genome.fa.s8.2.7.7.80.10.50.1000.155.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  155  of  190  ( 22705 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)
45229084--45229130	3	16.0	3	77	4	51	59	4	0	36	1.17
45229084--45229130	12	4.0	12	86	5	60	59	4	0	36	1.17
45229384--45229430	22	2.0	23	84	12	60	29	27	0	42	1.56
45229828--45229867	17	2.3	17	91	4	62	5	12	7	75	1.18
45229883--45229914	16	1.9	17	93	6	57	53	3	0	43	1.16
45229904--45229930	5	5.4	5	100	0	54	59	0	0	40	0.98
45230466--45230506	20	2.0	20	85	0	55	41	17	26	14	1.88
45240024--45240123	26	3.8	26	85	4	130	28	24	16	32	1.96
45240270--45240322	20	2.7	20	84	0	79	35	5	18	39	1.75
45241015--45241063	15	3.1	17	72	21	52	34	2	26	36	1.68
45241015--45241078	32	2.0	32	96	0	119	35	3	23	37	1.71
45241025--45241081	17	3.5	17	71	26	59	38	3	21	36	1.70
45243788--45243875	44	2.0	42	87	8	124	50	4	7	37	1.52
45251980--45252011	8	3.9	8	95	4	55	75	0	3	21	0.95
45251964--45252009	9	5.2	9	80	19	53	73	2	2	21	1.04
45251964--45252010	16	2.7	17	78	21	53	72	2	2	23	1.06
45268194--45268239	24	2.0	23	83	12	58	26	6	10	56	1.58
45274925--45274977	20	2.7	19	77	11	54	22	5	1	69	1.19
45274933--45274974	19	2.2	19	83	8	50	19	7	2	71	1.20
45275088--45275126	20	1.9	20	85	15	53	30	5	2	61	1.31
45275526--45275580	27	2.0	27	89	0	83	18	20	10	50	1.76
45283378--45283992	306	2.0	306	98	0	1194	29	21	13	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45284364--45284454	45	2.0	45	95	0	164	32	12	7	47	1.69
45308173--45308239	28	2.4	28	80	16	84	61	2	1	34	1.20
45308157--45308255	20	5.2	20	70	10	64	59	2	1	37	1.16
45310582--45310625	21	2.1	21	84	16	56	50	6	38	4	1.50
45316680--45316761	28	2.7	29	83	14	96	43	9	0	46	1.36
45320205--45320239	6	5.8	6	100	0	70	31	0	17	51	1.45
45320533--45320628	48	2.0	48	86	8	133	13	22	14	48	1.79
45321316--45321411	48	2.0	48	91	0	156	13	21	14	50	1.78
45320488--45322057	780	2.0	783	97	0	2975	31	18	16	33	1.93
45322052--45322121	30	2.3	30	82	0	77	42	25	21	10	1.84
45330573--45330607	18	1.9	18	88	0	52	28	11	2	57	1.48
45332565--45332635	22	3.2	22	91	0	106	30	25	0	43	1.55
45336380--45336620	123	1.9	125	88	5	364	32	24	14	28	1.94
45336380--45336659	123	2.3	125	83	6	363	33	24	14	27	1.94
45337105--45337133	8	3.8	8	95	4	51	0	0	10	89	0.48
45339358--45339459	52	2.0	52	90	0	159	30	11	23	34	1.91
45348447--45348597	39	3.8	40	94	2	252	35	24	20	19	1.95
45348447--45348597	79	1.9	80	91	4	252	35	24	20	19	1.95
45348570--45348613	15	2.8	16	89	6	72	31	25	27	15	1.96
45351862--45351915	27	2.0	27	82	13	67	27	5	3	62	1.34
45360476--45360540	20	3.0	22	82	10	73	53	0	0	46	1.00
45361145--45361196	20	2.5	21	79	14	63	40	0	5	53	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45361906--45361962	27	2.1	27	90	0	87	24	26	7	42	1.80
45366767--45366814	23	2.1	23	100	0	96	35	25	20	18	1.95
45375662--45375714	23	2.3	23	93	0	97	32	26	20	20	1.98
45375940--45375978	18	2.2	17	86	13	53	46	20	0	33	1.51
45380709--45380773	27	2.4	27	86	0	94	29	23	30	16	1.96
45380884--45380943	17	3.6	18	75	18	58	70	0	30	0	0.88
45380896--45380935	14	2.9	13	85	10	53	65	0	35	0	0.93
45381088--45381457	19	19.2	19	65	27	92	31	1	13	53	1.47
45381090--45381156	22	3.2	22	85	10	95	26	1	10	61	1.37
45381045--45381231	102	1.8	102	87	4	279	30	1	12	55	1.44
45381191--45381409	27	8.8	26	73	20	186	32	0	13	52	1.47
45381271--45381435	8	19.4	8	67	18	75	32	1	15	50	1.52
45381214--45381456	74	3.3	74	80	8	253	32	1	14	51	1.50
45381262--45381457	101	1.9	101	98	0	383	31	1	15	52	1.50
45384876--45384917	21	2.0	22	90	4	68	0	28	2	69	1.01
45384878--45384927	18	2.6	18	84	9	55	2	28	2	68	1.12
45385006--45385067	27	2.3	27	82	0	88	27	37	20	14	1.92
45386741--45386773	17	1.9	17	88	11	50	48	0	0	51	1.00
45389388--45389436	21	2.3	21	85	0	62	57	4	2	36	1.30
45392128--45392222	39	2.4	39	96	0	172	4	20	38	36	1.72
45392182--45392273	24	3.7	24	78	8	94	6	18	42	32	1.76
45400547--45400735	39	4.8	38	70	15	118	33	4	12	49	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45402126--45402161	2	18.0	2	100	0	72	50	0	0	50	1.00
45403090--45403254	43	3.9	42	77	16	171	21	17	29	31	1.96
45403099--45403254	84	1.9	84	85	8	219	22	17	29	30	1.97
45406813--45406889	33	2.4	31	81	16	93	32	28	11	27	1.92
45406834--45406897	33	1.9	33	96	0	119	35	26	9	28	1.87
45407111--45407288	82	2.2	83	81	7	229	20	28	22	29	1.98
45407117--45407290	41	4.2	41	85	2	206	20	28	22	28	1.99
45412332--45413165	155	5.4	154	82	7	1023	30	10	6	51	1.63
45412332--45413165	308	2.7	308	89	3	1304	30	10	6	51	1.63
45413769--45413831	10	5.8	10	74	22	56	63	0	34	1	1.04
45413772--45413857	20	4.3	20	82	8	97	66	0	32	1	1.00
45413805--45413860	24	2.4	24	82	8	62	67	0	32	0	0.91
45414178--45415509	155	8.6	153	83	7	1652	52	7	10	29	1.63
45414201--45415506	469	2.8	463	86	6	1769	51	7	10	29	1.64
45416303--45416350	8	6.1	8	75	4	53	47	22	2	27	1.62
45419128--45419337	76	2.7	77	75	12	207	50	11	3	34	1.56
45419201--45419247	23	2.0	23	84	8	60	59	14	2	23	1.46
45419917--45419970	12	4.6	12	76	4	56	70	12	5	11	1.32
45419917--45419967	24	2.2	23	92	3	84	72	11	3	11	1.25
45422326--45422351	10	2.6	10	100	0	52	23	0	0	76	0.78
45422392--45422416	9	2.8	9	100	0	50	60	0	0	40	0.97
45422475--45422564	23	4.0	22	71	16	60	52	2	0	45	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45430942--45430970	14	2.0	15	93	6	51	62	0	3	34	1.12
45436710--45436752	22	2.0	22	90	0	68	4	6	18	69	1.29
45436893--45436930	11	3.5	11	85	3	51	76	0	0	23	0.79
45438125--45438218	44	2.1	44	92	0	152	30	9	19	40	1.83
45440369--45440450	43	1.9	43	87	9	123	32	29	18	19	1.95
45440615--45440649	2	17.0	2	94	5	61	48	2	0	48	1.16
45446277--45446331	29	2.0	27	83	13	69	25	10	5	58	1.53
45457418--45457455	2	19.0	2	100	0	76	50	0	0	50	1.00
45458805--45458917	30	3.4	30	71	23	91	34	2	0	62	1.09
45458804--45458882	41	2.0	40	92	2	131	35	3	0	60	1.15
45458861--45458898	19	2.1	17	90	9	58	28	2	0	68	1.03
45458798--45458935	41	3.5	39	77	17	115	33	2	0	63	1.11
45471814--45471870	25	2.3	25	84	0	69	40	12	5	42	1.65
45472134--45472202	23	3.0	23	87	4	95	31	20	27	20	1.97
45476668--45476751	11	7.6	11	78	2	80	23	27	1	47	1.59
45476671--45476765	22	4.3	22	83	12	115	26	25	1	47	1.59
45476667--45476765	11	8.9	11	71	20	73	25	26	1	47	1.59
45476727--45476824	51	1.9	51	81	8	119	28	22	3	45	1.67
45483047--45483087	20	2.0	20	85	0	55	29	9	9	51	1.67
45493010--45493057	24	2.0	25	83	4	62	68	6	6	18	1.32
45493743--45493803	24	2.4	25	81	13	63	65	4	3	26	1.28
45495382--45495430	26	1.9	25	88	12	73	42	6	0	51	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45495403--45495465	20	3.2	20	71	13	58	41	4	0	53	1.22
45495697--45495731	19	1.9	18	88	11	54	51	2	0	45	1.16
45495701--45495739	18	2.2	18	86	9	53	51	2	0	46	1.14
45498420--45498451	16	2.0	16	100	0	64	50	6	31	12	1.65
45501876--45501912	17	2.1	19	85	10	51	67	2	8	21	1.29
45501943--45501980	19	2.1	19	85	5	51	57	15	2	23	1.51
45508221--45508245	2	12.5	2	100	0	50	48	0	0	52	1.00
45512798--45512841	23	1.9	23	86	9	63	36	2	0	61	1.09
45512815--45512852	18	2.2	18	86	9	53	44	0	2	52	1.14
45513104--45513148	2	22.5	2	100	0	90	48	0	0	51	1.00

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