genome.fa.s3.2.7.7.80.10.50.1000.120.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  120  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)
36964441--36964486	15	3.1	15	75	18	51	60	2	0	36	1.09
36971900--36971959	24	2.4	25	88	2	86	38	8	0	53	1.31
36971907--36971960	25	2.2	25	86	6	74	40	7	0	51	1.30
36971969--36972007	10	3.9	10	86	10	53	51	12	25	10	1.71
36972084--36972221	4	35.0	4	75	18	87	68	0	30	0	0.94
36972127--36972254	10	12.6	10	70	14	66	71	0	28	0	0.92
36972127--36972221	33	2.7	35	82	9	131	71	0	27	1	0.93
36972169--36972267	3	35.0	3	70	15	52	67	0	32	0	0.91
36972083--36972265	70	2.5	73	81	14	200	67	0	31	0	0.95
36972084--36972265	75	2.5	70	81	12	181	68	0	31	0	0.94
36972336--36972430	29	3.5	27	72	17	81	30	6	11	51	1.63
36972339--36972430	26	3.4	26	71	18	73	30	6	10	52	1.62
36972700--36973101	216	1.9	211	88	5	603	52	7	12	27	1.67
36976315--36976349	18	1.9	18	100	0	70	22	40	2	34	1.69
36977206--36977232	13	2.1	13	100	0	54	70	0	0	29	0.88
36977450--36977523	27	2.7	27	95	0	130	17	28	31	22	1.97
36982372--36982401	2	15.0	2	100	0	60	50	0	0	50	1.00
36984444--36984480	11	3.4	11	88	0	56	21	8	40	29	1.82
36985047--36985122	38	2.0	38	97	0	143	50	9	2	38	1.49
36989718--36989763	19	2.5	19	82	10	51	34	19	2	43	1.63
36992110--36992143	14	2.4	14	90	9	52	35	26	0	38	1.57
36992215--36992247	17	1.9	18	88	11	52	42	9	0	48	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36992199--36992247	16	3.1	17	80	13	52	46	6	0	46	1.27
37000089--37000867	139	5.6	139	74	7	350	26	18	22	32	1.97
37000089--37000867	70	11.1	70	74	6	392	26	18	22	32	1.97
37000201--37000519	141	2.3	139	81	3	352	26	20	22	30	1.98
37004944--37005263	169	1.9	169	92	0	541	26	17	16	39	1.90
37006149--37006222	16	4.7	15	75	11	58	32	13	1	52	1.49
37014784--37014860	36	2.1	36	100	0	154	32	10	19	37	1.86
37018011--37018055	13	3.4	13	82	14	56	26	0	2	71	0.98
37019530--37019570	14	2.9	14	85	0	55	26	34	17	21	1.95
37019574--37019621	21	2.3	21	78	7	53	29	33	14	22	1.94
37019670--37019733	14	4.5	14	74	3	56	20	21	34	23	1.97
37019692--37019751	28	2.2	27	87	3	84	20	15	33	31	1.93
37020910--37021226	43	7.4	43	87	0	427	25	30	17	25	1.97
37021425--37021462	19	2.0	19	94	0	67	57	2	10	28	1.45
37027165--37027674	9	60.4	9	67	17	215	31	2	19	46	1.62
37027195--37027683	34	14.8	34	70	16	196	31	2	20	46	1.64
37027148--37027224	25	3.3	25	69	23	76	35	3	15	45	1.65
37027165--37027674	16	29.8	16	66	17	174	31	2	19	46	1.62
37027165--37027335	68	2.5	68	77	9	202	30	2	19	46	1.63
37027397--37027487	25	3.6	25	78	10	80	26	1	21	50	1.56
37027441--37027507	25	2.7	25	85	0	80	26	2	22	47	1.65
37027409--37027496	41	2.1	41	83	4	106	28	1	23	46	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37027552--37027628	8	9.5	8	73	21	54	31	1	11	55	1.44
37027552--37027628	15	5.3	14	73	18	52	31	1	11	55	1.44
37027586--37027641	19	3.3	19	63	31	54	33	0	12	53	1.39
37027574--37027648	31	2.4	31	97	0	141	34	0	12	53	1.38
37027720--37027819	45	2.2	45	94	1	173	49	7	4	40	1.49
37027785--37027812	13	2.2	13	100	0	56	46	7	7	39	1.59
37027753--37027830	17	4.9	17	76	17	96	51	6	5	37	1.50
37027756--37027843	17	5.5	17	73	17	64	52	6	6	34	1.55
37028109--37028148	21	1.9	21	94	0	71	20	15	25	40	1.90
37030550--37030588	7	5.6	7	87	0	60	25	53	0	20	1.45
37030693--37030732	21	2.0	20	85	5	53	32	42	0	25	1.55
37030735--37030880	74	1.9	76	85	8	201	44	23	3	28	1.69
37030814--37031081	134	2.0	134	97	0	500	40	31	3	24	1.73
37031091--37031123	15	2.3	15	89	5	50	36	30	0	33	1.58
37031407--37031452	20	2.4	19	89	7	67	67	4	2	26	1.21
37031455--37031737	41	6.9	41	84	1	316	32	25	17	24	1.97
37031772--37031907	40	3.4	40	79	8	143	20	21	22	36	1.96
37031974--37032017	21	2.1	21	86	0	61	13	15	27	43	1.85
37032087--37032264	43	4.2	43	91	2	288	28	30	19	21	1.97
37032087--37032271	85	2.2	87	90	4	297	28	29	19	22	1.98
37034222--37034282	2	30.5	2	100	0	122	50	0	0	49	1.00
37035730--37035771	21	2.0	21	85	0	57	0	26	2	71	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37035823--37035873	3	17.0	3	100	0	102	66	0	0	33	0.92
37039045--37039123	34	2.3	34	80	6	88	30	18	21	29	1.97
37039569--37039693	27	4.7	26	81	5	135	20	18	21	39	1.93
37039582--37039693	54	2.1	54	89	3	172	19	18	20	41	1.91
37040079--37040118	15	2.7	15	100	0	80	20	30	15	35	1.93
37044817--37044855	2	19.5	2	100	0	78	48	0	0	51	1.00
37048354--37048399	18	2.6	18	100	0	92	43	0	34	21	1.53
37050349--37050378	12	2.4	13	94	5	53	0	36	3	60	1.14
37050623--37050680	5	11.6	5	82	14	57	60	5	0	34	1.19
37050623--37050690	10	6.9	10	76	15	61	60	7	0	32	1.24
37050618--37050692	20	3.9	19	77	14	73	61	6	0	32	1.22
37057824--37057871	5	9.6	5	82	8	62	62	2	0	35	1.07
37058694--37058733	20	2.0	20	100	0	80	45	15	20	20	1.86
37060953--37060990	19	2.0	19	100	0	76	26	10	31	31	1.90
37064004--37064029	2	13.0	2	100	0	52	50	0	0	50	1.00
37068914--37068973	22	2.6	22	75	12	50	76	3	13	6	1.11
37070731--37070847	22	5.6	22	78	11	129	41	30	17	10	1.83
37070710--37070867	60	2.6	60	86	0	217	39	30	18	12	1.87
37076766--37076832	33	2.0	33	100	0	134	26	32	11	28	1.92
37078911--37078961	25	2.0	25	100	0	102	19	27	19	33	1.96
37087089--37087150	28	2.2	28	82	5	72	62	4	1	30	1.25
37093998--37094028	9	3.4	9	90	0	53	25	12	22	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37094082--37094118	9	4.1	9	85	0	56	45	10	10	32	1.74
37096799--37096823	5	5.0	5	100	0	50	80	0	0	20	0.72
37098994--37099040	23	2.0	23	84	8	60	61	4	2	31	1.27
37106696--37106726	14	2.1	15	94	5	55	32	6	6	54	1.51
37108398--37108435	12	3.2	12	100	0	76	28	15	7	47	1.74
37115370--37115421	13	4.1	13	77	5	61	42	26	1	28	1.66
37123577--37123608	14	2.3	14	94	0	55	28	0	0	71	0.86
37131515--37131550	10	3.6	10	100	0	72	19	22	36	22	1.95
37135743--37136329	46	13.6	45	86	9	759	34	14	21	28	1.93
37135779--37135967	36	5.0	36	82	13	220	37	13	20	29	1.90
37135941--37136329	91	4.3	91	95	1	685	33	15	22	28	1.95
37135743--37136329	136	4.5	137	86	10	810	34	14	21	28	1.93
37142731--37142757	2	13.5	2	100	0	54	0	0	48	51	1.00
37145027--37145065	18	2.2	17	86	13	53	33	0	20	46	1.51
37145291--37145343	23	2.3	23	90	0	88	22	20	24	32	1.98
37155096--37155840	246	2.9	253	85	5	975	39	20	18	21	1.93
37157450--37157482	17	1.9	17	93	0	57	33	24	21	21	1.97
37161103--37161162	17	3.5	17	71	13	52	35	31	15	18	1.91
37170936--37170980	22	2.0	23	91	4	74	42	4	11	42	1.60
37172767--37172815	17	2.9	17	96	0	89	40	6	14	38	1.71
37174139--37174209	19	3.7	19	71	17	65	35	0	4	60	1.16
37176201--37176259	29	2.1	29	90	3	93	66	10	13	10	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37189052--37189102	18	3.1	16	77	22	61	27	5	0	66	1.14
37189052--37189101	17	3.0	17	78	21	61	26	6	0	68	1.13
37189057--37189108	8	6.4	8	80	10	61	25	3	0	71	1.03
37189157--37189251	29	3.3	28	76	15	81	36	6	1	55	1.32
37189262--37189333	34	2.1	34	82	12	85	30	8	2	58	1.42
37196573--37196613	10	3.7	12	78	18	52	68	7	0	24	1.15
37196846--37196888	21	2.0	21	82	8	52	20	37	0	41	1.53
37197994--37198285	153	1.9	152	90	0	458	26	15	17	40	1.89
37201673--37201872	108	1.9	106	90	2	319	35	20	17	27	1.95
37208425--37208496	27	2.6	28	80	12	94	59	0	4	36	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