genome.fa.s3.2.7.7.80.10.50.1000.63.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  63  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)
18796821--18796986	40	4.2	40	85	1	199	15	15	23	45	1.85
18799250--18799322	34	2.1	34	82	2	83	34	8	16	41	1.78
18799451--18799602	43	3.5	43	77	7	139	24	17	27	30	1.97
18802748--18802829	40	2.0	40	95	0	146	20	23	35	20	1.96
18802788--18802954	50	3.4	49	79	4	156	28	23	27	20	1.99
18802832--18802954	49	2.5	50	80	4	142	32	21	25	21	1.98
18808668--18808738	36	2.0	35	86	5	99	28	5	5	60	1.42
18811291--18811354	17	3.6	17	73	19	58	29	3	15	51	1.59
18812892--18813101	102	2.1	102	95	0	375	40	14	15	28	1.87
18821890--18821931	22	1.9	22	85	0	57	42	4	23	28	1.74
18821986--18822021	6	5.7	6	87	12	54	36	0	0	63	0.94
18822322--18822347	7	3.7	7	100	0	52	11	73	0	15	1.11
18826005--18826044	20	2.0	20	100	0	80	20	0	45	35	1.51
18834447--18834485	4	9.8	4	82	0	51	20	20	2	56	1.54
18834435--18834485	8	6.4	8	80	17	52	17	21	1	58	1.48
18834435--18834484	20	2.5	20	86	0	73	16	22	2	60	1.46
18844220--18844314	45	2.1	45	84	0	118	22	23	13	41	1.89
18850513--18850563	26	2.0	26	84	3	68	58	15	3	21	1.53
18850984--18851028	23	1.9	24	86	4	65	33	24	22	20	1.97
18852045--18852090	22	2.3	18	85	14	56	58	0	28	13	1.35
18855239--18855287	11	4.6	11	74	25	52	61	2	2	34	1.19
18856982--18857041	33	1.9	33	83	10	81	41	11	6	40	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18861220--18861259	19	2.2	19	86	4	55	62	10	0	27	1.27
18864155--18864199	22	2.2	20	84	8	54	62	11	22	4	1.46
18864369--18864456	22	4.1	22	95	4	155	32	18	9	39	1.82
18865209--18865462	100	2.5	100	92	1	420	27	22	19	30	1.98
18865211--18865467	50	5.1	50	67	6	162	27	23	19	29	1.98
18865544--18865794	128	1.9	130	92	3	425	24	24	20	30	1.99
18865728--18865869	44	3.2	44	86	5	155	26	27	17	28	1.98
18865763--18865880	44	2.7	44	86	5	159	26	28	18	26	1.98
18872119--18872649	115	4.6	115	72	12	276	30	19	22	27	1.98
18875396--18875432	13	2.9	13	88	4	58	54	2	5	37	1.38
18876022--18876075	18	2.9	18	73	10	56	50	7	7	35	1.59
18876046--18876351	9	33.9	9	74	13	155	50	10	3	35	1.55
18876046--18876339	27	10.5	27	78	10	193	50	10	4	35	1.55
18876105--18876361	36	7.1	35	82	8	189	51	9	3	35	1.53
18877842--18878134	42	7.0	42	89	4	414	25	19	21	32	1.97
18878224--18878265	21	2.0	22	85	4	59	50	28	11	9	1.70
18879000--18879066	3	22.3	3	100	0	134	67	0	0	32	0.91
18879243--18879286	23	2.0	22	90	4	70	56	2	6	34	1.38
18880002--18880065	22	2.9	23	83	4	60	40	17	6	35	1.75
18880011--18880091	22	3.8	22	88	6	105	35	19	8	35	1.83
18886176--18886256	27	3.0	28	87	5	114	30	22	28	18	1.97
18886321--18886357	19	1.9	19	88	0	56	29	10	0	59	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18886544--18886614	37	1.9	37	100	0	142	49	0	11	39	1.39
18886550--18886618	19	3.7	19	82	5	97	52	0	10	37	1.36
18886694--18886771	27	2.9	28	84	5	99	19	29	23	28	1.98
18886695--18886780	27	3.2	26	83	4	93	19	26	23	30	1.98
18888309--18888357	15	3.4	14	83	5	55	16	6	8	69	1.33
18888328--18888356	15	1.9	15	100	0	58	13	6	10	68	1.37
18888458--18888505	25	2.0	25	84	12	64	31	2	8	58	1.39
18889753--18889805	23	2.3	23	83	3	70	45	3	1	49	1.31
18895128--18895612	240	2.0	239	92	0	808	37	19	14	28	1.91
18904896--18904939	14	3.3	12	84	15	52	70	0	2	27	0.99
18907926--18908651	35	19.7	35	78	7	513	37	14	21	26	1.92
18907916--18908606	38	18.7	37	76	10	478	37	15	20	26	1.92
18907907--18908601	73	9.4	77	77	8	560	37	14	21	26	1.92
18907926--18908651	225	3.3	219	80	7	729	37	14	21	26	1.92
18912944--18912994	22	2.3	22	75	0	57	33	0	3	62	1.13
18920053--18920100	24	2.0	25	83	4	62	54	10	2	33	1.46
18928113--18928156	20	2.1	21	91	4	72	22	11	6	59	1.55
18940512--18940546	2	17.5	2	93	0	61	45	0	2	51	1.16
18976335--18976639	161	1.9	159	85	2	414	32	14	17	36	1.89
18977559--18977623	31	2.1	31	91	0	103	50	10	13	24	1.74
18979148--18979189	18	2.5	17	85	11	52	26	57	0	16	1.40
18979053--18979272	88	2.5	90	81	2	239	28	46	2	23	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18980221--18980298	30	2.7	28	75	11	77	61	23	2	12	1.43
18980963--18981016	18	3.0	18	78	13	58	75	0	18	5	0.98
18983930--18983960	11	2.8	11	100	0	62	29	29	25	16	1.96
18998621--18998680	28	2.1	28	84	0	75	30	21	18	30	1.97
18999571--18999620	20	2.4	21	86	3	66	44	8	0	48	1.32
19003022--19003056	17	2.1	17	100	0	70	60	11	5	22	1.52
19006258--19006311	12	4.6	11	77	11	54	61	33	0	5	1.19
19006258--19006311	24	2.3	23	80	3	63	61	33	0	5	1.19
19009102--19009143	18	2.3	19	76	12	52	28	23	4	42	1.74
19011598--19011721	62	2.0	62	100	0	248	33	8	22	35	1.84
19013242--19013270	6	4.8	6	100	0	58	34	0	17	48	1.47
19015402--19015442	15	2.5	17	80	15	50	36	2	0	60	1.10
19016137--19016187	16	3.1	15	79	17	57	27	0	7	64	1.21
19016145--19016184	18	2.4	16	91	8	62	25	0	5	70	1.08
19025331--19025372	21	2.0	21	86	9	59	64	9	4	21	1.42
19025376--19025408	16	2.1	16	94	0	57	54	21	0	24	1.45
19025669--19025733	32	2.1	30	82	5	76	4	27	0	67	1.10
19037749--19037782	15	2.3	15	89	0	50	17	29	2	50	1.61
19039023--19039063	21	2.0	21	95	0	73	41	17	4	36	1.71
19053101--19053144	16	2.8	16	79	10	54	59	0	2	38	1.10
19053516--19053573	29	2.0	29	82	3	71	41	0	37	20	1.53
19053786--19053822	9	4.1	9	92	0	65	29	10	13	45	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19055882--19055906	11	2.3	11	100	0	50	68	16	0	16	1.22
19065849--19065992	62	2.3	63	82	8	161	50	7	11	29	1.66
19065911--19066026	60	1.9	62	84	7	157	44	12	10	32	1.75
19073065--19073108	23	1.9	23	85	0	61	2	22	2	72	1.07
19075937--19075983	24	2.0	23	84	12	60	70	2	8	19	1.24
19084987--19085112	59	2.1	59	82	0	144	50	12	9	26	1.71
19085078--19085356	88	3.3	86	82	6	318	41	13	14	30	1.84
19085324--19085395	35	2.1	35	86	5	101	43	13	20	22	1.87
19085419--19085653	87	2.7	86	81	5	267	43	12	14	28	1.82
19085464--19085655	88	2.2	87	83	2	260	42	12	14	30	1.83
19085064--19085788	293	2.5	291	88	1	1110	42	12	14	30	1.83
19085823--19086124	86	3.5	86	81	8	330	39	10	15	34	1.82
19086247--19086294	18	2.6	19	80	6	64	64	0	0	35	0.94
19087672--19087707	2	18.0	2	88	11	56	50	0	2	47	1.15
19089600--19089627	13	2.2	13	100	0	56	28	35	0	35	1.58
19094419--19094447	14	2.1	14	100	0	58	34	0	20	44	1.52
19095548--19095659	41	2.7	41	84	0	152	23	23	23	30	1.99
19099074--19099098	2	12.5	2	100	0	50	48	0	0	52	1.00
19099384--19099418	6	5.7	6	93	6	61	14	0	48	37	1.44
19099613--19099900	125	2.3	125	94	1	497	31	17	20	30	1.95
19102942--19103062	49	2.5	49	97	0	224	44	8	3	43	1.50
19103488--19103525	18	2.1	18	90	0	58	42	10	26	21	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19105339--19105384	11	4.2	11	78	18	51	43	0	32	23	1.54
19105345--19105387	10	4.0	10	82	14	50	46	0	30	23	1.52
19107619--19108121	211	2.4	204	83	7	557	27	1	14	56	1.49
19107613--19108128	102	4.9	101	81	8	536	27	1	14	56	1.49
19107555--19108128	313	1.8	311	85	6	798	27	1	14	56	1.48
19107932--19108141	111	1.9	108	88	2	312	27	1	14	56	1.49
19113886--19113946	17	3.4	17	70	12	59	31	3	14	50	1.59
19113881--19113955	37	2.0	37	100	0	150	33	5	16	45	1.69
19122427--19122469	15	3.0	15	83	10	54	51	0	0	48	1.00
19130087--19130135	18	2.7	18	78	6	55	53	0	0	46	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