genome.fa.s3.2.7.7.80.10.50.1000.118.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  118  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)
36432442--36432549	46	2.4	46	81	10	116	35	6	2	55	1.40
36432442--36432655	115	1.9	116	79	10	251	35	6	4	54	1.46
36432413--36432665	24	10.8	24	69	15	136	34	5	4	54	1.45
36432798--36432860	3	21.0	3	100	0	126	33	0	0	66	0.92
36432859--36432887	3	9.7	3	100	0	58	0	0	31	68	0.89
36444723--36444774	18	2.8	18	88	2	68	44	0	3	51	1.19
36445765--36445797	17	1.9	17	88	11	50	57	0	18	24	1.40
36446801--36446840	20	2.0	20	100	0	80	60	0	25	15	1.35
36450408--36450472	33	2.0	33	90	0	103	33	13	7	44	1.73
36451789--36451814	4	6.5	4	100	0	52	76	0	23	0	0.78
36456855--36456896	21	2.0	21	85	4	57	11	2	11	73	1.18
36466475--36466516	20	2.1	20	86	0	57	47	0	7	45	1.30
36466614--36466666	25	2.1	25	100	0	106	49	28	3	18	1.65
36470715--36471047	27	12.4	27	84	0	380	19	17	21	42	1.90
36475217--36475302	45	1.9	45	87	0	127	32	20	17	29	1.96
36475311--36475495	101	1.8	101	84	3	255	32	27	17	22	1.97
36478088--36478129	20	2.1	20	86	0	57	47	0	7	45	1.30
36479647--36479866	32	6.9	32	87	2	255	38	17	20	23	1.93
36479647--36479866	64	3.4	64	87	2	289	38	17	20	23	1.93
36479647--36479863	96	2.3	97	87	1	303	38	17	20	23	1.93
36479857--36479913	26	2.2	26	83	0	69	33	28	24	14	1.94
36480038--36480095	24	2.4	24	82	5	73	46	24	8	20	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36480145--36480433	27	10.3	27	76	9	238	24	23	18	33	1.97
36480173--36480306	67	2.0	67	83	2	171	26	22	20	29	1.99
36480157--36480335	94	1.9	94	90	0	286	26	22	19	31	1.98
36480240--36480433	81	2.4	80	86	3	262	25	22	17	34	1.96
36480315--36480451	27	5.1	27	82	8	111	21	21	19	37	1.94
36481082--36481144	24	2.6	24	92	0	99	23	41	0	34	1.55
36483538--36483620	43	1.9	43	97	0	157	33	12	20	33	1.89
36488135--36488171	16	2.3	16	86	13	58	40	0	0	59	0.97
36496467--36496623	65	2.4	61	77	14	147	45	1	1	51	1.20
36496603--36496645	20	2.0	20	83	16	52	48	2	0	48	1.14
36496717--36496769	26	2.0	26	92	0	88	35	16	11	35	1.85
36500635--36500670	18	2.2	18	85	14	51	25	11	5	58	1.54
36504721--36504763	15	2.9	15	82	6	52	23	4	0	72	1.04
36505027--36505066	20	2.0	20	90	9	64	45	7	17	30	1.76
36513502--36513974	23	20.0	23	69	12	125	41	18	12	26	1.87
36513485--36513678	75	2.7	71	87	7	291	40	20	11	27	1.86
36513673--36514125	70	6.4	71	88	1	653	41	17	14	26	1.88
36513673--36514125	141	3.2	141	90	0	685	41	17	14	26	1.88
36513673--36514125	211	2.1	212	92	0	775	41	17	14	26	1.88
36513560--36514123	23	24.1	23	70	6	353	41	18	13	26	1.88
36514849--36514946	28	3.5	28	91	2	153	31	24	12	31	1.92
36516461--36516498	14	2.7	14	100	0	76	36	5	0	57	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36526228--36526261	6	5.7	6	92	0	50	20	2	0	76	0.92
36526227--36526280	12	4.5	12	83	6	56	25	1	1	70	1.07
36532675--36532797	34	3.7	31	75	13	95	29	12	14	43	1.82
36532789--36532827	17	2.3	17	100	0	78	23	12	20	43	1.86
36532858--36533087	48	4.8	48	79	7	189	32	21	12	33	1.91
36532923--36533087	49	3.4	49	82	1	197	32	23	12	32	1.91
36532874--36533087	97	2.2	97	84	1	277	31	21	13	33	1.91
36538309--36538338	6	5.0	6	100	0	60	50	0	33	16	1.46
36548736--36548776	3	13.7	3	100	0	82	68	0	0	31	0.90
36549082--36549143	31	2.0	30	96	3	115	46	14	6	32	1.70
36554675--36554715	12	3.4	12	96	0	73	0	12	17	70	1.16
36554923--36554951	3	9.7	3	100	0	58	68	0	0	31	0.89
36555253--36555314	31	2.0	31	100	0	124	41	16	9	32	1.80
36567326--36567361	9	4.0	9	85	0	54	55	2	2	38	1.29
36570282--36570411	58	2.2	58	87	6	183	48	3	2	45	1.33
36576366--36576408	22	2.0	22	82	13	54	37	2	4	55	1.33
36582850--36582897	21	2.2	22	92	3	80	35	8	8	47	1.64
36582853--36582930	21	4.3	18	75	16	56	37	10	11	41	1.75
36583419--36583474	27	2.1	27	83	6	69	1	25	0	73	0.93
36583433--36583473	22	2.0	22	90	9	68	0	21	0	78	0.76
36583918--36583988	22	3.1	21	77	18	63	1	19	7	71	1.16
36583918--36583988	24	3.1	22	81	15	74	1	19	7	71	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36584303--36584508	30	6.9	29	73	6	135	44	6	20	28	1.77
36584361--36584508	59	2.5	60	82	3	165	45	6	20	27	1.76
36587438--36587497	3	20.0	3	100	0	120	33	0	0	66	0.92
36593443--36593475	6	5.7	6	92	7	59	48	15	0	36	1.45
36595634--36595694	26	2.3	26	80	2	68	22	14	16	45	1.84
36606583--36606741	81	2.0	81	93	0	273	32	20	15	32	1.94
36609297--36609334	16	2.3	16	90	4	58	28	18	5	47	1.70
36611904--36612096	50	3.8	50	91	0	305	19	31	22	26	1.98
36613157--36613223	33	2.0	33	100	0	134	46	11	14	26	1.80
36620796--36620857	30	2.1	30	96	0	115	35	32	9	22	1.87
36625705--36625899	98	2.0	98	98	0	381	28	9	24	37	1.87
36635955--36636003	24	2.0	24	96	0	89	53	12	18	16	1.73
36640151--36640211	32	1.9	32	89	0	95	55	0	0	44	0.99
36640149--36640205	27	2.2	26	84	9	71	56	0	0	43	0.99
36643482--36643517	5	7.2	5	100	0	72	0	19	61	19	1.35
36645176--36645222	24	2.0	24	83	8	60	57	2	2	38	1.23
36645509--36645534	12	2.2	12	100	0	52	34	7	15	42	1.75
36645521--36645568	19	2.4	20	93	6	80	37	10	14	37	1.81
36645908--36645946	3	13.0	3	83	0	51	30	5	2	61	1.31
36645866--36645925	20	2.9	20	76	14	59	26	1	6	65	1.27
36646091--36646144	22	2.5	20	80	11	54	35	3	1	59	1.26
36646314--36646350	18	2.1	18	89	0	56	18	0	8	72	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36648000--36648026	6	4.5	6	100	0	54	18	0	37	44	1.50
36649363--36649405	19	2.2	19	84	12	52	39	4	0	55	1.20
36657999--36658385	43	9.0	43	93	1	564	30	26	21	21	1.98
36658697--36658762	21	3.1	21	86	0	87	7	45	16	30	1.75
36658733--36658879	66	2.2	66	87	4	208	13	29	18	38	1.89
36658733--36658902	66	2.6	66	85	3	200	13	28	18	39	1.89
36664521--36664571	16	2.9	18	77	16	63	33	1	15	49	1.56
36664541--36664581	9	4.8	9	79	11	50	36	0	17	46	1.48
36664538--36664665	16	8.2	16	67	21	67	38	3	14	44	1.60
36664477--36664637	78	2.1	78	89	3	245	38	4	11	45	1.61
36664702--36664886	9	21.9	9	70	20	100	38	0	15	45	1.51
36664771--36664799	14	2.1	14	93	6	51	41	0	17	41	1.49
36664785--36664816	16	2.0	16	93	0	55	34	0	21	43	1.53
36664802--36664899	34	2.9	34	95	0	178	41	0	10	47	1.37
36664876--36664917	22	1.9	22	90	0	66	40	0	11	47	1.40
36666618--36666649	16	2.0	16	93	0	55	25	9	6	59	1.52
36669899--36670370	117	4.0	117	98	0	890	37	21	13	27	1.91
36671137--36671162	6	4.3	6	100	0	52	15	0	0	84	0.62
36672063--36672105	9	4.6	9	80	8	50	55	2	0	41	1.12
36672109--36672173	9	7.5	8	79	14	51	60	0	4	35	1.18
36672118--36672167	9	5.3	9	81	9	55	64	0	6	30	1.18
36672411--36672437	2	13.5	2	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36672982--36673063	40	2.0	40	88	4	121	21	21	18	37	1.94
36678936--36678966	7	4.4	7	100	0	62	12	0	0	87	0.55
36680102--36680153	23	2.5	20	81	12	59	19	3	1	75	1.06
36680105--36680152	21	2.2	21	85	7	60	18	2	2	77	0.97
36685953--36686000	7	6.7	7	77	13	53	70	0	14	14	1.16
36685963--36686009	21	2.2	21	85	7	69	70	0	14	14	1.18
36686084--36686123	21	1.9	21	89	0	62	45	20	10	25	1.81
36687668--36687794	45	2.8	45	86	0	155	26	18	24	29	1.98
36688074--36688352	50	5.6	50	71	3	193	30	18	23	26	1.98
36688071--36688367	100	3.0	100	89	1	434	29	19	23	27	1.98

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