genome.fa.s20.2.7.7.80.10.50.1000.11.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  11  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)
3334979--3335464	263	1.8	263	81	1	607	33	18	14	33	1.91
3334414--3336031	829	2.0	828	80	4	1889	34	16	16	32	1.92
3335603--3336690	543	2.0	540	88	2	1612	34	16	16	32	1.92
3336767--3336860	47	2.0	47	91	0	152	41	12	14	30	1.84
3336197--3337379	618	1.9	617	81	4	1445	34	16	15	33	1.90
3336934--3338015	550	2.0	547	79	4	1187	34	14	16	33	1.90
3338580--3338919	134	2.5	134	83	0	403	37	10	17	33	1.85
3341758--3341885	25	5.2	25	69	12	59	39	20	22	17	1.93
3350232--3355477	570	9.2	569	79	5	4571	34	15	16	33	1.91
3355858--3356019	80	2.0	80	93	2	281	32	18	18	30	1.95
3358952--3359183	56	4.1	56	97	0	437	22	22	9	45	1.81
3362480--3362519	20	2.0	20	85	0	53	62	2	5	30	1.29
3369358--3369450	19	4.7	19	74	14	64	34	2	2	61	1.20
3369365--3369733	20	18.9	19	65	18	102	36	2	3	57	1.28
3369568--3369607	21	1.9	19	85	14	53	37	5	2	55	1.35
3369637--3369722	42	2.0	42	80	12	97	34	3	2	59	1.27
3369570--3369740	10	16.7	10	66	17	50	36	3	2	56	1.31
3376197--3376286	40	2.3	39	86	9	128	53	6	1	38	1.35
3377145--3377191	20	2.3	21	89	10	71	74	0	10	14	1.07
3380996--3381309	43	7.3	43	80	5	330	28	32	16	22	1.96
3381017--3381310	86	3.4	86	84	4	378	27	32	15	23	1.95
3380996--3381309	129	2.4	128	84	5	391	28	32	16	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3381577--3381623	19	2.5	19	76	10	51	72	4	2	21	1.12
3385753--3385837	21	3.7	21	70	19	71	42	27	2	28	1.68
3385737--3385833	49	2.0	46	90	5	149	41	25	3	29	1.71
3386009--3386206	41	4.9	41	85	4	251	20	22	21	35	1.96
3386144--3386222	40	2.0	41	87	7	117	15	18	21	44	1.87
3393720--3393845	60	2.1	60	82	5	146	32	7	17	42	1.78
3394436--3394484	25	1.9	26	84	12	66	71	2	16	10	1.22
3396003--3396047	21	2.0	21	87	8	63	13	24	26	35	1.92
3398876--3398919	23	1.9	23	90	0	70	34	0	9	56	1.31
3400391--3400437	21	2.2	21	88	0	67	21	6	29	42	1.77
3400404--3400444	21	2.0	21	90	0	64	21	4	24	48	1.69
3400384--3400449	28	2.4	28	81	0	78	19	4	27	48	1.68
3410262--3410354	42	2.2	42	83	7	109	30	11	24	33	1.91
3410296--3410413	42	2.8	41	82	6	121	31	16	22	28	1.96
3412025--3412089	32	2.0	32	84	0	85	33	7	26	32	1.85
3412484--3412863	29	13.3	28	79	7	324	25	13	23	37	1.91
3412484--3412864	86	4.5	83	80	5	354	25	13	23	37	1.91
3412484--3412863	115	3.3	114	79	5	394	25	13	23	37	1.91
3412839--3413152	163	1.9	163	84	2	425	32	17	22	27	1.96
3413844--3413931	6	14.3	6	71	17	65	50	13	17	19	1.79
3413844--3413931	25	3.6	24	81	7	90	50	13	17	19	1.79
3414083--3414224	67	2.1	67	85	5	185	31	21	27	19	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3414452--3414558	27	4.0	27	85	0	133	22	20	21	35	1.96
3414456--3414558	54	1.9	53	90	2	161	22	21	20	35	1.96
3414562--3414709	27	5.5	27	87	0	206	42	7	20	29	1.79
3414562--3414736	54	3.2	54	84	0	224	40	8	21	29	1.83
3417034--3417366	41	8.2	41	82	4	181	33	25	15	24	1.95
3417034--3417354	82	3.9	82	78	6	303	34	24	15	25	1.95
3417072--3417366	123	2.4	121	79	11	325	33	26	15	25	1.95
3417656--3417748	14	6.5	14	71	3	51	48	27	0	23	1.51
3417656--3417718	21	3.0	21	76	2	54	50	22	0	26	1.49
3417903--3417988	43	2.0	41	82	4	100	27	8	26	37	1.85
3418250--3418288	13	3.0	13	96	0	69	43	7	2	46	1.46
3418793--3418886	40	2.4	41	77	10	97	44	20	15	19	1.86
3419452--3419487	18	1.9	19	88	5	56	50	2	25	22	1.63
3419866--3419915	11	4.4	11	80	9	64	40	8	14	38	1.75
3423061--3423188	9	13.6	9	75	9	112	46	20	0	32	1.56
3423078--3423155	39	2.0	39	97	0	147	46	21	0	32	1.52
3423074--3423186	57	2.0	57	87	0	163	46	22	0	30	1.58
3429210--3429327	43	2.7	43	97	0	218	24	32	19	23	1.98
3434152--3434196	23	2.0	22	82	4	54	66	4	11	17	1.38
3434189--3434344	3	53.3	3	74	16	141	63	2	2	31	1.21
3434205--3434254	20	2.5	20	83	0	64	64	8	0	28	1.22
3434398--3434443	22	2.0	22	83	12	56	50	6	6	36	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3434478--3434516	20	2.0	20	89	0	60	61	0	5	33	1.18
3435669--3435711	17	2.5	17	84	0	59	6	0	39	53	1.28
3438469--3438498	3	9.7	3	92	7	51	33	0	3	63	1.11
3438598--3438636	3	13.3	3	94	5	71	30	0	0	69	0.89
3440359--3440406	20	2.4	21	75	6	55	43	33	2	20	1.64
3440581--3440625	22	2.0	22	91	8	74	53	6	6	33	1.53
3442956--3443119	43	3.8	43	81	2	161	27	14	24	33	1.94
3447700--3447757	27	2.1	29	87	6	84	27	1	18	51	1.56
3447839--3447962	41	3.0	42	82	6	105	20	19	23	36	1.95
3447854--3447972	41	2.9	43	85	6	156	18	21	25	35	1.95
3449445--3449526	26	3.2	26	96	0	155	30	6	26	36	1.81
3455694--3455801	26	4.2	26	93	0	189	32	7	24	36	1.83
3459187--3459232	14	3.4	14	84	3	58	23	0	28	47	1.52
3459158--3459223	21	3.2	21	71	16	57	18	0	31	50	1.47
3460874--3460907	17	2.0	17	94	0	59	35	8	11	44	1.72
3467886--3468029	55	2.6	55	82	0	171	26	26	32	14	1.95
3473771--3473863	46	2.0	46	95	0	168	31	11	23	33	1.91
3475049--3475166	24	4.7	25	71	17	70	26	22	18	32	1.97
3475134--3475186	26	2.1	24	82	6	61	30	24	22	22	1.99
3477070--3477371	27	11.1	27	74	8	182	38	20	9	31	1.84
3477079--3477371	54	5.4	54	73	11	202	39	20	9	31	1.84
3477078--3477260	81	2.3	81	82	3	217	39	22	8	29	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3477403--3477494	27	3.4	28	88	5	104	33	19	25	21	1.97
3478248--3478343	25	3.8	25	87	6	140	26	23	25	25	2.00
3478489--3478580	42	2.2	42	90	0	139	30	14	20	34	1.92
3478604--3478682	31	2.5	31	93	0	140	30	18	25	25	1.98
3497505--3498184	137	5.0	137	89	1	986	33	17	20	28	1.95
3497639--3497838	41	4.5	41	64	20	107	33	19	19	28	1.96
3497776--3498112	41	7.5	42	66	16	160	31	18	20	29	1.96
3508171--3508343	46	3.7	46	79	10	208	21	19	27	30	1.98
3508168--3508338	93	1.8	93	93	0	297	21	19	28	29	1.98
3508568--3508605	19	2.0	20	85	15	53	36	0	23	39	1.55
3510197--3510279	24	3.4	24	74	15	73	26	24	18	31	1.97
3514521--3514840	82	3.9	81	74	9	276	36	20	18	24	1.94
3514480--3514842	41	8.9	41	75	6	229	37	19	18	24	1.94
3514499--3514781	123	2.3	122	78	6	295	36	20	18	24	1.94
3515278--3515318	21	2.0	21	85	0	55	9	0	36	53	1.34
3516393--3516443	17	2.9	17	72	13	50	37	35	1	25	1.67
3518599--3519243	241	2.7	241	97	0	1218	34	18	15	31	1.92
3519348--3519475	9	13.6	9	76	9	121	46	21	0	31	1.57
3519365--3519442	39	2.0	39	97	0	147	46	21	0	32	1.52
3519361--3519473	57	2.0	57	89	0	172	46	23	0	30	1.58
3524982--3525015	17	2.0	17	94	0	59	29	20	23	26	1.99
3525338--3525419	31	2.5	33	78	7	96	13	6	19	60	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3530566--3530671	27	3.9	28	83	2	119	36	18	22	21	1.95
3531269--3531318	20	2.5	20	93	0	82	18	34	14	34	1.90
3537951--3537988	19	2.0	20	89	5	60	50	5	10	34	1.59
3538868--3538908	7	5.9	7	100	0	82	41	0	29	29	1.56
3544051--3544108	27	2.1	27	87	6	82	20	18	31	29	1.97
3544197--3544246	21	2.4	21	79	0	64	32	2	20	46	1.62
3544756--3544795	21	1.9	21	94	0	71	47	15	2	35	1.58
3545315--3545388	31	2.5	30	82	8	89	37	10	9	41	1.73
3552014--3552067	22	2.4	22	87	6	72	22	25	27	24	2.00
3552129--3552377	40	6.2	40	79	3	209	31	21	21	26	1.98

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