genome.fa.s3.2.7.7.80.10.50.1000.27.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  27  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)
6971343--6971400	9	6.7	9	71	28	54	1	32	0	65	1.03
6971350--6971404	3	19.0	3	78	14	62	1	32	0	65	1.03
6971343--6971404	19	3.0	20	83	13	72	1	33	0	64	1.03
6976826--6976880	27	2.0	27	96	0	101	49	1	3	45	1.30
6976837--6976880	13	3.3	13	75	6	52	52	0	2	45	1.13
6977078--6977109	17	1.9	16	93	6	55	68	0	0	31	0.90
6986751--6986824	36	2.1	36	100	0	148	40	10	29	18	1.85
6994069--6994166	23	4.3	23	93	2	171	19	21	27	31	1.97
6994073--6994159	45	1.9	45	97	0	165	17	21	28	32	1.96
6996277--6996735	44	10.0	44	68	16	231	33	19	20	26	1.97
6996280--6996708	142	3.0	142	92	0	696	34	19	20	26	1.96
6997235--6997286	23	2.4	22	81	9	61	17	48	19	15	1.82
7002054--7002107	25	2.2	25	80	6	58	40	7	3	48	1.49
7004233--7004266	17	1.9	18	88	5	52	26	2	26	44	1.69
7011244--7011293	26	1.9	26	87	0	73	42	24	16	18	1.89
7022024--7022147	7	17.7	7	100	0	248	28	0	14	57	1.38
7024180--7024624	97	4.5	97	90	3	621	39	18	1	40	1.60
7024599--7024637	8	4.9	8	81	12	53	53	30	0	15	1.42
7024600--7024647	24	2.0	24	88	4	71	52	31	0	16	1.45
7025595--7025658	30	2.1	30	100	0	128	51	6	12	29	1.64
7026754--7026806	18	2.8	19	77	11	56	37	0	7	54	1.29
7029497--7029544	21	2.3	21	85	0	60	39	2	4	54	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7029605--7029646	22	1.9	22	85	9	59	23	9	33	33	1.87
7033102--7033143	22	1.9	22	85	9	59	23	9	33	33	1.87
7033649--7033688	19	2.0	20	90	4	64	52	0	2	45	1.14
7034451--7034488	16	2.3	17	86	4	51	57	0	7	34	1.28
7035025--7035132	18	6.2	17	82	11	121	42	11	13	32	1.80
7035025--7035133	35	3.1	34	82	11	116	42	11	13	33	1.80
7035626--7035688	9	6.9	9	78	10	65	0	19	0	80	0.70
7035631--7035697	29	2.3	29	87	7	100	0	19	0	80	0.71
7035657--7035696	13	2.8	14	82	17	55	0	20	0	80	0.72
7035631--7035697	16	4.6	13	75	21	62	0	19	0	80	0.71
7035626--7035694	22	3.1	21	78	17	77	0	18	0	81	0.70
7036135--7036203	13	5.2	13	72	6	57	2	15	7	73	1.17
7036546--7036614	30	2.3	29	80	11	77	42	8	15	33	1.78
7037044--7037724	75	8.9	76	82	5	748	34	19	18	27	1.95
7037032--7037730	234	3.0	228	82	7	815	35	19	17	27	1.95
7046280--7046377	35	2.8	35	82	11	105	41	10	12	35	1.76
7046281--7046408	18	7.3	18	75	16	117	42	10	12	34	1.78
7046283--7046408	53	2.4	53	82	10	152	42	11	12	33	1.78
7046316--7046408	35	2.6	36	84	5	118	41	10	15	32	1.81
7047262--7047330	13	5.2	13	73	13	59	2	14	7	75	1.13
7047253--7047286	7	4.9	7	86	13	52	0	17	0	82	0.67
7047948--7048054	53	2.0	53	96	0	196	34	12	14	39	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7050671--7050711	21	2.0	21	85	0	55	26	2	2	68	1.15
7051074--7051135	32	1.9	33	86	3	90	48	6	3	41	1.45
7059396--7059508	19	5.8	19	88	4	172	38	9	15	36	1.80
7059397--7059502	40	2.7	40	95	2	189	38	10	14	36	1.80
7059640--7059694	24	2.4	22	90	6	83	69	0	30	0	0.89
7060878--7061072	98	2.0	98	95	0	354	28	10	24	36	1.88
7066750--7066815	28	2.2	29	84	7	80	39	1	7	51	1.40
7066906--7066944	20	2.0	20	95	5	71	51	2	5	41	1.38
7067778--7067870	37	2.4	36	80	16	107	43	1	23	32	1.61
7067778--7067870	36	2.4	41	78	19	110	43	1	23	32	1.61
7071168--7071207	20	2.0	20	90	5	62	35	2	0	62	1.09
7072652--7072765	10	12.1	10	70	22	70	42	0	0	56	1.05
7072664--7072740	27	2.9	27	88	7	104	40	0	0	59	0.97
7072653--7072754	11	9.5	11	70	20	74	42	0	0	56	1.05
7072662--7072765	19	5.7	18	73	19	90	42	0	0	56	1.05
7072695--7072780	20	4.4	19	77	15	79	44	1	1	53	1.15
7072688--7072765	39	2.0	36	85	11	102	46	1	0	52	1.08
7072984--7073023	20	2.0	20	90	0	62	27	10	12	50	1.72
7072963--7073039	14	5.0	15	71	20	52	33	7	15	42	1.76
7073016--7073101	33	2.6	32	73	12	84	25	9	18	46	1.79
7073107--7073186	20	4.0	20	75	12	92	36	3	3	56	1.35
7074236--7074278	17	2.7	15	83	13	59	55	9	11	23	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7075904--7075929	13	2.0	13	100	0	52	46	15	15	23	1.83
7076087--7076116	14	2.1	14	93	0	51	36	10	43	10	1.72
7076139--7076184	24	1.9	24	86	0	65	39	4	41	15	1.67
7081109--7081134	13	2.0	13	100	0	52	53	23	0	23	1.46
7081720--7081750	9	3.4	9	90	0	53	25	12	22	38	1.90
7082046--7082104	30	2.0	30	83	12	77	18	40	0	40	1.51
7084322--7084357	5	7.2	5	100	0	72	19	19	19	41	1.90
7089907--7089959	19	2.6	21	70	11	56	50	20	3	24	1.64
7089946--7090010	23	2.5	26	78	14	73	55	21	0	23	1.44
7094282--7094498	99	2.2	98	87	2	301	30	19	12	37	1.89
7094349--7095052	134	5.4	134	79	5	736	31	17	12	39	1.86
7094691--7094912	120	1.9	120	86	0	318	31	15	13	40	1.85
7094971--7095128	35	4.5	35	68	17	92	32	16	12	38	1.86
7094935--7095160	107	2.1	107	90	1	355	32	15	13	39	1.85
7095474--7095498	11	2.3	11	100	0	50	48	0	8	44	1.32
7097849--7097873	2	12.5	2	100	0	50	48	0	0	52	1.00
7102087--7102241	45	3.4	44	89	3	220	40	20	20	19	1.92
7102102--7102263	45	3.8	41	84	7	159	38	22	19	19	1.94
7102343--7102450	54	2.0	54	100	0	216	29	16	9	44	1.79
7119883--7119917	18	1.9	18	88	0	52	22	20	25	31	1.98
7123331--7123441	56	2.0	57	81	1	134	54	7	11	26	1.62
7133444--7133491	22	2.2	22	88	0	69	25	27	16	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7133452--7133494	22	2.0	22	100	0	86	23	25	13	37	1.92
7138779--7138838	21	2.9	20	73	7	57	40	41	5	13	1.66
7141061--7141191	64	2.1	64	95	1	237	28	6	9	54	1.59
7146735--7146761	4	6.8	4	100	0	54	0	0	22	77	0.76
7147076--7147179	55	1.9	55	85	0	145	25	8	15	50	1.73
7150074--7150115	21	2.0	21	100	0	84	28	28	28	14	1.95
7158305--7158354	21	2.4	21	80	12	59	46	22	0	32	1.52
7158592--7158655	32	2.0	32	93	0	110	40	15	14	29	1.86
7162797--7162835	2	19.5	2	100	0	78	48	0	0	51	1.00
7169148--7169202	22	2.5	23	82	8	69	30	5	0	63	1.17
7169183--7169216	3	11.3	3	87	0	50	38	0	0	61	0.96
7173288--7173410	64	1.9	64	84	0	165	25	20	17	36	1.94
7173446--7173494	24	2.0	25	88	4	73	22	18	22	36	1.95
7177781--7177844	33	1.9	33	90	0	101	43	4	0	51	1.22
7178837--7178867	2	15.5	2	100	0	62	51	0	48	0	1.00
7194553--7194632	41	2.0	41	84	0	106	50	8	8	32	1.64
7202625--7202663	15	2.6	15	79	0	51	2	53	0	43	1.14
7207355--7207420	17	4.1	16	77	16	73	72	1	24	1	1.01
7207360--7207412	14	3.6	14	76	18	54	73	1	24	0	0.93
7207942--7207980	5	7.8	5	100	0	78	20	17	0	61	1.34
7208530--7208584	21	2.6	21	76	0	56	18	12	32	36	1.88
7211060--7211098	5	7.8	5	83	11	53	79	2	0	17	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7215933--7216088	45	3.5	45	84	3	201	26	17	23	32	1.97
7230362--7230555	105	1.9	101	81	6	237	33	15	20	29	1.94
7230959--7231010	19	2.7	20	77	14	56	25	7	25	42	1.81
7242003--7242159	37	4.2	37	90	0	224	35	27	17	19	1.95
7242064--7242123	17	3.4	17	66	20	50	35	23	21	20	1.96
7242046--7242106	20	3.2	20	65	21	58	34	29	18	18	1.94
7242902--7242960	19	3.5	19	63	29	51	38	16	10	33	1.83
7242898--7242960	31	2.0	31	100	0	126	42	15	9	31	1.79
7243839--7243863	13	1.9	13	100	0	50	52	0	0	48	1.00
7244035--7244091	26	2.2	26	84	6	71	42	0	5	52	1.24

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