genome.fa.s13.2.7.7.80.10.50.1000.23.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   

This is table  23  of  199  ( 23770 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)
6829261--6829316	21	2.6	22	77	8	62	55	3	1	39	1.28
6830746--6830787	4	10.8	4	85	14	61	73	0	0	26	0.83
6830755--6830800	19	2.4	20	86	13	62	73	0	2	23	0.94
6830746--6830789	19	2.5	17	80	16	54	72	0	0	27	0.85
6833010--6833048	18	2.2	17	86	13	53	33	0	20	46	1.51
6833274--6833349	23	3.3	23	98	0	143	19	21	28	30	1.97
6837892--6838146	33	7.8	33	72	4	156	24	41	3	30	1.73
6837904--6838138	66	3.6	65	79	6	244	23	42	3	30	1.71
6841330--6841358	15	1.9	15	100	0	58	31	6	27	34	1.83
6842552--6842594	16	2.7	16	81	0	50	32	4	18	44	1.71
6844538--6844596	22	2.7	21	76	5	64	49	0	0	50	1.00
6855221--6855267	16	2.9	16	84	9	51	76	4	4	14	1.09
6857616--6857653	14	2.6	15	87	8	60	65	0	0	34	0.93
6864114--6864163	16	3.1	16	77	8	57	36	2	4	58	1.29
6865866--6865910	22	2.0	22	86	0	63	53	0	0	46	1.00
6865929--6865969	13	2.9	15	79	20	52	58	0	0	41	0.98
6866002--6866059	15	3.6	15	72	17	53	50	0	3	46	1.18
6868893--6868942	14	3.5	14	79	17	50	28	8	0	64	1.22
6868859--6868985	67	1.9	67	84	9	170	31	7	0	59	1.31
6870719--6870757	2	19.5	2	100	0	78	48	0	0	51	1.00
6873969--6874016	21	2.3	21	96	0	87	50	12	8	29	1.69
6874014--6874039	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6875182--6875267	44	2.0	44	85	0	118	24	0	24	51	1.49
6879595--6879635	18	2.3	19	79	12	50	82	4	12	0	0.81
6879656--6879690	2	17.5	2	100	0	70	51	0	0	48	1.00
6882961--6883056	47	2.1	46	86	5	131	34	6	21	37	1.79
6884870--6884897	3	9.3	3	100	0	56	67	0	0	32	0.91
6888981--6889044	21	3.1	21	75	18	62	65	4	9	20	1.39
6891503--6891527	13	1.9	13	100	0	50	48	24	0	28	1.52
6893145--6893303	42	3.7	42	77	11	158	33	11	19	35	1.88
6893185--6893288	47	2.2	49	85	3	140	35	10	19	34	1.86
6899315--6899341	2	13.5	2	100	0	54	51	0	0	48	1.00
6900971--6901016	21	2.1	23	88	11	71	34	6	0	58	1.24
6901146--6901297	80	1.9	77	85	6	207	43	3	5	47	1.44
6902958--6902991	17	2.0	18	88	11	54	41	11	0	47	1.40
6904512--6904561	25	2.0	25	84	11	66	36	22	0	42	1.54
6905458--6905513	3	18.7	3	100	0	112	67	32	0	0	0.91
6905512--6905559	3	16.7	3	91	8	82	66	0	0	33	0.92
6908356--6908425	25	2.8	26	80	6	81	32	18	27	21	1.97
6908784--6908827	18	2.5	18	81	3	54	31	11	15	40	1.83
6909012--6909059	5	9.2	5	88	6	69	39	22	0	37	1.55
6910095--6910176	41	2.0	41	100	0	164	41	14	17	26	1.88
6913088--6913195	37	2.9	36	78	9	103	43	12	21	23	1.85
6915025--6915063	2	19.5	2	100	0	78	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6916644--6916684	21	2.0	21	100	0	82	53	7	4	34	1.50
6920102--6920126	5	5.0	5	100	0	50	0	20	40	40	1.52
6920881--6920906	12	2.2	12	100	0	52	15	30	23	30	1.95
6923363--6923396	2	17.0	2	100	0	68	50	0	0	50	1.00
6926677--6926736	29	2.1	29	90	0	93	48	25	11	15	1.78
6930281--6930337	26	2.1	27	87	9	82	64	3	31	0	1.10
6931932--6932166	114	2.1	115	88	4	352	27	24	21	26	1.99
6935505--6935544	2	19.5	2	94	5	71	47	2	0	50	1.14
6936837--6936935	50	2.0	50	100	0	198	44	4	6	45	1.47
6937136--6937415	35	7.8	35	69	17	191	46	18	2	32	1.64
6937157--6937222	13	5.4	13	72	16	61	48	21	0	30	1.50
6937138--6937208	9	8.2	9	73	20	62	49	21	0	29	1.50
6937276--6937346	9	8.2	9	71	20	53	50	19	1	28	1.56
6937280--6937351	16	4.8	16	66	30	50	50	19	1	29	1.56
6938639--6938707	22	3.1	22	93	0	111	30	17	26	26	1.97
6943035--6943085	21	2.4	21	86	0	66	37	17	41	3	1.68
6943115--6943156	21	2.0	21	90	0	66	35	19	38	7	1.79
6943478--6943974	84	5.8	86	77	4	416	24	21	24	29	1.99
6943478--6943975	42	11.7	42	78	7	353	24	21	24	29	1.99
6945713--6945791	36	2.2	36	95	4	142	17	20	31	30	1.96
6946628--6947416	44	17.7	44	74	5	503	30	20	17	32	1.95
6946774--6947416	89	7.2	87	74	6	293	30	20	16	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6946881--6947413	89	5.9	88	76	5	314	30	21	15	32	1.94
6947067--6947411	133	2.6	132	80	3	361	32	23	14	29	1.95
6959703--6959751	23	2.1	24	96	3	91	46	4	22	26	1.69
6962435--6962490	29	1.9	29	96	0	103	48	23	12	16	1.80
6964059--6964098	3	13.3	3	100	0	80	32	0	0	67	0.91
6971679--6971758	33	2.4	34	74	19	87	53	5	3	37	1.41
6978481--6978541	9	6.4	10	76	16	51	31	4	1	62	1.26
6978481--6978570	19	4.8	19	76	10	71	31	4	1	63	1.21
6978523--6978602	30	2.8	29	78	16	85	30	3	0	66	1.09
6985980--6986158	58	3.1	57	87	4	234	27	18	6	47	1.72
6988060--6988106	24	2.0	24	83	8	60	48	0	34	17	1.47
6993607--6993653	25	1.9	24	82	4	58	42	8	10	38	1.70
6993638--6993670	14	2.4	14	100	0	66	24	15	12	48	1.78
6994382--6994419	18	2.1	19	85	5	51	34	2	5	57	1.35
6996287--6996319	16	2.0	17	94	5	59	39	0	0	60	0.97
6996285--6996369	40	2.1	40	91	4	136	35	2	0	62	1.08
6996312--6996382	29	2.4	30	83	9	92	38	2	0	59	1.12
6996303--6996371	11	6.5	11	73	20	58	37	2	0	59	1.12
6996352--6996388	19	1.9	19	88	0	56	40	2	0	56	1.13
7002121--7002250	57	2.3	57	100	0	260	43	13	20	21	1.86
7002429--7002473	21	2.1	20	84	12	54	60	11	6	22	1.54
7005455--7005494	18	2.2	18	86	8	55	30	0	5	65	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7010280--7010341	27	2.4	27	81	10	76	35	14	0	50	1.43
7010280--7010351	27	2.7	26	77	8	74	33	16	0	50	1.46
7011072--7011126	22	2.6	21	74	23	53	12	9	18	60	1.58
7014156--7014188	2	16.5	2	100	0	66	51	0	0	48	1.00
7014206--7014402	65	3.1	65	80	12	257	63	3	6	27	1.33
7014259--7014379	57	2.1	57	93	1	206	63	2	5	28	1.30
7015876--7016354	44	10.8	44	86	2	534	30	19	16	32	1.94
7018988--7019050	25	2.6	24	77	5	72	17	28	20	33	1.95
7019157--7019239	27	3.3	26	79	11	84	20	26	20	32	1.97
7019223--7019287	24	2.7	24	87	0	103	18	29	16	35	1.93
7019135--7019305	24	7.0	24	73	15	86	19	26	18	35	1.95
7021526--7021568	21	2.0	21	95	0	77	9	20	25	44	1.81
7025870--7026053	101	1.8	102	90	3	300	22	17	27	31	1.97
7025867--7026052	51	3.7	51	82	4	225	22	17	28	31	1.97
7026058--7026150	45	2.1	45	85	0	123	29	16	20	34	1.94
7033248--7033274	2	13.5	2	100	0	54	51	0	0	48	1.00
7033313--7033414	33	3.2	30	66	12	78	61	2	5	29	1.34
7033292--7033490	65	3.0	64	83	11	256	63	2	5	29	1.29
7033351--7033460	35	3.1	35	68	19	102	60	3	3	32	1.32
7033456--7033499	19	2.2	20	88	4	63	77	0	6	15	0.97
7033337--7033507	70	2.4	70	79	15	204	64	2	5	27	1.29
7040419--7040525	41	2.6	42	94	2	182	30	20	24	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7040505--7040554	26	1.9	26	88	8	75	22	20	28	30	1.98
7040567--7040677	43	2.6	43	76	11	122	25	14	24	36	1.93
7043169--7043314	42	3.5	42	80	6	170	35	26	17	21	1.95
7043291--7043343	26	2.0	26	96	0	97	24	30	22	22	1.99
7043317--7043467	41	3.7	41	90	0	248	23	24	19	32	1.98
7050976--7051011	18	1.9	18	88	5	54	58	2	0	38	1.13
7057569--7057604	18	2.1	18	89	5	56	55	5	8	30	1.52
7060347--7060383	17	2.2	17	90	4	58	24	5	13	56	1.58
7062570--7062655	42	2.0	42	84	4	109	44	12	5	37	1.67
7077218--7077252	18	1.9	18	88	0	52	42	17	20	20	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   187   188   189   190   191   192   
          193   194   195   196   197   198   199