genome.fa.s2.2.7.7.80.10.50.1000.200.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   

This is table  200  of  206  ( 24623 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)
60523092--60523583	250	2.0	250	88	3	740	27	17	17	36	1.93
60523586--60523674	34	2.6	33	81	13	101	43	13	1	41	1.51
60523725--60523790	21	3.1	21	68	0	60	48	22	0	28	1.51
60523703--60523790	42	2.0	43	85	8	117	46	23	1	28	1.60
60528105--60528139	3	11.7	3	93	0	61	31	0	34	34	1.58
60528226--60528258	2	16.5	2	87	12	50	48	0	3	48	1.17
60528764--60528865	10	10.6	10	68	16	54	63	0	2	32	1.16
60528831--60528902	19	3.8	18	74	15	74	61	4	6	27	1.41
60528810--60528875	20	3.3	20	76	18	57	62	1	7	28	1.32
60529413--60529458	4	11.5	4	100	0	92	26	0	23	50	1.50
60529586--60529661	28	2.8	27	72	18	68	34	6	0	59	1.24
60529643--60529703	10	6.1	10	78	14	56	29	4	0	65	1.13
60529734--60529782	21	2.3	21	85	0	71	36	6	0	57	1.24
60537206--60537269	31	2.1	29	88	5	92	29	3	9	57	1.45
60537207--60537277	30	2.4	30	81	11	85	30	2	8	57	1.43
60543692--60543737	4	11.8	4	86	4	67	69	0	4	26	1.07
60543689--60543735	15	3.1	15	85	14	69	68	0	6	25	1.13
60546935--60547509	285	2.0	283	91	1	927	33	11	19	35	1.88
60548227--60548290	9	7.2	9	76	15	55	56	1	3	39	1.25
60548891--60548979	47	1.9	46	88	6	135	39	16	13	30	1.87
60551308--60551339	15	2.1	15	94	0	55	65	12	3	18	1.38
60552022--60552065	15	3.1	15	75	18	58	54	11	25	9	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60552126--60552187	20	3.3	20	65	17	60	51	3	14	30	1.58
60552119--60552194	36	2.1	36	100	0	152	46	2	13	38	1.57
60559832--60559874	18	2.4	18	80	7	52	41	2	2	53	1.26
60567336--60567451	16	6.9	17	69	14	73	45	21	3	29	1.68
60567336--60567579	9	28.7	9	67	15	99	46	20	4	29	1.69
60567337--60567441	25	4.2	25	77	2	104	46	20	3	29	1.68
60567369--60567551	34	5.1	34	74	13	123	46	19	4	29	1.69
60567436--60567508	37	2.0	37	100	0	146	50	16	2	30	1.59
60567494--60567566	34	2.1	34	94	0	128	43	20	6	28	1.77
60567742--60567821	34	2.4	34	89	0	124	43	22	3	30	1.70
60567793--60567832	18	2.3	18	87	8	57	42	22	0	35	1.54
60567922--60568001	34	2.4	34	89	0	124	43	22	3	30	1.70
60567947--60568010	25	2.5	26	84	5	85	43	23	1	31	1.63
60567926--60568010	9	9.9	9	77	8	70	43	23	2	30	1.66
60567729--60568114	189	2.1	180	95	4	682	37	19	11	31	1.87
60568976--60569007	16	2.0	16	93	0	55	50	21	21	6	1.71
60573622--60573671	21	2.4	21	86	0	73	36	18	44	2	1.61
60574868--60574903	2	18.0	2	100	0	72	50	0	0	50	1.00
60578606--60578657	2	26.5	2	84	3	70	46	1	1	50	1.23
60579893--60579965	3	25.0	3	94	5	132	65	0	0	34	0.93
60581020--60581076	24	2.4	24	87	0	78	12	8	28	50	1.69
60581034--60581079	24	1.9	24	100	0	92	13	8	26	52	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60581317--60581346	3	10.0	3	100	0	60	66	0	0	33	0.92
60583173--60583248	29	2.6	29	97	0	143	26	13	28	31	1.93
60586059--60586159	34	2.9	34	76	11	107	43	20	10	24	1.84
60595435--60595511	24	3.2	25	75	10	79	19	25	20	33	1.96
60595458--60595505	25	2.0	24	87	4	69	18	25	18	37	1.94
60596370--60596411	20	2.1	20	95	0	75	30	0	26	42	1.55
60596372--60596420	8	6.6	8	80	17	61	30	0	24	44	1.54
60596392--60596429	16	2.4	16	86	8	51	31	0	26	42	1.56
60600799--60600856	19	2.7	22	84	10	68	36	8	17	37	1.80
60601187--60601244	19	2.9	19	78	14	64	36	1	1	60	1.17
60602980--60603033	21	2.6	20	74	14	56	51	7	3	37	1.48
60603260--60603533	86	3.2	86	88	2	372	25	30	17	25	1.97
60603302--60603552	129	1.9	129	84	3	335	29	31	17	22	1.96
60603296--60603552	43	6.0	43	78	5	250	28	31	17	22	1.96
60603861--60603973	21	5.4	21	84	0	127	4	42	17	35	1.70
60608804--60609208	9	48.0	9	67	16	206	31	2	19	46	1.62
60608826--60609148	16	19.8	16	68	13	144	32	1	19	45	1.61
60608826--60609208	59	6.5	58	72	10	269	32	2	19	46	1.61
60608864--60609017	25	6.1	25	75	11	118	33	1	20	44	1.63
60608867--60609208	118	2.9	118	95	0	594	32	2	19	45	1.62
60609008--60609092	25	3.4	25	83	3	82	35	2	17	44	1.62
60609039--60609208	25	6.7	25	69	14	82	31	1	19	47	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60609211--60609488	121	2.3	121	96	1	504	45	6	8	38	1.62
60609501--60609531	2	15.5	2	100	0	62	51	0	0	48	1.00
60609535--60609623	18	4.8	18	79	14	101	41	0	12	46	1.41
60609539--60609623	39	2.3	37	86	10	120	42	0	12	44	1.43
60609537--60609641	31	3.5	31	70	21	91	42	0	12	44	1.42
60615006--60615203	41	4.8	41	83	4	238	30	26	21	20	1.98
60615006--60615203	82	2.4	82	87	3	265	30	26	21	20	1.98
60615258--60615391	40	3.4	41	81	7	152	20	22	23	33	1.97
60620141--60620179	3	13.0	3	100	0	78	66	0	0	33	0.92
60620588--60620671	31	2.7	31	79	3	89	52	7	1	39	1.37
60624181--60624219	18	2.2	18	86	9	53	66	12	7	12	1.43
60624364--60624498	59	2.3	59	80	1	171	37	9	17	35	1.82
60625550--60625579	2	15.0	2	100	0	60	50	0	0	50	1.00
60629851--60629894	18	2.6	17	82	10	54	22	9	25	43	1.82
60629950--60629979	16	1.9	15	93	6	51	40	13	10	36	1.78
60634701--60634731	12	2.6	12	94	0	53	35	35	3	25	1.72
60638701--60638768	6	11.3	6	100	0	136	33	0	16	50	1.45
60642339--60642403	29	2.4	26	78	14	85	52	1	1	44	1.19
60645744--60646132	171	2.3	170	89	3	584	40	13	12	33	1.83
60646619--60646676	31	1.9	30	82	10	73	43	0	0	56	0.99
60651071--60651241	87	2.0	87	91	0	279	33	15	19	30	1.94
60651437--60651470	16	2.1	16	88	0	50	41	2	20	35	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60659091--60659127	19	2.0	18	89	5	56	29	0	0	70	0.88
60659380--60659438	31	1.9	31	85	0	82	37	20	15	27	1.92
60662267--60662306	2	20.0	2	84	0	53	42	0	0	57	0.98
60676008--60676032	2	12.5	2	100	0	50	52	0	0	48	1.00
60693663--60693712	15	3.3	15	80	0	64	28	8	36	28	1.85
60693653--60693712	30	2.0	30	93	0	102	30	6	35	28	1.83
60696780--60696896	55	2.1	55	96	0	216	23	21	14	41	1.90
60697965--60698014	15	3.3	15	80	0	64	28	8	36	28	1.85
60697955--60698014	30	2.0	30	93	0	102	30	6	35	28	1.83
60707787--60707811	2	12.5	2	100	0	50	48	0	0	52	1.00
60708341--60708423	39	2.2	39	86	6	116	19	20	21	38	1.93
60708368--60708517	45	3.3	45	92	0	237	21	17	19	42	1.90
60708497--60708540	6	7.2	6	79	5	52	18	18	15	47	1.83
60709203--60709232	2	15.0	2	100	0	60	50	0	0	50	1.00
60719325--60719402	38	2.1	38	85	4	104	12	11	43	32	1.79
60721164--60721191	3	9.3	3	100	0	56	64	0	0	35	0.94
60722359--60722475	55	2.1	55	98	0	225	23	21	13	41	1.89
60731356--60731390	16	2.1	17	89	5	54	54	0	0	45	0.99
60732053--60732099	15	3.1	15	84	0	58	29	19	0	51	1.47
60732612--60732658	2	23.5	2	91	0	76	48	0	0	51	1.00
60733059--60733101	22	2.0	22	81	9	52	32	0	2	65	1.06
60750388--60750462	18	3.9	18	69	16	51	42	2	5	49	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60753239--60753490	101	2.5	101	86	0	351	28	32	14	24	1.94
60767484--60767509	2	13.0	2	100	0	52	50	0	0	50	1.00
60769570--60769596	2	13.5	2	100	0	54	48	0	0	51	1.00
60773208--60773250	22	1.9	23	85	4	61	34	6	0	58	1.25
60773703--60773883	97	1.9	97	88	0	272	30	13	18	37	1.89
60779939--60779981	18	2.4	17	82	17	52	23	16	2	58	1.50
60790380--60790696	162	2.0	162	93	3	541	30	24	13	31	1.93
60793153--60793243	47	1.9	47	89	8	141	61	3	2	32	1.24
60793436--60793460	1	25.0	1	100	0	50	100	0	0	0	0.00
60793518--60793542	6	4.2	6	100	0	50	84	0	16	0	0.63

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