genome.fa.s3.2.7.7.80.10.50.1000.42.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: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  45765648

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   

This is table  42  of  150  ( 17918 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)
11716223--11716262	20	2.0	21	85	14	57	35	10	10	45	1.71
11716298--11716378	26	3.1	26	73	7	74	19	22	23	34	1.96
11716489--11716567	28	2.8	28	96	0	149	21	26	24	27	1.99
11716748--11716772	13	1.9	13	100	0	50	24	16	0	60	1.36
11717446--11717534	25	3.3	25	66	22	72	32	23	2	41	1.67
11717433--11717546	56	2.0	56	98	0	219	34	22	4	38	1.74
11717678--11717810	51	2.6	51	81	2	160	33	27	15	24	1.95
11737606--11737701	41	2.3	41	89	0	147	45	29	3	21	1.67
11737724--11737800	40	1.9	39	87	7	111	19	1	32	46	1.58
11737742--11737802	7	9.0	7	82	7	54	22	0	31	45	1.53
11738158--11738192	2	17.5	2	100	0	70	51	0	0	48	1.00
11740929--11740959	14	2.2	14	94	0	53	38	9	6	45	1.63
11741602--11741642	18	2.3	18	86	0	55	26	41	24	7	1.81
11741608--11741635	12	2.3	12	100	0	56	25	42	25	7	1.80
11741763--11741851	33	2.7	33	82	3	108	24	43	10	21	1.83
11742131--11742227	47	2.1	47	90	3	151	49	11	6	32	1.63
11742166--11742306	62	2.3	62	93	1	239	46	7	6	39	1.57
11745308--11745718	211	1.9	209	89	5	630	39	16	9	34	1.81
11758406--11758529	60	2.1	60	87	3	178	21	15	12	50	1.77
11758734--11758789	9	6.0	9	78	14	60	19	3	3	73	1.13
11760632--11760673	17	2.4	18	84	11	61	42	0	11	45	1.41
11760622--11760674	15	3.3	17	79	12	67	37	0	13	49	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11760777--11760832	2	28.5	2	92	3	96	48	0	0	51	1.00
11760898--11761095	76	2.6	76	76	10	192	35	4	17	42	1.69
11761488--11761708	41	5.4	41	92	0	343	28	19	28	23	1.98
11761902--11761972	37	2.0	37	86	8	103	29	9	21	39	1.85
11769595--11769823	82	2.8	82	87	0	323	29	18	26	25	1.98
11769595--11769815	41	5.4	41	85	2	291	29	19	25	25	1.98
11776321--11776374	27	2.0	27	88	0	81	46	9	9	35	1.68
11787690--11787728	3	13.0	3	100	0	78	33	0	0	66	0.92
11798068--11798111	21	2.1	21	95	0	79	47	29	6	15	1.72
11801202--11801235	16	2.1	16	94	0	59	79	0	8	11	0.94
11805296--11805345	10	5.1	10	79	16	52	2	18	2	78	0.95
11805299--11805333	16	2.2	16	94	0	61	0	17	2	80	0.84
11822260--11822298	18	2.2	17	86	13	53	33	0	20	46	1.51
11822524--11822640	23	5.3	23	72	10	118	23	19	24	32	1.98
11822524--11822640	45	2.7	42	82	12	155	23	19	24	32	1.98
11825284--11825401	54	2.2	54	83	3	157	27	26	27	18	1.98
11825307--11825432	54	2.3	54	84	0	162	26	26	26	20	1.99
11837499--11837550	25	2.1	25	96	0	95	38	19	17	25	1.93
11839446--11839495	22	2.2	22	82	10	57	34	4	24	38	1.74
11841632--11841745	54	2.1	54	78	4	122	26	22	29	21	1.99
11841999--11843557	390	4.0	390	95	1	2804	31	14	20	32	1.93
11848951--11849015	33	2.0	33	81	6	78	35	6	6	52	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11849011--11849039	6	4.8	6	100	0	58	34	0	13	51	1.42
11856345--11856457	40	2.9	39	83	6	140	38	18	20	22	1.93
11856348--11856470	40	3.2	38	80	6	106	38	20	19	21	1.94
11856505--11856773	41	6.6	41	89	0	322	19	21	27	30	1.98
11857236--11857269	14	2.3	15	90	5	52	14	0	47	38	1.45
11861191--11861275	43	2.0	43	85	0	116	35	7	10	47	1.66
11861556--11861797	43	5.7	43	84	3	274	27	17	28	26	1.97
11862610--11862657	19	2.4	20	86	10	71	72	10	14	2	1.19
11885054--11885181	45	2.8	45	87	0	166	37	14	24	23	1.93
11885267--11885420	27	5.7	27	72	3	121	33	16	29	20	1.94
11891857--11892037	27	6.7	27	82	5	197	29	14	27	28	1.96
11891857--11891977	26	4.6	26	80	7	109	30	14	24	30	1.94
11891857--11892004	79	1.9	80	89	1	235	30	14	25	29	1.95
11892172--11892391	27	8.2	27	72	7	142	43	10	22	23	1.84
11892172--11892392	54	4.1	54	77	3	185	43	10	22	23	1.84
11892186--11892395	81	2.6	80	87	2	296	44	11	22	21	1.84
11896589--11896618	15	1.9	16	93	6	53	6	20	6	66	1.38
11897326--11897373	18	2.7	18	87	6	62	50	0	0	50	1.00
11898778--11898814	4	9.2	4	100	0	74	48	0	0	51	1.00
11900309--11900349	22	1.9	20	85	14	55	31	0	0	68	0.90
11900289--11900344	19	2.9	19	78	7	60	41	0	0	58	0.98
11900308--11900375	29	2.3	29	85	11	95	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11901305--11901352	24	2.0	24	100	0	96	41	12	8	37	1.73
11911435--11911521	45	1.9	45	85	0	120	39	2	13	44	1.57
11911704--11911841	21	6.6	21	71	3	80	18	23	15	42	1.89
11911706--11911826	42	2.9	42	84	0	161	19	24	15	40	1.90
11925177--11925219	20	2.2	20	100	0	86	20	13	30	34	1.92
11930672--11930702	16	1.9	16	93	0	53	48	3	0	48	1.17
11936564--11936620	11	4.9	11	77	10	51	42	3	10	43	1.56
11939648--11939716	36	1.9	36	85	5	95	30	13	24	31	1.93
11952851--11952896	24	1.9	24	91	8	76	36	0	0	63	0.95
11952963--11953132	59	2.9	59	95	0	304	44	9	5	40	1.59
11953143--11953182	16	2.5	16	91	0	62	40	7	2	50	1.44
11953052--11953176	66	2.0	66	83	13	165	47	9	3	40	1.52
11953158--11953217	22	2.8	21	89	5	84	45	1	1	51	1.21
11954432--11954476	22	2.0	22	86	0	63	33	4	4	57	1.38
11962277--11962320	24	1.9	22	86	9	61	38	31	13	15	1.87
11976353--11976508	85	1.8	85	84	5	217	31	16	24	27	1.96
11976351--11976536	28	6.6	28	75	10	130	31	16	24	27	1.97
11976545--11976629	27	3.1	27	70	6	73	34	18	22	24	1.96
11983536--11983562	14	1.9	14	100	0	54	22	7	3	66	1.33
11993011--11993082	20	3.6	20	73	14	67	59	1	2	36	1.20
11993017--11993138	40	3.1	40	86	1	174	62	1	2	33	1.18
11993011--11993086	9	7.5	10	69	19	50	57	1	2	38	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11993025--11993130	11	10.4	11	68	20	52	60	1	2	34	1.22
11993017--11993138	39	3.1	39	85	4	165	62	1	2	33	1.18
11996750--11996798	18	2.8	17	78	9	53	10	4	14	71	1.27
11998869--11999027	45	3.6	44	79	7	153	36	27	13	22	1.91
12001708--12001785	26	2.9	27	77	9	81	25	24	15	34	1.95
12001771--12001903	53	2.5	53	80	8	153	28	23	13	34	1.93
12016796--12016855	30	2.0	29	84	9	77	33	10	5	51	1.57
12019383--12019412	15	2.1	15	93	6	53	53	0	10	36	1.35
12024790--12025310	126	4.1	127	85	3	660	29	15	17	38	1.90
12024790--12025310	251	2.1	253	85	2	708	29	15	17	38	1.90
12025481--12025512	7	4.6	7	100	0	64	62	37	0	0	0.95
12025870--12026116	110	2.2	110	86	5	334	26	2	18	51	1.60
12029808--12029984	25	7.2	25	70	7	96	34	22	23	19	1.97
12029808--12029936	25	5.2	25	73	9	97	33	21	24	20	1.97
12037502--12037697	25	7.8	25	77	10	127	34	21	24	19	1.96
12037492--12037582	25	3.7	25	83	1	112	29	25	24	20	1.99
12037502--12037680	50	3.6	50	79	8	152	33	21	25	20	1.97
12037602--12037697	51	1.9	50	83	10	124	36	21	23	17	1.95
12037805--12037977	25	7.0	24	76	10	120	31	22	27	19	1.98
12037838--12037977	24	5.8	24	76	7	131	30	22	27	19	1.98
12037813--12037977	49	3.4	48	75	7	145	30	22	28	18	1.97
12038017--12038157	24	5.8	24	75	9	99	31	17	29	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12039403--12039435	16	2.0	17	88	5	50	69	6	15	9	1.34
12045876--12045917	14	2.9	15	73	20	52	66	0	19	14	1.25
12047736--12047795	25	2.3	26	80	5	68	13	10	10	66	1.44
12048165--12048267	42	2.5	42	87	3	154	23	10	35	30	1.89
12079809--12079867	31	1.9	31	89	0	91	33	10	11	44	1.75
12080091--12080116	6	4.3	6	100	0	52	69	0	30	0	0.89
12081775--12081866	40	2.3	39	82	15	109	33	16	23	26	1.95
12081855--12082182	114	2.9	113	86	2	435	25	21	27	25	2.00
12082412--12082555	73	2.0	71	90	2	225	27	21	27	24	1.99
12082451--12082685	113	2.1	114	90	0	382	25	20	28	25	1.99

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