	97	2	282	40	20	18	20	1.92
42361722--42361754	10	3.3	10	91	8	50	0	18	0	81	0.68
42361722--42361755	16	2.1	16	89	10	52	0	17	0	82	0.67
42362445--42362854	109	3.8	109	87	6	581	32	14	16	37	1.88
42362779--42362917	72	1.9	73	92	1	235	33	14	18	33	1.91
42362777--42362938	72	2.2	72	86	3	225	37	13	16	33	1.87
42363295--42363334	21	2.0	21	95	5	73	32	0	0	67	0.91
42370941--42371073	54	2.5	54	82	1	160	33	16	10	39	1.83
42375043--42375078	16	2.2	17	90	5	56	19	13	0	66	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42383099--42383131	14	2.2	16	89	10	52	60	0	0	39	0.97
42385114--42385158	23	2.0	23	81	0	54	31	6	0	62	1.21
42386339--42386381	20	2.2	20	95	0	77	32	6	18	41	1.77
42386825--42386865	20	2.0	20	90	0	64	12	26	39	21	1.89
42396291--42396367	37	2.1	38	92	2	129	22	28	14	35	1.93
42396386--42396444	28	2.1	28	96	0	109	15	33	11	38	1.84
42406392--42406434	15	2.9	15	76	13	52	67	0	0	32	0.91
42406757--42406859	38	2.7	38	80	12	115	41	0	1	56	1.10
42406758--42406839	40	2.1	38	82	8	94	37	0	1	60	1.04
42407907--42407977	37	1.9	37	91	0	115	18	16	29	35	1.93
42408859--42408930	27	2.6	28	75	12	69	36	2	2	58	1.27
42414385--42414445	29	2.1	29	84	9	79	36	0	8	55	1.30
42424476--42424543	18	3.7	19	86	7	88	35	10	20	33	1.87
42428497--42428546	17	2.7	20	78	18	70	10	0	44	46	1.37
42433136--42433185	17	2.7	20	78	18	70	10	0	44	46	1.37
42436088--42436117	15	1.9	16	93	6	53	53	6	6	33	1.53
42438411--42438444	17	2.0	17	94	0	59	44	50	0	5	1.26
42441947--42441980	17	2.0	17	94	0	59	44	50	0	5	1.26
42446582--42446808	50	4.5	50	94	0	373	35	16	22	25	1.94
42446788--42446939	31	4.9	31	100	0	304	28	19	25	25	1.99
42446894--42446985	46	2.0	46	89	0	139	26	22	23	27	2.00
42446941--42447009	31	2.2	31	84	0	84	26	20	26	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42446863--42447009	77	1.9	77	88	0	222	26	21	25	27	1.99
42450635--42450696	30	2.1	30	90	0	97	27	14	17	40	1.89
42465690--42465773	44	1.9	43	85	7	116	53	2	2	41	1.27
42469262--42469302	20	2.1	19	86	9	55	34	2	7	56	1.40
42493211--42493273	32	2.0	32	96	3	119	11	28	19	41	1.85
42493236--42493541	150	2.0	151	91	0	497	28	20	19	31	1.97
42495982--42496169	103	1.8	103	88	0	286	35	18	9	36	1.84
42495982--42496194	103	2.1	104	85	0	284	33	19	10	36	1.86
42496415--42496461	20	2.3	20	75	7	51	40	4	14	40	1.66
42497607--42497647	19	2.1	20	86	4	57	34	9	7	48	1.64
42498087--42498116	4	7.5	4	100	0	60	26	0	73	0	0.84
42509006--42509114	51	2.1	51	86	0	155	21	35	10	33	1.87
42517457--42517535	36	2.2	36	86	2	104	39	15	15	30	1.88
42527465--42527508	5	8.8	5	94	0	79	38	2	0	59	1.10
42533713--42533841	63	2.0	63	93	0	222	35	17	17	28	1.93
42538979--42539045	34	1.9	35	84	3	91	44	13	8	32	1.75
42547507--42547544	9	3.7	10	83	16	51	52	0	2	44	1.14
42550858--42550888	3	10.3	3	100	0	62	67	0	0	32	0.91
42550964--42551002	10	3.8	10	81	18	53	28	2	0	69	1.02
42551019--42551073	19	2.9	18	83	5	65	45	0	1	52	1.11
42553256--42553330	37	2.0	37	100	0	150	24	18	24	33	1.97
42556030--42556092	33	1.9	32	83	6	81	65	3	4	26	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42556406--42556460	21	2.6	21	85	5	67	52	7	7	32	1.56
42557884--42557953	34	2.1	34	100	0	140	22	11	21	44	1.84
42567183--42567238	10	5.8	10	74	4	53	58	3	1	35	1.26
42567186--42567259	19	3.9	19	80	8	71	56	2	2	37	1.28
42567310--42567359	17	2.8	17	77	16	57	66	0	2	32	1.03
42567303--42567359	9	6.2	9	78	17	64	64	0	1	33	1.04
42567844--42567890	19	2.4	19	89	3	67	36	0	2	61	1.08
42567841--42567909	17	3.8	18	76	16	72	33	1	1	63	1.12
42568270--42568380	26	4.2	26	80	10	116	25	4	2	67	1.23
42568268--42568380	54	2.1	54	81	6	131	25	4	2	67	1.23
42573420--42573596	50	3.5	50	93	0	291	35	16	23	25	1.95
42573576--42573634	31	1.9	31	100	0	118	28	20	25	25	1.99
42573589--42573680	46	2.0	46	89	0	139	26	22	23	27	2.00
42573636--42573704	31	2.2	31	84	0	84	26	20	26	27	1.99
42574873--42574902	14	2.1	14	93	0	51	30	23	0	46	1.52
42577814--42577858	19	2.3	20	81	11	58	26	2	4	66	1.22
42581856--42581909	27	2.0	27	96	0	99	57	14	3	24	1.54
42582441--42582508	9	7.6	9	81	0	73	42	17	10	29	1.82
42582440--42582508	27	2.6	27	83	4	86	43	17	10	28	1.81
42582528--42582567	6	6.5	6	85	5	53	17	0	5	77	0.94
42582596--42582631	18	2.0	18	94	0	63	13	2	44	38	1.59
42583640--42583709	19	3.7	19	67	19	56	48	18	15	17	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42584266--42584308	21	2.1	20	86	4	59	37	16	4	41	1.69
42590299--42590336	19	2.1	19	85	9	53	10	15	0	73	1.09
42591647--42591691	20	2.3	20	88	3	65	24	17	31	26	1.97
42591682--42591820	60	2.3	59	86	8	183	28	20	25	25	1.99
42594821--42594859	19	2.2	19	86	9	55	10	15	0	74	1.07
42596162--42596206	20	2.3	20	88	3	65	28	17	26	26	1.98
42596235--42596348	28	3.9	28	71	19	81	26	21	27	25	1.99
42596227--42596371	61	2.4	61	85	8	179	26	20	26	26	1.99
42597599--42597626	3	9.3	3	100	0	56	32	0	0	67	0.91
42601251--42601280	3	10.0	3	100	0	60	33	0	0	66	0.92

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235