genome.fa.s23.2.7.7.80.10.50.1000.9.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  9  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)
2805579--2805609	16	1.9	16	93	0	53	35	16	12	35	1.87
2807497--2807550	27	2.0	26	82	3	63	51	3	22	22	1.63
2809334--2809395	30	2.1	30	100	0	124	37	3	19	40	1.68
2812403--2812468	29	2.3	29	86	0	96	19	28	25	25	1.99
2814278--2814412	47	2.7	51	75	14	129	29	14	22	33	1.94
2815230--2815255	13	2.0	13	100	0	52	15	30	38	15	1.88
2825759--2825861	54	1.9	54	97	0	197	40	19	3	35	1.70
2828896--2828920	6	4.2	6	100	0	50	0	16	0	84	0.63
2832172--2832214	21	2.0	21	95	0	77	46	6	13	32	1.71
2834900--2835013	51	2.2	51	87	0	165	27	24	20	28	1.99
2838240--2838296	24	2.3	24	84	6	69	56	1	3	38	1.27
2839232--2839261	15	2.0	15	93	0	51	83	3	0	13	0.77
2841468--2841532	22	2.8	23	79	15	71	36	1	4	56	1.29
2841478--2841533	22	2.5	22	85	8	78	37	1	5	55	1.33
2855787--2855943	52	3.0	52	97	0	296	39	17	23	19	1.92
2857454--2857525	35	2.1	35	100	0	144	25	5	31	37	1.79
2860689--2860718	15	2.0	15	100	0	60	20	20	20	40	1.92
2864173--2864203	16	1.9	16	93	0	53	48	0	9	41	1.36
2866253--2866311	30	2.0	30	86	0	82	44	11	11	32	1.78
2866546--2866585	16	2.5	16	87	0	53	50	2	12	35	1.54
2873688--2873764	14	5.0	15	71	20	52	44	14	7	33	1.74
2873692--2873758	34	1.9	35	87	3	100	47	13	7	31	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2880638--2880706	21	3.4	21	71	15	72	36	1	7	55	1.37
2880693--2880723	15	2.1	14	94	5	53	35	3	6	54	1.42
2881038--2881070	14	2.4	14	85	15	50	72	15	12	0	1.12
2884058--2884141	24	3.4	24	75	6	62	33	23	27	15	1.95
2884187--2884246	25	2.5	22	82	12	66	33	25	30	11	1.91
2885433--2885744	153	2.0	153	98	0	606	35	13	12	38	1.83
2885867--2885904	18	2.1	18	95	0	67	23	5	13	57	1.56
2886444--2886480	20	1.9	20	88	5	58	51	8	0	40	1.32
2895105--2895168	30	2.1	30	82	0	74	43	1	7	46	1.42
2899558--2899600	21	2.0	21	82	8	52	23	18	27	30	1.98
2902019--2902067	24	2.1	23	88	7	73	42	6	2	48	1.39
2910801--2910843	18	2.5	17	76	3	50	30	0	6	62	1.21
2912324--2912362	15	2.7	14	84	7	51	43	2	12	41	1.56
2912310--2912362	14	3.7	15	80	7	56	43	3	11	41	1.58
2913048--2914534	742	2.0	743	97	0	2805	28	21	13	36	1.91
2916767--2916792	12	2.2	12	100	0	52	38	26	15	19	1.91
2917800--2917829	11	2.7	11	100	0	60	63	6	0	30	1.20
2918511--2918638	64	2.0	64	98	0	247	42	10	28	17	1.83
2928781--2928815	6	5.8	6	100	0	70	68	0	0	31	0.90
2937095--2937127	11	2.9	12	86	13	52	33	0	0	66	0.92
2937314--2937356	22	2.0	22	85	0	59	58	16	11	13	1.64
2940882--2940953	18	3.9	18	77	10	58	54	0	1	44	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2941819--2941869	21	2.4	21	83	0	66	25	17	23	33	1.96
2943251--2943344	46	2.0	46	97	0	179	31	8	21	38	1.83
2946975--2947009	2	17.5	2	100	0	70	48	0	51	0	1.00
2950016--2950049	18	1.9	18	94	5	61	55	0	0	44	0.99
2950201--2950268	16	4.2	16	92	0	118	26	0	33	39	1.57
2950249--2950343	44	2.1	44	84	1	118	30	5	27	36	1.79
2950484--2950538	15	3.4	16	80	16	53	50	1	0	47	1.11
2950504--2950538	18	2.0	17	88	5	52	54	0	0	45	0.99
2950624--2950658	18	2.0	17	88	5	52	54	0	0	45	0.99
2950519--2950709	61	3.2	60	67	20	155	48	5	2	43	1.38
2950482--2950765	120	2.4	120	90	2	446	48	4	1	44	1.34
2961508--2961557	26	1.9	26	100	0	100	24	8	20	48	1.76
2962379--2962411	16	2.1	16	100	0	66	0	27	12	60	1.32
2969966--2970142	87	2.0	87	98	0	345	39	9	16	34	1.81
2977799--2977839	21	2.0	21	85	0	55	58	0	0	41	0.98
2983108--2983145	19	2.0	19	85	10	51	34	2	0	63	1.09
2983375--2983430	21	2.5	22	80	5	69	26	0	5	67	1.11
2985675--2985718	15	3.0	16	78	18	51	36	4	0	59	1.18
2992179--2992221	19	2.3	18	88	4	59	62	0	0	37	0.95
2992180--2992221	10	3.4	13	78	21	54	61	0	0	38	0.96
2994102--2994255	51	3.0	51	94	0	254	30	24	14	31	1.94
2994286--2994438	78	2.0	77	88	0	216	28	16	7	47	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2996223--2996285	33	1.9	32	84	9	83	34	12	4	47	1.63
2999203--2999300	32	3.0	32	83	5	99	32	9	23	34	1.86
2999253--2999339	33	2.6	33	96	0	156	39	9	19	32	1.83
2999253--2999351	33	3.0	35	87	11	138	40	9	20	30	1.83
3000041--3000069	8	3.6	8	100	0	58	37	0	0	62	0.96
3000116--3000155	20	2.0	21	90	5	64	70	7	17	5	1.30
3001381--3001437	15	3.9	15	88	2	89	35	0	12	52	1.39
3003492--3003520	8	3.6	8	100	0	58	37	0	0	62	0.96
3003545--3003584	5	8.0	5	100	0	80	40	0	0	60	0.97
3004591--3004647	15	3.9	15	88	2	89	35	0	12	52	1.39
3008508--3008595	40	2.2	40	81	6	97	30	5	9	54	1.55
3010306--3010348	18	2.3	19	84	8	52	34	4	4	55	1.41
3019200--3019247	19	2.4	22	76	20	59	43	8	14	33	1.75
3019478--3019523	20	2.3	20	85	3	58	41	6	2	50	1.40
3020369--3020440	25	2.8	25	79	10	74	18	12	12	56	1.66
3034769--3034981	37	5.8	37	98	0	399	39	15	20	24	1.91
3034944--3035067	46	2.8	46	91	3	200	33	16	22	27	1.96
3046350--3046390	21	2.0	21	90	0	64	19	29	21	29	1.98
3052953--3052982	12	2.4	13	94	5	53	56	0	6	36	1.26
3055908--3055977	21	3.5	20	75	13	72	42	22	22	11	1.85
3055890--3055990	39	2.6	39	90	0	148	39	23	23	12	1.90
3060062--3060089	10	2.8	10	100	0	56	32	17	0	50	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3063507--3063569	25	2.4	25	78	5	72	11	14	14	60	1.59
3067492--3067520	2	15.0	2	92	7	51	51	0	0	48	1.00
3073858--3073901	19	2.3	19	84	7	54	29	22	11	36	1.89
3075881--3075954	35	2.1	35	95	2	132	32	6	16	44	1.73
3081594--3081837	122	2.0	122	97	0	461	34	15	20	28	1.94
3083006--3083039	12	2.8	12	86	0	50	52	0	17	29	1.45
3095486--3095514	2	15.0	2	92	7	51	51	0	0	48	1.00
3098419--3098454	11	3.3	11	88	0	54	22	2	8	66	1.31
3098538--3098572	18	1.9	18	88	11	54	45	0	0	54	0.99
3114017--3114084	29	2.3	31	80	19	90	29	11	8	50	1.69
3114030--3114085	29	2.0	29	93	6	98	32	10	8	48	1.69
3114805--3114852	21	2.3	21	96	3	89	41	0	6	52	1.27
3116950--3117106	80	2.0	80	96	0	287	40	7	4	47	1.52
3126242--3126313	5	14.8	5	74	21	64	38	1	4	55	1.28
3126271--3126313	19	2.3	19	92	8	70	41	2	0	55	1.12
3126318--3126357	18	2.2	19	90	4	64	80	2	15	2	0.93
3127237--3127361	44	2.8	45	82	4	144	34	13	23	28	1.93
3129213--3129242	15	2.0	15	93	0	51	46	3	16	33	1.64
3129760--3129817	25	2.3	25	81	0	71	22	22	15	39	1.91
3133087--3133119	16	2.1	16	94	0	57	27	24	12	36	1.91
3141916--3141980	22	3.0	21	75	8	60	38	4	3	53	1.37
3141927--3141980	20	2.5	22	79	5	67	42	3	1	51	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3141889--3141980	42	2.1	43	82	4	105	39	5	4	51	1.45
3144587--3144656	9	7.3	9	75	10	59	41	1	0	57	1.08
3144609--3144637	11	2.6	11	100	0	58	55	0	0	44	0.99
3144603--3144656	10	5.5	10	78	10	58	46	0	0	53	1.00
3144603--3144668	19	3.4	19	81	6	62	42	0	0	57	0.98
3144642--3144684	19	2.2	20	84	8	54	25	0	0	74	0.82
3148138--3148165	7	4.0	7	100	0	56	71	0	28	0	0.86
3152729--3152786	31	1.9	29	83	13	73	46	15	6	31	1.72
3158888--3158977	44	2.0	44	97	0	171	38	14	13	33	1.85
3163524--3163586	20	3.2	20	76	0	63	26	1	19	52	1.55

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