genome.fa.s5.2.7.7.80.10.50.1000.204.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   205   206   207   208   

This is table  204  of  208  ( 24913 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)
62089811--62089852	21	2.0	20	86	13	59	61	4	0	33	1.17
62108228--62109116	381	2.3	381	97	0	1652	33	16	24	24	1.96
62111415--62111978	222	2.5	222	88	1	844	35	13	25	26	1.92
62116160--62116207	15	3.5	15	68	26	52	35	22	12	29	1.91
62116161--62116217	25	2.3	25	100	0	114	36	24	12	26	1.91
62118735--62118772	18	2.1	18	100	0	76	21	23	15	39	1.92
62123155--62123238	42	2.0	42	93	4	143	22	5	8	63	1.45
62125202--62125293	27	3.2	27	69	20	78	53	10	16	19	1.72
62125203--62125376	60	2.9	61	78	13	191	49	13	16	21	1.79
62130370--62130562	66	3.0	66	85	3	241	44	8	31	16	1.78
62135387--62135417	16	1.9	16	100	0	62	32	6	6	54	1.51
62137646--62137678	13	2.6	13	95	4	59	39	21	9	30	1.84
62138521--62138554	6	5.7	6	92	0	50	29	5	35	29	1.81
62143388--62143429	19	2.3	18	83	4	57	61	4	0	33	1.17
62148280--62148338	29	2.0	30	86	3	84	52	1	8	37	1.42
62154353--62154409	30	1.9	30	89	7	89	50	3	15	29	1.61
62154356--62154423	28	2.3	29	85	5	84	54	4	11	29	1.56
62163212--62163250	17	2.2	19	86	9	55	64	0	2	33	1.08
62165378--62165416	3	13.0	3	83	0	51	5	30	2	61	1.31
62166549--62167071	204	2.6	205	88	1	766	26	14	21	37	1.92
62170372--62170431	31	1.9	31	82	0	75	21	13	23	41	1.88
62176236--62176296	22	2.7	24	80	7	65	49	4	42	3	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62182422--62182471	19	2.6	19	78	6	57	64	6	8	22	1.43
62183614--62183812	96	2.1	96	85	0	263	30	29	16	24	1.96
62183710--62184104	123	3.2	123	86	3	575	27	32	15	24	1.95
62184995--62185041	22	2.1	22	96	0	85	31	10	8	48	1.68
62193016--62193328	91	3.5	88	80	9	312	47	16	9	25	1.78
62193192--62193551	140	2.6	139	78	6	368	47	17	8	25	1.76
62193499--62194018	92	5.7	92	73	13	320	44	13	7	34	1.73
62193474--62194020	184	3.0	185	78	9	510	43	14	8	33	1.75
62193474--62194016	91	5.9	90	74	9	416	43	15	8	33	1.76
62194220--62194452	91	2.5	91	75	11	217	46	13	8	32	1.72
62194220--62194480	92	2.9	90	76	11	246	46	12	7	33	1.70
62194751--62195101	91	3.9	91	76	10	274	46	12	8	31	1.73
62194683--62195153	88	5.3	91	74	9	335	46	13	8	30	1.74
62196780--62196830	13	3.9	13	72	10	50	39	21	3	35	1.72
62197671--62197703	2	16.5	2	100	0	66	0	48	0	51	1.00
62201036--62201212	46	3.8	46	92	0	291	28	24	10	36	1.88
62202406--62202452	17	2.8	17	90	3	69	55	17	0	27	1.42
62203473--62203547	34	2.2	33	84	9	98	25	29	1	44	1.63
62203473--62203549	22	3.5	22	81	18	97	25	28	1	44	1.62
62203473--62203549	11	6.9	11	74	21	72	25	28	1	44	1.62
62214874--62215093	40	5.4	40	70	8	160	33	19	21	26	1.97
62214874--62215117	123	2.0	124	90	0	382	34	18	20	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62216152--62216192	9	4.6	9	87	0	55	24	4	21	48	1.69
62219484--62219509	13	2.0	13	100	0	52	46	15	7	30	1.74
62225307--62225353	20	2.3	20	100	0	94	42	36	4	17	1.68
62226026--62226097	36	2.0	36	100	0	144	22	8	19	50	1.74
62227653--62227725	30	2.4	30	83	0	83	35	23	4	36	1.74
62228231--62228284	16	3.2	16	80	10	63	81	1	16	0	0.78
62228230--62228284	7	8.0	7	82	8	51	80	1	18	0	0.81
62228557--62228609	11	4.7	11	78	19	56	79	1	18	0	0.83
62228568--62228611	13	3.3	13	81	12	54	81	2	15	0	0.78
62228568--62228612	14	3.3	14	81	3	56	82	2	15	0	0.77
62228557--62228613	15	3.8	15	75	13	55	80	1	17	0	0.79
62228920--62228985	22	3.3	21	70	22	61	37	12	10	39	1.77
62228920--62228962	22	2.0	21	90	4	68	39	11	13	34	1.82
62228917--62229019	37	2.8	37	80	8	120	36	12	10	39	1.78
62228977--62229020	18	2.4	18	84	0	61	45	9	9	36	1.68
62229122--62229224	20	5.4	20	72	16	69	42	14	8	33	1.77
62229157--62229236	20	3.8	21	77	9	83	40	16	7	36	1.77
62231021--62231113	9	10.4	9	85	2	134	23	11	24	39	1.88
62231021--62231113	44	2.1	45	95	2	170	23	11	24	39	1.88
62232658--62232691	2	17.0	2	87	0	50	47	2	0	50	1.16
62238523--62238553	5	6.2	5	92	0	53	45	19	16	19	1.86
62244594--62244634	22	1.9	21	85	5	55	46	7	9	36	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62253082--62253110	15	1.9	15	100	0	58	68	24	0	6	1.13
62254013--62254037	11	2.3	11	100	0	50	48	0	8	44	1.32
62257125--62257184	31	1.9	31	93	0	102	23	18	11	46	1.81
62264496--62264558	33	1.9	33	87	6	92	23	36	31	7	1.84
62264584--62264677	11	9.1	11	69	21	60	58	0	2	39	1.10
62264570--62264658	40	2.2	41	83	6	117	59	0	2	38	1.10
62264605--62264670	12	6.1	11	73	16	57	60	0	3	36	1.12
62264610--62264684	31	2.4	32	93	2	125	61	0	2	36	1.10
62264610--62264684	32	2.4	31	91	6	116	61	0	2	36	1.10
62264590--62264664	19	3.8	19	74	19	73	64	0	2	33	1.08
62265602--62265675	38	1.9	38	88	0	112	51	12	8	28	1.67
62273621--62273657	18	2.1	18	100	0	74	10	5	16	67	1.38
62274857--62274950	30	3.1	30	73	3	89	23	8	15	52	1.71
62284185--62284275	41	2.2	41	86	5	123	32	25	17	24	1.97
62284473--62284514	2	21.0	2	100	0	84	50	0	0	50	1.00
62285238--62285280	16	2.7	16	82	10	52	51	2	0	46	1.13
62286801--62286860	30	2.0	31	83	6	79	48	15	6	30	1.70
62290944--62290995	23	2.3	22	90	3	77	44	3	1	50	1.31
62310021--62310053	15	2.2	15	89	10	50	54	6	0	39	1.25
62310563--62310590	2	14.0	2	100	0	56	50	0	0	50	1.00
62310688--62310751	31	2.1	31	84	0	83	17	14	15	53	1.74
62313768--62313795	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62314335--62314386	3	17.3	3	100	0	104	32	0	0	67	0.91
62319610--62319668	30	1.9	31	89	3	93	35	6	3	54	1.44
62320105--62320153	25	1.9	25	84	12	64	36	12	4	46	1.60
62322922--62322950	8	3.8	8	95	4	51	44	13	0	41	1.44
62332354--62332702	177	2.0	174	94	1	608	41	18	16	24	1.90
62345706--62345766	31	2.0	31	90	0	95	42	11	11	34	1.77
62353286--62353321	16	2.2	16	100	0	72	30	0	11	58	1.33
62354756--62354824	5	12.8	5	76	19	50	17	7	0	75	1.02
62360745--62360796	25	2.1	25	92	0	86	65	15	3	15	1.41
62364151--62364192	21	2.0	21	100	0	84	52	9	38	0	1.34
62373998--62374028	2	15.5	2	100	0	62	51	0	0	48	1.00
62377178--62377216	18	2.2	18	86	4	53	48	2	0	48	1.15
62378473--62378513	20	2.0	20	100	0	82	36	4	19	39	1.73
62390432--62390471	19	2.0	20	85	4	55	27	0	2	70	1.01
62400951--62400984	6	5.7	6	96	0	59	55	0	11	32	1.36
62404505--62404563	29	2.0	29	86	3	82	28	3	13	54	1.55
62411677--62411812	42	3.2	42	83	6	159	25	22	4	48	1.69
62414322--62414424	41	2.6	40	81	9	122	28	19	6	45	1.75
62416194--62416266	29	2.5	30	84	2	94	41	15	10	32	1.82
62416890--62416961	22	3.3	22	94	0	117	25	27	16	30	1.97
62425999--62426067	29	2.4	28	77	13	70	50	0	0	49	1.00
62426489--62426520	4	8.0	4	100	0	64	25	0	0	75	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62428556--62428592	18	2.0	19	89	5	58	24	5	5	64	1.36
62433708--62433799	22	4.2	22	88	0	112	30	27	0	42	1.56
62433749--62433851	52	2.0	51	83	9	129	33	32	0	34	1.58
62433801--62433854	22	2.5	22	82	8	67	33	33	0	33	1.58
62433884--62433938	28	1.9	29	92	3	94	38	0	1	60	1.08
62433884--62433946	29	2.2	29	88	5	92	38	0	1	60	1.07
62445326--62445455	60	2.2	60	98	1	251	32	17	10	39	1.84
62450676--62450705	16	1.9	15	93	6	51	0	10	0	90	0.47
62450673--62450717	15	2.9	16	80	6	56	2	17	0	80	0.82
62451108--62451132	2	12.5	2	100	0	50	48	0	0	52	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   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   205   206   207   208