genome.fa.s20.2.7.7.80.10.50.1000.13.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  13  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)
3890195--3890268	33	2.1	36	82	9	91	63	1	25	9	1.33
3892377--3892614	119	2.0	119	89	1	361	32	16	15	34	1.91
3893577--3893762	80	2.3	80	84	9	238	28	27	20	23	1.99
3893579--3893762	40	4.6	40	83	7	214	28	27	21	23	1.99
3897152--3897268	59	2.0	59	94	0	207	27	12	10	49	1.73
3899725--3899894	46	3.7	45	76	7	171	21	31	18	28	1.97
3902965--3903219	55	4.8	53	80	8	254	35	16	25	23	1.95
3902972--3903172	108	1.8	110	89	4	318	33	16	25	24	1.96
3903412--3903442	16	1.9	16	93	0	53	41	0	22	35	1.54
3904952--3905065	26	4.4	26	80	0	111	23	17	24	34	1.96
3914387--3914444	27	2.1	27	90	0	89	41	15	3	39	1.64
3915954--3916040	41	2.1	41	87	4	122	21	27	16	34	1.95
3919592--3919660	33	2.1	33	94	0	120	31	17	20	30	1.95
3929313--3929369	27	2.0	28	90	6	89	38	5	14	42	1.68
3932700--3932745	15	3.1	15	90	0	65	17	13	15	54	1.71
3939693--3939816	63	2.0	63	88	0	185	32	21	18	27	1.97
3954400--3954441	21	2.0	21	100	0	84	19	23	23	33	1.97
3962259--3962370	40	2.8	40	76	13	104	31	18	22	27	1.97
3965143--3965211	30	2.3	30	92	0	111	24	31	23	20	1.98
3968826--3968865	21	2.0	21	85	5	55	12	37	27	22	1.90
3983112--3983543	171	2.6	166	84	5	532	37	8	17	36	1.80
3983086--3983625	165	3.2	169	81	7	609	36	8	18	36	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3993203--3993510	40	7.7	40	95	2	539	25	27	22	24	2.00
4001410--4001586	40	4.4	40	91	0	273	24	27	20	27	1.99
4001384--4001586	80	2.5	80	84	2	275	23	27	22	27	1.99
4020583--4020644	28	2.2	28	80	11	74	54	1	16	27	1.51
4020933--4020974	16	2.4	18	88	7	61	30	0	0	69	0.89
4021086--4021146	27	2.3	27	85	0	77	18	22	26	32	1.97
4024620--4024734	33	3.5	32	75	4	104	27	10	42	19	1.83
4026571--4026605	16	2.2	16	90	5	54	62	8	0	28	1.24
4026569--4027115	105	5.4	102	79	13	572	55	13	0	31	1.42
4026792--4027077	104	3.0	93	75	13	292	54	13	0	30	1.42
4026561--4027086	209	2.6	207	82	10	604	54	13	0	30	1.42
4027071--4027102	11	2.8	12	90	9	50	62	0	0	37	0.95
4027252--4027287	14	2.6	14	86	0	54	0	27	0	72	0.85
4027247--4027299	23	2.4	22	84	9	63	0	28	0	71	0.86
4027789--4027821	16	2.1	16	94	0	57	51	0	0	48	1.00
4028882--4028924	17	2.5	17	85	7	61	32	0	4	62	1.15
4028886--4028926	15	2.7	16	79	20	52	34	0	4	60	1.18
4031518--4031997	27	17.6	27	97	1	852	25	14	29	30	1.95
4031518--4031997	82	5.9	82	96	1	874	25	14	29	30	1.95
4041261--4041384	27	4.6	27	92	2	194	27	14	28	29	1.95
4041261--4041384	55	2.3	54	91	1	194	27	14	28	29	1.95
4048041--4048223	79	2.3	81	84	7	232	24	22	27	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4048042--4048225	40	4.6	40	83	9	216	23	22	28	25	2.00
4048094--4048258	79	2.1	79	84	6	210	25	21	27	25	1.99
4054805--4055028	40	5.6	40	91	1	308	24	20	28	26	1.99
4054766--4055028	80	3.3	80	85	3	318	23	20	28	26	1.99
4054766--4055028	120	2.2	120	82	4	318	23	20	28	26	1.99
4057312--4057412	23	4.4	23	77	8	107	25	21	16	35	1.95
4057312--4057413	45	2.2	47	83	8	129	25	21	16	36	1.94
4058331--4058396	30	2.2	30	100	0	132	18	21	31	28	1.96
4061259--4061288	11	2.7	11	100	0	60	26	16	10	46	1.78
4063760--4063822	30	2.1	30	82	5	74	49	14	19	17	1.80
4066901--4067012	27	4.1	27	85	3	136	20	23	20	35	1.96
4078083--4078134	25	2.1	24	82	3	59	38	25	21	15	1.92
4110777--4110838	25	2.5	24	78	19	65	22	24	17	35	1.95
4126887--4126920	13	2.7	13	95	4	61	29	41	29	0	1.57
4128048--4128128	42	1.9	42	82	9	103	33	23	12	30	1.92
4132545--4132569	13	1.9	13	100	0	50	40	8	16	36	1.77
4145011--4145362	49	7.3	47	94	4	614	32	8	31	27	1.86
4145011--4145362	96	3.7	94	95	3	614	32	8	31	27	1.86
4145011--4145362	145	2.4	144	96	0	652	32	8	31	27	1.86
4148694--4148856	42	3.9	42	84	6	197	28	25	17	29	1.97
4157772--4157796	11	2.3	11	100	0	50	44	0	0	56	0.99
4165688--4165952	40	6.7	40	85	5	286	26	27	21	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4165655--4165952	80	3.7	80	79	9	263	25	27	21	25	1.99
4165884--4165961	40	1.9	41	82	10	97	26	28	20	24	1.99
4173636--4173897	39	6.7	40	88	7	337	24	27	22	25	2.00
4174975--4175001	14	1.9	14	100	0	54	0	7	3	88	0.61
4176594--4176632	18	2.2	18	85	0	51	28	23	17	30	1.97
4181301--4181518	45	4.8	45	85	4	228	43	16	17	22	1.88
4181351--4181502	45	3.4	45	94	1	252	44	16	17	21	1.87
4181351--4181556	90	2.3	90	83	3	227	41	16	19	22	1.90
4183400--4183472	25	2.9	25	81	2	83	27	16	23	32	1.96
4183400--4183489	25	3.5	26	80	4	78	25	17	25	31	1.97
4186073--4186466	39	10.1	39	96	0	689	21	23	29	24	1.99
4189282--4189311	15	2.0	15	93	0	51	56	0	6	36	1.26
4189731--4189798	32	2.2	32	97	2	129	38	17	8	35	1.81
4191822--4191857	17	2.1	18	89	5	56	61	0	0	38	0.96
4198954--4199025	36	2.0	36	97	0	135	22	11	12	54	1.69
4203917--4204129	93	2.3	93	89	0	327	16	22	15	46	1.84
4216472--4217045	69	8.3	68	76	5	447	36	21	18	22	1.95
4220620--4220752	46	2.9	47	82	5	155	32	25	20	21	1.98
4226123--4226166	3	14.7	3	100	0	88	31	0	0	68	0.90
4226554--4226599	24	2.0	24	86	4	67	32	2	10	54	1.47
4227277--4227316	17	2.2	19	83	16	50	40	0	0	60	0.97
4228813--4228858	17	2.7	18	75	24	55	21	6	2	69	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4231008--4231037	14	2.1	14	93	0	51	16	10	6	66	1.41
4231524--4231585	31	2.0	31	90	0	97	53	6	20	19	1.67
4233349--4233388	14	2.9	14	92	3	64	35	7	22	35	1.82
4233900--4233936	19	1.9	19	88	0	56	43	21	5	29	1.75
4234882--4234960	32	2.5	32	91	4	124	51	20	1	26	1.55
4236627--4236662	2	18.0	2	88	11	56	2	47	0	50	1.15
4253906--4253947	6	7.0	6	84	10	50	19	0	2	78	0.86
4253906--4253947	11	3.5	12	87	6	50	19	0	2	78	0.86
4260212--4260312	39	2.6	39	93	0	166	12	24	24	37	1.91
4263772--4264034	40	6.6	39	86	4	278	25	27	21	25	1.99
4263772--4264034	120	2.2	119	82	4	307	25	27	21	25	1.99
4263966--4264043	40	1.9	41	82	10	97	26	28	20	24	1.99
4275863--4275991	45	2.9	45	84	3	154	32	26	17	24	1.96
4278693--4278899	55	3.9	54	71	7	143	20	24	18	36	1.95
4286413--4286590	45	4.0	45	76	11	163	33	24	15	26	1.95
4290940--4290978	19	2.1	19	85	4	53	2	17	0	79	0.84
4290949--4291018	6	11.5	6	75	13	54	4	15	2	77	1.05
4290936--4291023	31	2.8	31	86	6	108	6	15	2	75	1.12
4292891--4293027	49	2.8	49	83	3	168	25	16	24	34	1.95
4296567--4296669	45	2.2	45	81	8	118	24	20	19	35	1.95
4296567--4296681	23	4.9	23	73	13	92	24	20	18	37	1.94
4299636--4299697	27	2.3	27	82	0	70	27	16	17	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4299680--4299882	80	2.5	81	83	5	259	30	10	19	39	1.86
4299680--4299860	27	6.7	27	82	5	215	32	11	18	38	1.86
4303721--4303810	29	3.1	29	87	1	128	28	30	14	26	1.95
4307706--4307795	29	3.1	29	87	1	128	27	28	13	30	1.94
4308008--4308050	16	2.7	16	96	0	77	13	16	16	53	1.73
4311088--4311306	37	5.9	37	98	0	411	25	31	19	23	1.98
4311453--4311589	50	2.8	49	86	7	215	31	27	7	34	1.84
4311453--4311641	50	3.9	50	82	12	207	29	26	8	34	1.87
4311559--4311799	47	5.1	47	90	0	356	27	29	10	32	1.90
4311511--4311799	94	3.1	94	85	3	359	27	29	10	33	1.89

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