genome.fa.s2.2.7.7.80.10.50.1000.136.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  136  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)
41596243--41596280	19	2.0	20	84	5	51	39	0	13	47	1.42
41600608--41600647	20	2.0	20	100	0	80	30	10	15	45	1.78
41600638--41600724	33	2.7	32	77	7	95	26	9	18	45	1.79
41602023--41602083	32	1.9	32	96	0	113	50	18	3	27	1.62
41602023--41602096	32	2.5	30	87	10	100	51	18	2	27	1.60
41602024--41602110	27	3.0	27	83	11	77	51	18	3	26	1.62
41607591--41607684	19	4.8	19	90	5	152	37	10	15	36	1.83
41607591--41607691	40	2.7	38	88	8	152	37	9	16	35	1.82
41607623--41607707	21	4.0	22	79	14	81	37	7	16	38	1.76
41607673--41607717	23	2.0	23	86	4	65	33	4	15	46	1.66
41608705--41608729	9	2.8	9	100	0	50	24	0	8	68	1.16
41613453--41613553	30	3.2	30	66	15	87	35	21	17	24	1.95
41613436--41613564	64	2.0	64	100	0	258	37	20	19	23	1.94
41615382--41615456	19	3.8	19	86	6	114	38	9	14	37	1.79
41615383--41615445	21	3.1	21	90	4	85	39	7	12	39	1.73
41615760--41615811	25	2.2	25	82	6	63	19	9	1	69	1.26
41616490--41616514	9	2.8	9	100	0	50	24	0	8	68	1.16
41622354--41623535	132	9.0	132	94	0	1974	28	17	24	30	1.97
41622707--41622888	44	4.1	44	66	16	106	30	17	23	29	1.97
41623764--41623801	19	2.0	19	94	0	67	36	13	15	34	1.87
41624388--41624412	9	2.8	9	100	0	50	24	0	8	68	1.16
41624693--41624887	98	2.0	98	94	0	345	29	9	24	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41634084--41634129	21	2.1	22	84	4	58	39	4	0	56	1.19
41641066--41641162	48	2.0	48	95	0	176	28	23	14	32	1.94
41642184--41642224	20	2.1	19	86	13	57	21	48	9	19	1.77
41655229--41655271	21	2.0	22	82	13	54	37	2	11	48	1.52
41656710--41656743	16	2.2	16	89	5	52	26	8	14	50	1.72
41663723--41663765	5	7.8	5	85	14	50	79	4	0	16	0.90
41663723--41663765	12	3.8	11	82	11	52	79	4	0	16	0.90
41663723--41663765	18	2.5	17	88	7	61	79	4	0	16	0.90
41665489--41665592	45	2.3	47	85	5	142	72	2	4	20	1.16
41670454--41670511	30	1.9	30	85	0	80	13	29	36	20	1.91
41684239--41684306	21	3.3	21	80	8	59	39	38	2	19	1.67
41684261--41684314	20	2.7	21	82	8	58	40	38	3	16	1.66
41684696--41684732	17	2.2	17	100	0	74	40	10	10	37	1.75
41685187--41685226	20	2.0	20	100	0	80	40	25	20	15	1.90
41685274--41685325	16	3.2	16	94	0	86	28	0	36	34	1.58
41685306--41685415	45	2.6	43	80	9	129	33	5	29	31	1.80
41685537--41685591	25	2.2	25	84	9	69	52	1	0	45	1.11
41685526--41685599	24	3.0	25	78	13	73	52	2	0	44	1.15
41685559--41685605	23	2.0	25	83	8	62	59	0	0	40	0.97
41685780--41685932	47	3.3	47	67	15	129	48	3	1	45	1.32
41685732--41685947	91	2.3	93	85	4	294	46	4	3	45	1.38
41688216--41688248	16	2.1	16	94	0	57	63	15	15	6	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41690605--41690684	5	16.2	5	80	17	87	42	0	0	57	0.98
41690878--41690924	22	2.1	22	81	14	53	70	8	21	0	1.14
41691281--41691324	23	1.9	24	90	9	74	54	0	20	25	1.45
41694240--41694343	35	3.0	35	86	0	145	14	16	29	39	1.88
41699587--41699725	50	2.8	50	87	4	192	21	30	20	28	1.98
41702049--41702392	46	7.6	46	95	1	581	33	15	22	28	1.95
41702049--41702394	137	2.5	138	93	2	585	33	15	21	28	1.95
41702049--41702394	183	1.9	180	92	2	586	33	15	21	28	1.95
41702989--41703463	50	9.6	50	85	5	617	19	33	20	27	1.96
41702989--41703463	147	3.2	147	93	1	772	19	33	20	27	1.96
41702989--41703467	197	2.4	196	90	3	723	19	33	20	27	1.96
41708252--41708298	17	2.6	17	83	12	51	61	4	0	34	1.15
41713367--41713589	88	2.5	86	80	8	234	41	17	8	32	1.80
41713409--41713589	88	2.0	89	86	3	249	38	18	9	33	1.84
41713668--41713734	20	3.3	20	80	10	73	61	0	4	34	1.16
41713676--41713764	19	4.6	19	72	18	69	62	0	3	33	1.11
41713703--41713756	17	3.1	17	74	12	56	64	0	3	31	1.11
41714008--41714050	18	2.3	18	84	4	50	41	0	0	58	0.98
41714019--41714106	46	2.0	43	82	10	106	35	2	0	62	1.08
41714044--41714099	19	2.8	19	76	13	60	32	3	0	64	1.11
41716444--41716572	64	2.0	64	100	0	258	37	10	7	44	1.69
41731328--41731369	19	2.2	19	95	0	75	45	14	11	28	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41731408--41731464	30	1.9	30	88	0	87	42	1	22	33	1.64
41731801--41732030	50	4.6	50	86	0	289	25	22	31	20	1.98
41735279--41735330	26	2.0	26	85	7	70	34	9	17	38	1.82
41740964--41740995	15	2.1	15	100	0	64	46	6	12	34	1.67
41754356--41754459	18	5.6	18	69	18	70	67	1	22	8	1.28
41761756--41761792	9	4.1	9	89	0	56	24	2	18	54	1.57
41765205--41765300	48	2.0	50	81	8	117	44	6	18	30	1.74
41773835--41773880	24	1.9	24	86	0	65	39	2	2	56	1.24
41776938--41777000	31	2.0	32	96	3	119	42	15	9	31	1.79
41785197--41785301	41	2.6	41	81	3	122	22	25	24	26	2.00
41793123--41793228	41	2.6	41	83	3	115	19	22	27	30	1.98
41815991--41816038	22	2.2	22	92	0	78	14	27	12	45	1.81
41815998--41816094	22	4.4	22	85	0	113	15	28	14	41	1.86
41822974--41823322	124	2.7	125	83	6	448	25	25	20	28	1.99
41822939--41823346	132	3.1	131	84	5	501	26	26	18	28	1.98
41823310--41823598	89	3.3	89	80	1	312	27	22	22	28	1.99
41823579--41823679	45	2.2	45	84	3	123	25	24	18	30	1.98
41823600--41824466	44	19.7	44	71	8	419	27	22	19	31	1.98
41823606--41824466	132	6.5	132	74	9	497	27	21	19	31	1.98
41824129--41824468	133	2.6	131	82	5	389	26	21	20	31	1.98
41824593--41824770	62	2.9	62	94	0	320	34	11	22	31	1.90
41824905--41824960	24	2.3	24	96	0	103	28	25	12	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41830600--41830732	70	1.9	70	92	0	221	34	21	15	29	1.93
41831176--41831213	19	1.9	19	89	5	58	81	0	10	7	0.87
41831499--41831549	3	17.0	3	95	0	93	64	0	1	33	1.05
41834491--41834548	22	2.6	22	81	7	64	41	17	5	36	1.72
41834738--41834780	23	1.9	23	90	4	70	18	11	4	65	1.42
41836067--41836129	21	3.0	21	72	17	60	26	0	4	68	1.10
41838097--41838141	19	2.3	20	75	20	51	26	22	8	42	1.83
41840775--41840856	43	1.9	42	87	2	119	42	20	24	12	1.86
41842316--41843458	198	5.7	197	90	3	1643	30	21	23	24	1.99
41842316--41843458	100	11.5	100	88	4	1593	30	21	23	24	1.99
41842316--41843474	50	23.3	50	66	7	536	30	20	23	24	1.99
41843646--41843804	79	2.0	79	93	0	273	27	22	23	27	1.99
41845242--41845300	3	19.3	3	83	10	75	33	3	0	62	1.12
41845538--41845580	22	2.0	21	86	8	61	30	4	4	60	1.37
41845949--41845973	2	12.5	2	100	0	50	48	0	0	52	1.00
41851198--41851226	3	9.7	3	100	0	58	68	0	31	0	0.89
41852004--41852037	15	2.3	15	89	0	50	67	2	2	26	1.19
41852865--41852919	23	2.5	22	76	8	58	29	0	16	54	1.42
41853697--41853738	23	1.9	21	85	9	57	40	0	19	40	1.51
41860352--41860384	7	4.7	7	100	0	66	30	0	0	69	0.88
41860352--41860393	14	2.9	14	92	3	57	30	0	2	66	1.04
41862543--41862725	29	6.4	28	84	4	170	34	23	14	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41867894--41868066	45	3.8	45	85	0	229	25	16	24	33	1.96
41867894--41868109	90	2.4	90	78	1	211	25	14	25	34	1.94
41871229--41871352	19	6.5	19	74	7	90	34	26	20	18	1.95
41872440--41872490	19	2.8	17	81	18	59	43	11	1	43	1.52
41875472--41875511	20	2.0	20	95	0	71	37	0	17	45	1.49
41881882--41881946	26	2.5	26	82	5	78	21	15	18	44	1.86
41881909--41882086	29	6.3	29	84	7	206	25	16	21	36	1.94
41884495--41884533	20	2.0	20	85	10	53	56	10	0	33	1.33
41884907--41884933	12	2.2	12	100	0	54	25	25	14	33	1.95
41889730--41889902	28	6.3	28	78	5	140	28	11	27	31	1.92

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