genome.fa.s7.2.7.7.80.10.50.1000.100.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  100  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)
30439690--30439751	32	1.9	32	93	0	106	30	25	9	33	1.88
30445853--30445890	6	6.2	6	82	17	51	76	0	5	18	0.97
30446172--30446213	21	2.0	21	95	0	75	21	19	26	33	1.97
30448497--30448685	51	3.7	50	82	5	229	29	25	16	29	1.97
30462570--30462611	20	2.1	20	95	0	75	47	11	23	16	1.80
30463868--30463908	5	8.6	5	78	10	50	2	39	0	58	1.11
30464579--30464911	27	12.3	28	83	5	341	42	20	16	20	1.89
30465113--30465204	26	3.5	26	87	0	130	17	19	27	35	1.94
30465320--30465461	30	4.8	30	80	3	128	23	26	21	29	1.99
30465322--30465466	60	2.5	58	83	6	175	22	26	22	28	1.99
30467776--30467895	21	5.8	21	67	9	77	20	12	35	31	1.90
30467783--30467905	61	2.0	61	100	0	246	21	13	30	34	1.91
30470563--30470614	24	2.2	24	89	0	77	38	3	5	51	1.44
30475470--30475523	24	2.2	24	83	6	65	38	3	7	50	1.48
30475928--30475983	16	3.4	16	78	7	51	23	8	0	67	1.18
30476333--30476357	7	3.6	7	100	0	50	40	0	0	60	0.97
30488364--30488415	23	2.3	23	78	18	56	65	5	7	21	1.40
30489903--30489979	34	2.3	35	80	11	88	27	11	15	45	1.81
30497758--30497799	21	2.0	21	86	4	59	54	2	11	30	1.49
30499329--30499459	68	1.9	68	96	0	244	29	7	27	35	1.85
30505142--30505176	18	1.9	18	88	0	52	42	11	17	28	1.83
30521374--30521406	6	5.7	6	89	7	50	66	0	3	30	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30525673--30525716	21	2.2	20	88	12	63	79	4	0	15	0.89
30525673--30525716	10	4.3	10	86	13	63	79	4	0	15	0.89
30531384--30531417	6	5.5	6	96	3	59	0	14	2	82	0.79
30531517--30531570	26	2.1	26	82	0	63	27	22	11	38	1.88
30532011--30532061	21	2.4	21	83	3	66	68	1	0	29	1.00
30532143--30532183	18	2.3	18	86	0	55	53	4	0	41	1.22
30532531--30532582	16	3.2	16	73	10	52	50	7	5	36	1.55
30532531--30532602	32	2.2	33	82	7	85	51	6	5	36	1.52
30532578--30532650	33	2.2	32	82	2	92	53	10	6	28	1.61
30547181--30547222	20	2.2	18	87	8	57	47	0	9	42	1.36
30548256--30548387	22	6.0	22	81	3	115	17	25	18	39	1.92
30549994--30550037	23	2.0	22	86	13	63	56	0	4	38	1.20
30551133--30551158	9	2.9	9	100	0	52	57	0	0	42	0.98
30551209--30551294	18	4.7	18	70	24	56	46	0	0	53	1.00
30551276--30551317	13	2.9	14	80	13	50	54	0	0	45	0.99
30551280--30551316	16	2.3	16	86	13	58	59	0	0	40	0.97
30551719--30551745	14	1.9	14	100	0	54	33	22	7	37	1.82
30551720--30551754	14	2.5	14	90	0	52	28	25	8	37	1.85
30552530--30552587	25	2.2	27	87	6	84	55	1	1	41	1.20
30552671--30552717	10	5.0	9	78	19	51	46	0	2	51	1.13
30552725--30552749	9	2.8	9	100	0	50	72	8	0	20	1.10
30553385--30553429	18	2.4	18	88	3	63	33	0	2	64	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30553417--30553456	20	2.1	20	86	9	57	37	2	2	57	1.26
30553389--30553447	28	2.1	28	81	12	68	33	0	3	62	1.12
30553573--30553605	10	3.7	9	88	11	50	27	3	0	69	1.03
30553893--30553960	31	2.3	30	73	16	70	45	14	16	23	1.84
30554468--30554522	29	2.0	29	85	7	78	38	3	5	52	1.42
30557257--30557300	19	2.5	17	85	7	52	50	13	0	36	1.42
30561025--30561228	90	2.3	88	78	2	221	42	11	14	31	1.81
30561926--30561960	14	2.4	14	85	4	52	42	0	2	54	1.15
30561162--30562622	697	2.1	694	88	2	2169	42	13	15	28	1.85
30572541--30572581	20	2.0	20	100	0	82	41	4	14	39	1.67
30572703--30572754	18	3.1	17	84	10	63	32	11	5	50	1.62
30574116--30574148	15	2.3	15	89	5	50	48	0	0	51	1.00
30572864--30575096	694	3.2	694	89	2	3324	42	12	15	28	1.84
30574810--30574844	15	2.3	15	85	0	52	45	0	0	54	0.99
30579286--30579360	28	2.5	30	81	12	93	41	0	4	54	1.19
30580454--30580487	2	17.0	2	100	0	68	50	0	0	50	1.00
30586894--30586949	25	2.2	25	100	0	112	44	7	3	44	1.48
30591027--30591220	92	2.1	92	88	3	284	44	4	4	46	1.43
30591251--30591666	120	3.5	120	95	1	735	42	2	4	49	1.38
30591496--30591547	15	3.6	15	80	12	56	44	0	0	55	0.99
30591388--30591547	30	5.3	30	65	19	84	43	2	3	50	1.33
30591625--30591666	15	2.7	16	82	14	52	45	0	2	52	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30591616--30591657	15	2.9	15	82	10	52	47	0	0	52	1.00
30591880--30591917	16	2.4	16	90	0	58	34	34	0	31	1.58
30597468--30597497	15	2.1	15	93	6	53	23	40	6	30	1.80
30605664--30605705	17	2.4	17	81	14	50	54	0	0	45	0.99
30608465--30608514	18	2.8	18	81	3	57	56	2	0	42	1.11
30609418--30609464	24	2.0	23	91	4	76	29	0	8	61	1.25
30609423--30609472	24	2.1	24	85	7	66	34	2	8	56	1.40
30620574--30620637	30	2.1	30	91	0	101	25	23	14	37	1.92
30625206--30625237	16	2.0	16	93	0	55	25	15	0	59	1.36
30625460--30625604	51	2.8	51	84	8	213	31	29	17	21	1.96
30626752--30626884	70	1.9	70	84	6	180	29	22	18	29	1.98
30634304--30634360	17	2.8	22	67	25	61	45	19	5	29	1.72
30650150--30650255	50	2.1	50	82	3	124	26	19	32	21	1.97
30651188--30651226	21	1.9	20	84	5	51	58	2	2	35	1.25
30669699--30669885	51	3.7	49	77	9	189	29	26	16	27	1.96
30677829--30677998	86	2.0	86	89	2	261	24	22	23	29	1.99
30679014--30679045	9	3.4	9	95	4	55	15	12	9	62	1.54
30684507--30684562	29	1.9	29	85	7	78	32	5	10	51	1.59
30686666--30686696	11	2.7	11	95	5	53	64	12	12	9	1.50
30692213--30692324	54	2.1	54	85	6	147	30	22	24	23	1.99
30695735--30695764	3	10.0	3	92	0	51	63	0	3	33	1.11
30697120--30697641	44	11.9	44	87	3	633	25	24	20	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30712393--30712437	19	2.3	20	85	14	67	26	13	11	48	1.75
30716405--30716435	16	1.9	16	93	0	53	41	6	22	29	1.78
30717074--30717109	12	2.8	14	84	16	51	33	0	2	63	1.08
30717584--30717614	9	3.4	9	90	0	53	25	12	22	38	1.90
30717668--30717704	9	4.1	9	92	0	65	45	13	10	29	1.77
30718890--30718946	9	6.7	9	76	9	57	43	1	12	42	1.52
30718892--30718923	16	2.0	16	93	0	55	40	0	12	46	1.42
30721651--30721676	5	5.2	5	100	0	52	42	19	19	19	1.90
30721766--30721791	5	5.2	5	100	0	52	38	19	19	23	1.93
30724978--30725065	46	1.9	46	88	0	131	31	21	28	18	1.97
30729884--30729912	12	2.3	13	94	5	51	62	0	0	37	0.96
30729863--30729993	37	3.5	37	87	8	171	59	0	1	38	1.07
30732885--30732917	2	16.5	2	100	0	66	48	0	0	51	1.00
30733797--30733878	9	8.9	9	74	15	53	56	1	1	41	1.15
30733806--30733917	21	5.6	21	67	23	62	56	1	0	41	1.16
30733803--30733877	19	3.9	20	71	18	61	56	1	1	41	1.16
30733849--30733984	30	4.6	29	74	16	93	58	3	0	37	1.21
30733903--30733958	20	2.8	20	73	10	51	62	7	0	30	1.22
30733910--30733958	10	4.9	10	75	9	55	63	8	0	28	1.23
30733845--30733966	21	6.1	20	68	18	58	59	4	0	36	1.19
30734486--30734610	10	13.0	9	78	12	117	33	0	3	62	1.17
30734486--30734614	19	6.7	19	76	16	122	32	0	3	62	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30740236--30740399	48	3.4	48	93	0	274	26	19	15	39	1.91
30743639--30743689	25	2.0	25	85	7	68	45	3	0	50	1.20
30743700--30743734	16	2.2	16	94	0	61	54	2	0	42	1.15
30743713--30743756	22	2.0	22	90	0	70	59	0	0	40	0.98
30743708--30743764	25	2.5	22	75	11	53	57	0	0	42	0.98
30743700--30743763	16	3.6	16	74	22	56	56	1	0	42	1.09
30743835--30743905	15	4.6	15	74	16	65	50	1	0	47	1.09
30744363--30744401	14	2.8	14	88	0	51	30	17	10	41	1.83
30762138--30762208	36	2.0	36	91	0	115	26	11	14	47	1.77
30762137--30762193	19	3.1	19	71	19	66	28	12	14	45	1.80

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