genome.fa.s20.2.7.7.80.10.50.1000.12.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  12  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)
3552129--3552397	120	2.2	120	80	8	291	31	21	20	26	1.98
3552432--3552648	40	5.4	40	79	3	222	30	20	21	27	1.98
3552433--3552654	79	2.8	79	81	1	237	32	19	20	27	1.97
3552432--3552654	119	1.9	119	82	4	279	32	19	20	27	1.97
3552677--3552756	40	2.0	40	90	4	126	33	18	20	27	1.96
3552908--3552955	22	2.2	21	85	10	62	25	0	25	50	1.50
3552915--3553013	7	13.9	7	76	4	63	20	0	33	46	1.51
3553630--3553681	21	2.5	20	75	9	52	46	17	0	36	1.48
3555215--3555328	24	4.8	24	81	4	115	22	10	30	35	1.88
3561595--3561628	17	2.0	17	94	0	59	55	0	5	38	1.24
3562803--3562938	24	5.7	24	81	3	150	23	12	28	35	1.91
3562803--3562939	72	1.9	72	84	0	184	23	12	29	35	1.91
3562803--3562956	72	2.1	72	81	0	173	24	12	28	35	1.91
3564674--3564759	31	2.8	31	87	1	129	24	24	16	34	1.95
3564970--3565047	26	3.1	25	87	5	104	25	20	23	30	1.98
3565180--3565227	25	1.9	25	86	0	69	31	14	20	33	1.93
3567498--3567643	41	3.5	40	83	6	177	32	25	15	26	1.95
3581236--3581413	27	6.6	27	83	3	205	26	15	28	29	1.96
3581237--3581392	82	1.9	81	88	3	233	26	15	28	29	1.96
3581233--3581413	82	2.2	81	83	2	229	27	15	27	29	1.96
3589333--3589510	27	6.6	27	83	3	205	26	15	28	29	1.96
3589334--3589489	82	1.9	81	88	3	233	26	15	28	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3589330--3589510	82	2.2	81	83	2	229	27	15	27	29	1.96
3591054--3591204	41	3.7	40	80	8	162	31	24	16	27	1.96
3613719--3613823	47	2.2	47	94	0	183	28	30	6	34	1.83
3622076--3622121	17	2.7	17	96	0	83	13	34	39	13	1.83
3637926--3638012	45	1.9	45	97	0	165	27	28	13	29	1.94
3640167--3640192	13	2.0	13	100	0	52	38	7	15	38	1.76
3663874--3663914	16	2.4	18	76	19	52	53	0	4	41	1.22
3665245--3665400	39	4.0	39	81	1	179	32	29	17	19	1.95
3665249--3665400	78	1.9	78	84	2	198	32	28	17	20	1.96
3690047--3690097	26	2.0	26	84	7	68	29	3	25	41	1.73
3696042--3696264	40	5.6	40	83	5	220	25	21	27	26	1.99
3696122--3696301	79	2.3	80	82	1	211	25	21	28	25	1.99
3703497--3703903	110	3.7	110	83	3	462	27	18	22	30	1.97
3704858--3704937	27	3.0	27	88	0	106	17	20	22	40	1.92
3707871--3708118	123	2.0	123	93	0	424	37	14	22	25	1.93
3709571--3709595	13	1.9	13	100	0	50	16	4	8	72	1.24
3710486--3710661	40	4.4	40	91	2	275	23	23	28	24	2.00
3710482--3710661	79	2.3	79	90	2	281	24	23	27	24	2.00
3711999--3712220	80	2.8	78	80	6	248	26	27	21	24	1.99
3711999--3712220	40	5.6	39	83	7	216	26	27	21	24	1.99
3719425--3719642	40	5.5	39	87	3	215	24	20	27	26	1.99
3719493--3719675	79	2.3	80	83	1	235	25	20	27	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3727380--3727589	40	5.3	39	87	5	233	24	21	28	25	1.99
3727327--3727589	120	2.2	120	81	4	300	25	21	27	25	1.99
3727380--3727624	80	3.1	80	81	3	228	25	21	28	24	1.99
3732787--3732840	27	2.0	27	85	0	72	38	14	5	40	1.70
3736442--3736497	27	2.1	27	100	0	112	41	3	0	55	1.17
3740525--3740564	19	2.1	19	100	0	80	42	5	17	35	1.71
3744088--3745069	490	2.0	491	96	0	1795	32	16	17	33	1.93
3746768--3746893	63	2.0	63	92	0	207	41	13	21	23	1.89
3747578--3747629	25	2.1	25	96	0	95	36	0	21	42	1.53
3747585--3747636	25	2.2	25	82	6	63	38	1	26	32	1.68
3748450--3748488	8	4.9	8	84	9	53	12	0	0	87	0.55
3748450--3748475	7	3.7	7	100	0	52	11	0	0	88	0.52
3748853--3748889	17	2.2	17	100	0	74	27	10	27	35	1.90
3750232--3750359	46	2.7	46	78	7	125	21	17	21	39	1.93
3753162--3753211	22	2.3	22	89	0	73	44	44	0	12	1.41
3755234--3755363	47	2.8	47	86	9	176	35	27	15	21	1.94
3763602--3763642	19	2.2	19	95	0	73	34	14	0	51	1.43
3771985--3772136	40	3.8	41	87	3	193	24	20	28	26	1.99
3771985--3772156	80	2.2	80	81	3	195	23	19	27	28	1.99
3773625--3773732	27	4.0	27	79	4	110	30	18	13	37	1.90
3773613--3773726	54	2.1	54	86	0	156	28	18	13	40	1.88
3773682--3773753	27	2.7	27	93	0	117	31	20	11	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3773613--3773753	54	2.6	53	80	8	133	29	19	12	39	1.88
3777551--3777725	40	4.4	40	90	3	275	22	22	28	26	1.99
3777551--3777725	79	2.2	80	89	4	275	22	22	28	26	1.99
3780924--3781025	48	2.1	48	83	0	123	37	15	8	38	1.79
3781464--3781508	24	1.9	23	86	4	63	44	17	0	37	1.49
3783438--3783541	51	2.0	51	98	0	199	33	15	18	32	1.92
3785963--3786083	35	3.5	35	78	4	145	42	17	10	28	1.83
3787604--3789013	27	52.3	27	88	3	1898	32	20	21	25	1.97
3787658--3789011	81	16.7	81	94	1	2188	32	20	22	25	1.98
3789440--3789504	22	3.0	22	77	8	69	20	21	23	35	1.96
3789663--3789736	27	2.8	27	87	2	96	16	24	21	37	1.93
3789873--3790654	31	25.2	31	99	0	1510	19	16	15	48	1.81
3792620--3793395	27	28.7	27	98	0	1473	37	22	11	29	1.89
3792621--3793841	27	45.3	27	94	0	698	35	21	14	27	1.93
3794268--3794332	22	3.0	22	80	8	78	20	23	23	33	1.97
3794483--3794561	26	3.0	26	85	3	70	18	22	20	37	1.94
3794491--3794561	26	2.7	27	88	2	99	18	23	21	36	1.95
3794498--3794561	27	2.4	26	89	2	92	20	25	18	35	1.95
3794724--3794811	6	14.3	6	78	13	90	18	19	15	46	1.84
3794714--3794811	31	3.2	31	95	0	169	18	19	15	46	1.83
3799376--3799477	50	2.0	50	82	0	123	40	19	8	31	1.82
3799440--3799583	35	4.1	34	77	6	144	40	18	12	28	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3813162--3813243	40	2.0	40	97	0	155	32	10	26	29	1.91
3816925--3817000	19	3.8	20	72	19	61	57	17	1	23	1.47
3816925--3816985	30	2.0	30	90	6	97	59	19	0	21	1.39
3816925--3816981	19	2.9	19	80	14	62	59	17	0	22	1.37
3816925--3816986	9	6.4	9	80	12	70	58	19	0	22	1.40
3816998--3817120	34	3.6	34	97	0	228	41	17	8	32	1.79
3820212--3820389	27	6.6	27	83	3	205	26	15	28	29	1.96
3820213--3820368	82	1.9	81	88	3	233	26	15	28	29	1.96
3820209--3820389	82	2.2	81	83	2	229	27	15	27	29	1.96
3828275--3828452	27	6.6	27	83	3	205	26	15	28	29	1.96
3828276--3828431	82	1.9	81	88	3	233	26	15	28	29	1.96
3828272--3828452	82	2.2	81	83	2	229	27	15	27	29	1.96
3830501--3830550	19	2.7	18	75	22	50	10	24	0	66	1.22
3830493--3830574	37	2.3	33	80	15	94	8	25	0	65	1.20
3835850--3836049	27	7.4	27	83	0	220	37	18	19	25	1.94
3835850--3836050	81	2.5	81	84	0	258	37	17	19	25	1.94
3836036--3836087	27	1.9	27	84	0	68	23	17	21	38	1.93
3843466--3843665	27	7.4	27	85	2	215	35	17	21	26	1.95
3843466--3843665	54	3.7	54	85	2	240	35	17	21	26	1.95
3843467--3843665	81	2.5	80	87	3	272	35	17	21	26	1.95
3844317--3844367	27	1.9	26	84	4	66	19	27	17	35	1.94
3845658--3845732	19	3.9	19	81	11	100	54	21	0	24	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3845658--3845732	9	7.9	9	84	10	96	54	21	0	24	1.45
3845744--3845840	34	2.9	34	92	3	153	42	18	7	31	1.78
3859675--3859826	40	3.8	40	89	2	207	25	28	21	24	1.99
3873065--3873121	11	5.0	11	77	12	53	22	3	0	73	0.98
3877137--3877179	5	8.6	5	87	7	61	16	0	0	83	0.64
3887157--3887214	3	19.0	3	85	3	53	36	8	0	55	1.31
3887553--3887583	15	2.1	15	100	0	62	35	0	0	64	0.94
3890195--3890245	16	3.1	16	76	15	50	64	0	23	11	1.26
3890196--3890233	17	2.2	18	90	4	60	73	0	15	10	1.09
3890219--3890276	21	2.8	20	79	7	62	62	1	29	6	1.31

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