genome.fa.s7.2.7.7.80.10.50.1000.125.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   200   201   202   203   204   

This is table  125  of  204  ( 24458 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)
38269020--38269065	8	5.8	8	84	7	58	54	34	0	10	1.36
38269020--38269067	15	3.1	15	78	6	51	54	33	0	12	1.38
38269365--38269428	28	2.3	28	83	0	74	25	0	18	56	1.42
38271045--38271109	29	2.3	28	84	5	85	47	18	7	26	1.75
38271301--38271333	17	1.9	17	88	11	50	54	6	9	30	1.56
38271439--38271480	21	2.0	21	90	9	68	33	7	11	47	1.68
38273093--38273137	23	2.0	23	86	0	63	68	0	4	26	1.08
38285910--38286017	20	5.3	20	64	12	58	33	16	32	17	1.93
38285888--38286159	41	6.7	41	88	0	377	33	16	29	20	1.94
38285892--38286157	123	2.2	123	90	0	426	33	16	29	20	1.95
38286284--38286348	16	4.1	16	95	0	112	33	6	36	23	1.80
38286328--38286417	45	2.0	44	89	6	137	32	5	28	33	1.80
38286562--38286603	15	2.7	16	82	14	52	52	2	0	45	1.13
38286571--38286612	15	2.9	15	82	10	52	52	0	0	47	1.00
38286888--38286922	18	2.0	17	88	5	52	54	0	0	45	0.99
38286796--38286983	61	3.1	61	66	14	163	48	6	2	41	1.44
38286844--38287032	59	3.2	59	67	19	165	50	4	2	42	1.35
38286768--38287043	120	2.3	120	94	0	471	50	5	2	42	1.36
38289653--38289706	27	2.0	27	100	0	108	37	22	18	22	1.95
38305715--38305754	21	1.9	21	84	0	53	67	5	15	12	1.38
38305937--38305969	4	8.5	4	86	6	50	48	0	30	21	1.50
38305939--38305975	12	3.2	12	85	7	51	43	0	32	24	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38305937--38305985	23	2.1	23	85	7	64	42	0	34	22	1.54
38305944--38305989	8	6.0	8	85	7	51	39	0	36	23	1.55
38309822--38309868	18	2.6	18	76	6	51	61	6	0	31	1.21
38320713--38320766	11	5.0	10	86	10	72	22	29	0	48	1.51
38320714--38320768	22	2.5	23	88	11	80	23	29	0	47	1.52
38322821--38322867	20	2.3	20	88	0	67	25	17	31	25	1.97
38324085--38324127	18	2.4	18	84	0	50	20	25	9	44	1.81
38327727--38328140	126	3.3	126	92	2	672	26	21	17	33	1.96
38328173--38328400	95	2.4	95	87	5	311	39	18	2	38	1.65
38328226--38328447	95	2.3	96	81	8	256	42	15	3	38	1.63
38331279--38331343	18	3.6	18	79	8	69	26	23	20	30	1.98
38335973--38336019	24	2.0	24	87	8	69	38	4	8	48	1.53
38344001--38344029	12	2.3	13	94	5	51	17	10	6	65	1.44
38358655--38358698	10	4.1	10	83	13	52	59	2	0	38	1.10
38358801--38358834	15	2.1	16	89	10	52	58	0	0	41	0.98
38360329--38360387	30	2.0	31	83	6	77	44	0	37	18	1.50
38360492--38360552	30	2.0	31	93	3	106	37	0	42	19	1.52
38360601--38360637	9	4.1	9	85	0	56	29	8	13	48	1.71
38362840--38362885	10	4.8	10	84	7	51	71	2	13	13	1.23
38362840--38362883	19	2.3	20	80	11	56	72	2	13	11	1.21
38362849--38362885	19	1.9	19	94	0	65	72	2	10	13	1.21
38362849--38362887	10	4.0	10	83	6	53	74	2	10	12	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38363301--38363346	10	4.8	10	84	7	51	71	2	13	13	1.23
38363301--38363344	19	2.3	20	80	11	56	72	2	13	11	1.21
38363310--38363346	19	1.9	19	94	0	65	72	2	10	13	1.21
38363310--38363348	10	4.0	10	83	6	53	74	2	10	12	1.17
38362631--38364029	461	3.0	460	93	2	2341	34	11	13	40	1.81
38363692--38363740	24	2.0	24	100	0	98	22	12	16	48	1.79
38369904--38369929	9	2.9	9	100	0	52	57	0	7	34	1.27
38374482--38374522	17	2.5	16	84	7	55	29	7	21	41	1.80
38388003--38388072	30	2.3	31	87	7	99	31	24	10	34	1.88
38389081--38389142	23	2.6	25	82	10	83	37	30	4	27	1.78
38394322--38394397	27	2.8	27	91	0	125	40	19	25	14	1.89
38395627--38395732	54	2.0	53	88	1	158	49	11	13	26	1.75
38395627--38395780	60	2.8	53	81	10	150	48	12	13	25	1.78
38407047--38407072	2	13.0	2	100	0	52	50	0	50	0	1.00
38414414--38414444	13	2.4	13	100	0	62	41	19	12	25	1.87
38414478--38414512	10	3.5	10	96	0	61	25	0	11	62	1.28
38414531--38414593	19	3.3	18	82	10	72	39	1	4	53	1.31
38414533--38414594	20	3.2	20	86	4	74	37	1	4	56	1.30
38415301--38415366	10	6.3	10	76	10	60	62	3	1	33	1.20
38415277--38415368	21	4.4	21	81	9	82	59	2	1	36	1.17
38415332--38415445	31	3.7	31	68	25	91	63	5	2	28	1.30
38415702--38415770	28	2.4	30	78	11	81	36	2	0	60	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38415699--38415773	29	2.6	29	85	8	100	37	2	0	60	1.11
38415884--38415979	46	2.1	46	81	13	108	28	7	0	64	1.20
38415929--38415979	18	2.8	18	75	19	52	27	5	0	66	1.14
38422548--38422586	4	9.8	4	100	0	78	25	0	23	51	1.49
38432022--38432106	42	2.0	42	93	0	143	31	25	11	30	1.92
38434287--38434337	26	2.0	26	96	0	93	37	19	9	33	1.85
38435903--38435937	15	2.2	16	90	5	54	37	0	17	45	1.48
38435909--38435958	20	2.7	18	87	12	66	38	0	12	50	1.40
38439209--38439251	2	21.5	2	90	0	68	0	2	44	53	1.13
38439313--38439353	21	1.9	22	85	5	57	39	7	26	26	1.82
38446876--38446927	12	4.2	12	72	13	52	40	1	3	53	1.30
38450373--38450562	94	2.0	94	98	0	371	28	18	17	34	1.94
38451592--38451645	27	2.0	27	96	0	99	38	11	14	35	1.82
38457829--38458030	24	8.2	25	70	16	75	34	20	25	18	1.96
38457917--38458033	24	4.9	23	70	15	85	35	20	26	17	1.95
38457838--38458031	73	2.6	74	79	10	186	35	20	25	19	1.95
38460068--38460173	54	2.0	54	90	3	169	29	17	13	39	1.88
38460258--38460403	75	1.9	76	87	1	213	36	15	19	28	1.92
38464509--38464618	54	2.0	54	92	3	186	28	18	12	40	1.87
38472893--38472923	9	3.4	9	90	0	53	25	12	22	38	1.90
38472977--38473013	9	4.1	9	92	0	65	45	13	10	29	1.77
38473498--38473570	9	8.2	9	71	18	55	35	4	0	60	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38474380--38474441	29	2.2	28	82	2	70	24	14	16	45	1.84
38476879--38476912	7	4.9	7	96	0	59	52	14	0	32	1.42
38477993--38478060	31	2.2	32	91	2	111	66	0	1	32	1.01
38478001--38478041	21	2.0	21	85	0	55	65	0	0	34	0.93
38478094--38478144	22	2.3	21	83	9	66	33	0	33	33	1.58
38478097--38478195	52	1.9	52	93	0	171	37	0	32	30	1.58
38478149--38478195	22	2.1	22	96	0	85	40	0	34	25	1.56
38478484--38478514	2	15.5	2	93	0	53	48	0	0	51	1.00
38479161--38479203	2	22.0	2	95	4	79	51	0	0	48	1.00
38479281--38479323	22	2.0	22	86	9	61	48	0	11	39	1.40
38511080--38511585	144	3.6	144	83	5	615	26	22	18	32	1.97
38511330--38511585	135	1.9	135	86	1	361	26	23	18	32	1.97
38511088--38511599	279	1.8	281	83	6	683	27	22	18	32	1.97
38522444--38522559	5	23.2	5	88	8	166	42	0	0	56	1.11
38523511--38523563	25	2.2	25	82	3	63	20	20	20	37	1.94
38523530--38523587	22	2.5	22	81	10	64	17	24	18	39	1.92
38531217--38531278	30	2.0	31	81	9	74	64	1	3	30	1.19
38531248--38531309	27	2.3	27	80	8	72	64	1	3	30	1.19
38531426--38531468	10	4.0	10	82	14	50	65	0	4	30	1.13
38531705--38531745	17	2.5	16	92	4	64	70	2	7	19	1.22
38531698--38531748	17	2.9	17	80	16	59	70	1	5	21	1.18
38531740--38531781	17	2.4	17	80	11	50	59	0	4	35	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38531753--38531794	10	4.3	10	75	6	50	54	0	2	42	1.13
38531806--38531846	19	2.2	19	86	0	55	39	4	4	51	1.45
38539204--38539332	67	1.9	67	92	3	215	27	31	17	22	1.97
38540311--38540360	2	25.5	2	95	4	93	50	0	0	50	1.00
38544491--38544515	13	1.9	13	100	0	50	80	4	0	16	0.87
38545118--38545162	22	2.0	22	87	8	65	42	0	0	57	0.98
38545118--38545162	7	6.1	7	85	14	56	42	0	0	57	0.98
38545928--38546014	17	5.5	15	67	17	50	64	1	3	31	1.17
38545915--38545971	17	3.4	17	70	4	53	70	1	3	24	1.13
38545918--38546003	42	2.0	44	82	10	108	65	1	3	30	1.17

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   200   201   202   203   204