genome.fa.s7.2.7.7.80.10.50.1000.167.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   

This is table  167  of  204  ( 24458 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)
49968128--49968372	128	1.9	128	86	0	346	35	12	21	29	1.91
49969856--49969896	21	2.0	21	85	9	57	43	0	34	21	1.53
49975711--49975847	21	6.5	21	70	6	98	45	16	20	18	1.86
49975706--49975864	42	3.8	42	77	5	135	44	15	22	18	1.87
49975711--49975864	63	2.5	63	75	6	152	45	15	21	17	1.85
49977014--49977078	32	2.0	32	93	0	112	30	20	7	41	1.80
49977364--49977424	30	2.0	30	93	0	104	26	19	26	27	1.99
49977530--49977605	26	2.9	26	84	0	98	36	19	23	19	1.95
49977568--49977626	27	2.2	26	78	3	64	35	20	23	20	1.96
49977780--49978033	27	9.4	27	83	4	316	19	18	18	44	1.87
49981708--49981777	23	3.0	23	80	12	81	21	12	25	40	1.89
49985299--49985349	21	2.3	23	76	13	61	41	9	0	49	1.36
49985307--49985375	29	2.4	29	97	2	131	42	5	0	52	1.25
49990693--49991013	129	2.5	126	85	5	414	30	18	22	27	1.97
49992536--49992599	23	2.7	23	80	4	74	42	9	1	46	1.45
49992579--49992635	21	2.6	21	72	13	53	35	5	1	57	1.31
49992593--49992647	20	2.8	20	77	5	58	34	9	1	54	1.43
49992632--49992664	12	2.8	12	90	0	57	42	12	0	45	1.41
49992811--49992858	16	3.1	15	82	8	60	37	4	4	54	1.39
50002102--50002126	3	8.3	3	100	0	50	68	0	0	32	0.90
50018117--50018191	21	3.8	20	75	6	73	36	2	0	61	1.10
50018117--50018191	9	7.7	10	76	5	66	36	2	0	61	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50018100--50018192	10	9.4	10	68	13	50	32	4	0	63	1.14
50019323--50019367	22	2.0	22	87	8	65	51	0	0	48	1.00
50020196--50020237	22	2.0	22	90	4	68	47	2	9	40	1.49
50020538--50020724	96	2.0	94	86	5	261	41	6	15	36	1.73
50020601--50020655	27	2.0	28	92	3	94	50	3	7	38	1.48
50020743--50020769	14	1.9	14	100	0	54	37	22	0	40	1.54
50022129--50022189	25	2.4	26	94	2	106	42	8	0	49	1.32
50022795--50022860	19	3.5	19	79	4	89	50	1	10	37	1.47
50023270--50023334	28	2.4	28	97	2	123	49	0	9	41	1.35
50023682--50023725	15	2.8	16	89	6	72	70	4	6	18	1.27
50025465--50025864	44	9.1	44	81	1	408	28	18	19	34	1.95
50025489--50025828	177	1.9	176	83	3	441	29	18	19	32	1.95
50025481--50025885	177	2.3	175	81	4	438	29	19	18	32	1.96
50028346--50028394	24	2.0	24	100	0	98	32	12	26	28	1.92
50030832--50030885	27	2.0	27	96	0	99	25	27	14	31	1.95
50037232--50037358	33	3.9	33	73	8	100	43	11	23	21	1.85
50039357--50039408	19	2.7	19	90	0	77	57	11	0	30	1.34
50039358--50039425	19	3.5	19	80	13	68	57	8	0	33	1.30
50039435--50039473	19	2.0	20	90	5	62	64	0	2	33	1.08
50039555--50039607	3	17.7	3	100	0	106	32	0	0	67	0.91
50051976--50052004	6	4.8	6	100	0	58	82	0	0	17	0.66
50055024--50055061	19	2.0	20	94	5	69	26	2	2	68	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50055870--50055925	25	2.2	25	81	9	60	33	0	1	64	1.04
50058260--50058303	21	2.1	21	83	8	54	47	2	2	47	1.27
50059290--50059369	40	2.0	40	95	0	142	25	11	23	40	1.88
50067058--50067110	12	4.8	12	75	15	51	41	0	28	30	1.56
50067088--50067129	19	2.2	19	86	0	57	40	0	35	23	1.55
50075119--50075318	43	4.7	43	90	2	296	27	18	24	30	1.97
50082886--50083085	43	4.7	43	85	2	251	27	17	24	32	1.96
50086866--50086906	17	2.5	17	80	11	50	43	7	0	48	1.30
50087737--50088296	279	2.0	277	84	2	721	36	16	14	33	1.89
50091552--50091676	62	2.0	62	92	0	205	36	3	12	48	1.56
50093331--50093366	18	2.0	18	89	10	56	72	0	8	19	1.10
50097885--50097927	15	2.9	15	79	3	52	41	0	0	58	0.98
50099550--50099591	20	2.1	20	86	0	57	47	0	7	45	1.30
50109143--50109270	43	3.0	42	70	19	111	24	17	25	32	1.97
50113637--50113669	3	11.0	3	100	0	66	66	0	0	33	0.92
50117599--50117905	156	2.0	156	93	1	526	26	19	19	35	1.95
50118249--50118283	17	2.1	17	88	0	52	54	0	2	42	1.15
50125435--50125465	15	2.1	15	93	0	53	29	29	22	19	1.98
50125636--50125700	22	3.0	22	93	0	112	33	16	16	32	1.92
50125693--50125795	24	4.4	24	81	2	111	37	20	14	27	1.91
50129123--50129165	20	2.3	18	88	8	59	67	4	0	27	1.10
50129279--50129327	22	2.2	23	85	7	66	59	0	4	36	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50131128--50131191	27	2.4	26	79	7	67	57	4	6	31	1.44
50132341--50132366	12	2.2	12	100	0	52	15	7	0	76	0.99
50134608--50134644	9	4.1	9	89	0	56	48	13	8	29	1.71
50135669--50135694	5	5.2	5	100	0	52	19	19	19	42	1.90
50136069--50136433	186	2.0	183	90	3	570	27	23	14	34	1.94
50140892--50140978	45	1.9	45	95	0	156	40	3	3	52	1.35
50141558--50141599	20	2.1	20	86	0	57	47	0	7	45	1.30
50142545--50142569	12	2.1	12	100	0	50	84	0	0	16	0.63
50142761--50142811	25	2.1	23	82	13	59	68	0	1	29	1.00
50145375--50145437	31	2.0	31	100	0	126	25	9	30	34	1.88
50146872--50146906	17	2.1	17	100	0	70	34	11	17	37	1.85
50147410--50147455	23	2.0	23	91	0	74	60	8	13	17	1.56
50149358--50149383	5	5.2	5	100	0	52	38	19	19	23	1.93
50149752--50149799	19	2.6	19	78	18	57	60	0	2	37	1.09
50150026--50150085	30	2.0	31	86	3	86	40	0	40	20	1.52
50150294--50150330	9	4.1	9	92	0	65	29	10	13	45	1.77
50150385--50150415	9	3.4	9	90	0	53	38	22	12	25	1.90
50159673--50159775	51	2.0	51	86	0	143	37	4	12	44	1.64
50182928--50182958	16	1.9	16	93	0	53	54	12	3	29	1.53
50186857--50186901	23	2.0	23	82	8	56	73	8	8	8	1.26
50187018--50187080	21	3.0	22	75	13	60	71	1	1	25	1.04
50187026--50187086	20	3.2	18	83	9	68	73	0	1	24	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50202465--50202535	36	2.0	36	100	0	142	39	16	14	29	1.88
50203352--50203455	39	2.7	39	86	3	129	46	20	2	30	1.65
50213400--50213455	29	1.9	29	85	0	76	30	26	21	21	1.98
50215604--50215664	30	2.0	30	100	0	122	29	9	21	39	1.85
50218432--50218466	13	2.8	12	87	12	52	17	0	22	60	1.37
50219989--50220022	4	8.5	4	93	0	59	52	0	23	23	1.47
50231501--50231566	27	2.4	27	92	0	105	24	18	28	28	1.98
50243631--50243663	17	1.9	17	93	0	57	33	12	0	54	1.37
50244578--50244616	20	2.0	20	90	5	62	33	7	7	51	1.59
50245072--50245130	31	1.9	31	89	0	91	20	13	13	52	1.74
50246939--50246977	21	1.9	20	89	5	60	64	10	2	23	1.37
50247390--50247445	14	3.8	14	73	17	51	32	0	0	67	0.91
50248416--50248525	39	2.8	39	77	5	96	36	20	21	20	1.95
50249068--50249166	22	4.6	22	77	7	78	23	2	27	47	1.62
50249118--50249166	14	3.4	14	91	2	71	16	0	32	51	1.45
50249204--50249245	20	2.0	21	90	4	68	16	0	33	50	1.46
50249290--50249419	7	18.4	7	71	10	59	24	0	28	46	1.58
50249290--50249419	14	9.2	14	75	6	84	24	0	28	46	1.58
50249365--50249405	22	1.9	21	90	5	64	24	0	29	46	1.53
50249378--50249498	7	17.1	7	75	10	59	20	1	37	40	1.63
50249626--50249650	2	12.5	2	100	0	50	48	0	0	52	1.00
50252772--50252859	43	2.1	42	84	2	113	32	9	12	45	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50252876--50252901	5	5.2	5	100	0	52	42	19	19	19	1.90
50253348--50253394	17	2.8	17	79	20	62	55	6	2	36	1.37
50253773--50253804	9	3.6	9	91	0	55	31	9	15	43	1.78
50253857--50253887	9	3.4	9	90	0	53	38	22	12	25	1.90
50254243--50254403	43	3.8	43	81	4	157	29	18	25	26	1.98
50254613--50254653	18	2.3	18	80	12	50	24	0	2	73	0.96
50255048--50255100	17	3.0	17	83	8	61	66	1	28	3	1.20
50256080--50256128	14	3.3	14	81	15	62	2	28	0	69	1.00
50256083--50256128	17	2.8	16	83	9	65	2	28	0	69	1.00
50256094--50256139	14	3.5	14	77	17	53	4	30	0	65	1.12

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   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204