genome.fa.s10.2.7.7.80.10.50.1000.119.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_chr6
Parameters: 2 7 7 80 10 50 1000
Length:  56482370

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   

This is table  119  of  172  ( 20562 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)
39630575--39630631	28	2.0	29	83	10	73	35	1	1	61	1.17
39630624--39630669	20	2.2	21	84	3	67	41	4	6	47	1.49
39633421--39633489	29	2.3	30	85	5	95	37	8	11	42	1.72
39641498--39641535	20	1.9	20	94	0	67	44	2	0	52	1.14
39641505--39641544	20	2.0	20	85	0	53	52	0	0	47	1.00
39643109--39643151	17	2.5	17	100	0	86	41	18	9	30	1.82
39643259--39643541	18	15.3	18	72	11	169	36	15	12	34	1.86
39643246--39643332	36	2.4	36	80	1	95	39	16	9	35	1.80
39643338--39643541	54	3.8	55	77	6	202	36	15	12	34	1.86
39643340--39643541	72	2.8	71	81	3	226	37	15	12	34	1.85
39643576--39644087	256	2.0	256	94	0	898	37	25	19	17	1.93
39645409--39645471	31	2.0	32	84	9	85	49	4	0	46	1.23
39645527--39645761	119	2.0	119	97	0	443	40	10	2	46	1.53
39654994--39655085	40	2.3	40	83	3	107	14	11	36	36	1.83
39658001--39658174	46	3.7	46	78	6	181	27	19	29	24	1.98
39658002--39658210	46	4.5	46	76	14	173	27	18	29	24	1.98
39662271--39662406	46	3.0	46	87	2	184	22	22	13	41	1.89
39668678--39668896	46	4.7	46	79	13	232	26	19	30	22	1.98
39675112--39675144	3	11.0	3	100	0	66	66	0	0	33	0.92
39675325--39675373	26	1.9	25	83	4	62	42	2	4	51	1.32
39681356--39681422	25	2.7	25	76	0	71	31	13	26	28	1.94
39681417--39681493	24	3.2	24	73	12	68	35	19	24	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39681525--39681593	25	2.7	26	82	6	88	36	24	23	15	1.94
39684837--39685080	122	2.0	122	97	0	461	36	15	12	35	1.86
39685789--39685984	56	3.5	57	85	1	234	51	15	6	27	1.67
39685826--39685991	57	2.9	57	89	1	235	50	16	6	27	1.68
39688297--39688496	63	3.2	63	82	4	192	28	25	24	22	1.99
39688384--39688500	62	1.9	62	91	3	191	30	29	21	18	1.97
39692557--39692600	21	2.1	21	91	0	70	72	0	20	6	1.07
39705715--39705750	14	2.6	14	86	0	54	36	5	25	33	1.79
39706925--39706959	17	2.1	17	88	0	52	51	8	2	37	1.47
39709272--39709310	16	2.4	16	83	8	53	56	0	0	43	0.99
39709764--39709834	37	1.9	37	97	0	133	42	9	29	18	1.82
39720189--39720302	43	2.6	44	77	4	124	27	15	25	31	1.96
39726653--39726700	11	4.4	10	82	15	51	77	0	6	16	0.97
39726653--39726700	6	8.8	5	86	8	51	77	0	6	16	0.97
39726664--39726702	6	6.8	6	94	5	55	79	0	2	17	0.84
39726664--39726711	12	4.2	12	86	7	64	77	0	4	18	0.93
39726642--39726700	22	2.6	22	83	2	73	76	1	6	15	1.07
39727997--39728035	17	2.1	20	86	13	57	53	10	2	33	1.48
39734066--39734120	28	1.9	28	85	10	76	34	5	1	58	1.32
39734103--39734143	16	2.7	15	88	7	64	29	0	7	63	1.21
39745249--39745413	86	1.9	86	91	2	269	20	32	26	20	1.97
39747745--39747879	60	2.3	57	82	5	153	45	0	3	49	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39748050--39748104	16	3.4	16	78	9	67	29	23	9	38	1.85
39748437--39748462	13	2.0	13	100	0	52	61	0	15	23	1.33
39748430--39748474	15	3.1	15	84	12	67	60	0	11	28	1.31
39753392--39753904	256	2.0	256	93	0	884	22	12	27	37	1.90
39754121--39754423	89	3.4	88	76	11	247	29	21	18	31	1.97
39754354--39754608	95	2.8	95	77	9	235	26	18	20	33	1.96
39754115--39754606	44	10.9	43	72	11	188	27	19	19	33	1.96
39760771--39760802	16	2.1	16	94	5	57	56	9	6	28	1.55
39761469--39761524	26	2.2	25	78	9	58	58	0	10	30	1.32
39761564--39761642	3	26.7	3	79	12	83	69	2	3	24	1.17
39767071--39767117	23	2.0	23	100	0	94	31	29	12	25	1.93
39768980--39769023	3	14.7	3	85	0	61	63	4	2	29	1.26
39775376--39775419	10	4.4	10	82	0	61	25	9	0	65	1.21
39775382--39775430	20	2.5	20	80	6	55	26	6	2	65	1.27
39776528--39776578	25	2.0	25	96	0	93	23	7	29	39	1.83
39776884--39776936	24	2.2	24	86	0	70	37	3	7	50	1.49
39779133--39779244	42	2.7	42	87	5	156	16	32	28	22	1.96
39786526--39786638	25	4.6	25	80	1	111	23	29	16	30	1.97
39790040--39790109	36	1.9	36	100	0	140	28	11	10	50	1.71
39792995--39793095	23	4.5	22	77	16	91	19	26	17	35	1.95
39792995--39793095	45	2.2	45	82	5	114	19	26	17	35	1.95
39793049--39793090	22	1.9	22	90	0	66	21	28	16	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39793272--39793317	9	5.3	9	78	19	53	41	8	13	36	1.75
39797674--39797759	40	2.2	39	87	2	118	29	29	17	24	1.97
39803934--39804000	22	2.8	24	78	15	77	19	25	19	35	1.95
39808323--39808354	16	2.0	16	100	0	64	18	6	0	75	1.01
39811157--39811204	17	2.9	17	81	12	64	45	0	0	54	0.99
39811476--39811506	11	2.8	11	95	0	53	38	0	0	61	0.96
39812623--39812657	3	11.7	3	100	0	70	31	0	0	68	0.90
39814069--39814175	8	12.8	8	71	16	58	28	2	1	66	1.16
39814060--39814130	33	2.2	33	97	0	133	32	5	1	60	1.29
39814069--39814154	12	7.2	12	68	26	51	31	3	1	63	1.18
39814103--39814174	26	2.9	25	76	17	69	26	2	1	69	1.10
39814115--39814172	13	4.4	13	81	14	57	22	3	1	72	1.09
39814073--39814154	33	2.6	32	86	11	107	30	3	1	64	1.18
39814115--39814172	4	13.2	4	77	13	53	22	3	1	72	1.09
39816497--39816608	35	3.2	34	70	11	84	20	9	30	39	1.85
39818098--39818151	23	2.3	23	90	0	90	24	12	24	38	1.90
39819571--39819639	22	3.2	22	72	14	54	69	5	7	17	1.32
39819608--39819686	3	26.0	3	75	16	74	65	3	1	29	1.17
39819649--39819704	28	2.0	28	82	6	69	57	1	8	32	1.40
39819817--39819955	3	45.7	3	70	18	58	59	0	7	31	1.31
39819761--39819858	23	4.3	22	67	14	65	57	3	9	30	1.45
39820857--39820916	23	2.5	24	78	5	68	26	15	46	11	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39821342--39821997	44	14.7	43	69	13	193	27	22	18	30	1.97
39821609--39822007	45	8.9	45	71	10	237	28	22	18	30	1.97
39821792--39822052	45	5.8	45	78	10	117	29	24	16	29	1.97
39822005--39822574	177	3.2	177	77	4	560	26	25	18	29	1.98
39822219--39822304	44	2.0	44	81	9	104	30	25	11	32	1.91
39822516--39822941	44	9.8	44	72	7	260	25	23	21	28	1.99
39822516--39822941	130	3.3	130	88	3	604	25	23	21	28	1.99
39822632--39822833	86	2.3	86	81	9	223	25	24	21	28	1.99
39824628--39824666	20	2.0	20	89	0	60	5	10	5	79	1.04
39831105--39831171	19	3.7	18	72	16	59	67	0	4	28	1.10
39831147--39831257	55	1.9	58	85	7	156	59	3	5	31	1.37
39832723--39832791	22	3.2	22	72	14	54	69	5	7	17	1.32
39832760--39832864	3	35.0	3	70	17	67	62	2	3	30	1.27
39832741--39832791	25	2.2	25	82	10	63	70	3	5	19	1.24
39832739--39832800	30	2.1	29	82	11	72	69	4	4	20	1.26
39832804--39832882	28	2.8	28	79	9	72	56	1	7	34	1.35
39833106--39833166	3	20.3	3	80	12	72	65	0	1	32	1.02
39833108--39833166	21	2.8	21	94	0	100	66	0	1	32	1.02
39845760--39845798	20	2.0	20	85	10	53	46	0	5	48	1.24
39848440--39848585	56	2.6	56	78	11	147	39	13	3	43	1.60
39849234--39849262	14	2.0	15	93	6	51	34	3	0	62	1.12
39849266--39849304	17	2.3	17	86	8	53	33	2	5	58	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39853857--39853899	19	2.3	19	80	8	52	37	9	2	51	1.47
39858541--39858612	37	1.9	37	100	0	144	20	22	25	31	1.98
39861213--39861273	20	3.2	20	75	17	76	34	16	14	34	1.89
39861615--39861725	51	2.2	52	85	4	145	47	14	1	36	1.55
39861942--39862030	39	2.3	39	80	7	101	46	2	0	51	1.13
39862101--39862142	14	3.0	15	83	13	54	59	0	0	40	0.97
39862169--39862230	15	3.8	15	74	17	61	50	0	1	48	1.10
39862689--39862727	14	2.8	14	92	0	60	33	17	7	41	1.79
39867399--39867464	29	2.2	30	78	2	71	34	4	15	45	1.66
39869219--39869249	16	1.9	16	100	0	62	12	25	12	48	1.77

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