genome.fa.s2.2.7.7.80.10.50.1000.197.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  197  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)
59642047--59642162	59	2.0	59	81	3	135	45	17	13	23	1.84
59646879--59646903	12	2.1	12	100	0	50	24	36	24	16	1.94
59647064--59647149	9	9.4	9	88	7	120	39	27	10	22	1.87
59648649--59648723	13	5.8	13	87	0	105	30	10	25	33	1.90
59658683--59658727	20	2.2	20	100	0	90	53	17	15	13	1.73
59659123--59659225	9	11.2	9	71	18	52	64	0	1	33	1.11
59659180--59659226	17	2.6	18	87	12	69	68	0	0	31	0.90
59659180--59659325	10	15.6	9	69	15	73	61	4	3	30	1.33
59659180--59659301	37	3.3	36	72	20	99	61	4	3	30	1.33
59662842--59662891	22	2.3	23	86	6	68	56	0	0	44	0.99
59666655--59666708	28	1.9	28	81	7	65	51	0	14	33	1.43
59666745--59666788	17	2.6	17	78	3	54	52	2	6	38	1.41
59666765--59666791	10	2.7	10	100	0	54	55	0	7	37	1.28
59666812--59666861	2	25.0	2	91	0	82	48	2	2	48	1.24
59666963--59667040	38	2.0	39	87	9	115	48	7	11	32	1.68
59691523--59691558	2	18.0	2	100	0	72	0	0	50	50	1.00
59691558--59691606	2	24.5	2	95	0	89	48	0	48	2	1.12
59692761--59692789	2	14.5	2	100	0	58	48	0	0	51	1.00
59697160--59697198	15	2.5	15	87	4	51	51	12	0	35	1.40
59701689--59701766	3	25.0	3	75	12	68	28	3	1	66	1.17
59701690--59701766	22	3.7	22	72	16	65	27	3	1	67	1.16
59714025--59714130	52	2.1	52	98	1	205	12	9	11	66	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59714423--59714450	14	2.0	14	100	0	56	50	14	7	28	1.69
59715494--59715522	13	2.1	14	93	6	51	31	0	3	65	1.09
59716726--59716763	17	2.2	17	86	9	51	60	2	2	34	1.24
59723351--59723395	20	2.2	20	88	0	63	20	6	6	66	1.38
59724752--59724790	14	2.8	14	84	0	51	56	7	2	33	1.41
59726842--59727007	88	1.9	88	81	9	205	30	22	19	27	1.98
59726871--59727726	132	6.5	132	87	4	1221	28	24	18	28	1.98
59727720--59727837	43	2.7	45	73	5	114	19	26	29	24	1.98
59729091--59729121	14	2.3	13	94	5	53	12	16	0	70	1.16
59729083--59729124	8	5.9	7	86	13	59	14	19	0	66	1.25
59729081--59729124	21	2.1	21	100	0	88	15	20	0	63	1.31
59729086--59729136	21	2.4	21	87	6	68	15	23	0	60	1.35
59753164--59753237	38	2.0	36	89	5	112	33	21	9	35	1.86
59754075--59754100	5	5.2	5	100	0	52	80	0	0	19	0.71
59754111--59754157	23	2.0	23	84	8	60	40	0	0	59	0.97
59754100--59754157	24	2.5	22	81	18	64	39	1	0	58	1.08
59765913--59765976	3	21.3	3	85	0	83	32	6	0	60	1.21
59766107--59766139	16	2.1	16	94	0	57	39	0	3	57	1.14
59766317--59766351	15	2.3	15	90	5	52	37	14	0	48	1.44
59766617--59766833	109	2.0	109	94	0	382	29	17	18	34	1.94
59769593--59769641	25	1.9	27	84	12	68	20	16	8	55	1.66
59770313--59770372	6	9.7	6	79	12	50	70	8	6	15	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59770306--59770360	12	4.3	13	75	11	51	70	7	9	12	1.32
59771344--59771388	7	6.4	7	87	7	65	64	0	17	17	1.29
59771344--59771388	13	3.2	14	90	6	65	64	0	17	17	1.29
59772852--59772988	43	3.2	43	67	12	118	27	21	23	27	1.99
59772630--59773389	86	8.9	86	91	2	1203	30	21	23	24	1.99
59772630--59773389	255	3.0	257	90	2	1192	30	21	23	24	1.99
59773830--59774554	46	16.6	45	71	11	379	29	22	21	25	1.99
59773817--59774520	174	4.0	174	94	1	1146	30	22	21	25	1.99
59773827--59774520	349	2.0	348	92	2	1151	30	22	21	25	1.99
59773915--59774541	87	7.2	86	71	9	448	30	22	21	25	1.99
59775947--59776019	3	24.3	3	94	0	128	32	2	0	64	1.08
59776376--59776410	15	2.3	15	90	5	52	37	14	0	48	1.44
59776687--59776982	109	2.6	109	86	7	387	30	15	19	34	1.93
59781878--59781917	21	2.0	20	85	5	53	12	0	15	72	1.12
59783561--59783616	14	3.9	14	80	17	62	57	1	12	28	1.46
59784325--59784350	4	6.5	4	100	0	52	76	0	0	23	0.78
59800620--59800651	3	10.7	3	93	0	55	3	34	0	62	1.11
59801964--59802013	23	2.2	22	85	7	64	58	0	2	40	1.10
59802615--59802672	19	3.1	18	78	7	62	32	0	6	60	1.23
59802680--59802720	18	2.4	17	84	15	57	29	0	7	63	1.21
59804876--59804923	20	2.3	22	85	7	64	60	6	2	31	1.33
59813123--59813160	11	3.6	11	86	10	53	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59817129--59817263	56	2.4	56	86	0	180	31	10	14	44	1.78
59834112--59834155	23	1.9	23	86	9	63	36	13	9	40	1.76
59837989--59838057	29	2.3	29	95	2	120	53	8	14	23	1.68
59839796--59840555	45	17.1	45	74	5	580	28	23	17	30	1.97
59839796--59840201	89	4.6	89	95	0	740	28	23	17	30	1.97
59840144--59840556	89	4.7	88	80	6	415	28	22	18	30	1.98
59839797--59840288	267	1.8	267	86	2	711	28	23	17	30	1.97
59839796--59840288	178	2.8	178	88	1	587	28	23	17	30	1.97
59841811--59841895	44	2.0	42	86	9	118	15	21	20	43	1.88
59848233--59848275	16	2.8	15	79	6	50	53	0	0	46	1.00
59848235--59848272	19	2.0	19	85	10	51	55	0	0	44	0.99
59858042--59858084	2	21.5	2	95	0	77	48	0	0	51	1.00
59865525--59865633	25	4.4	25	75	9	89	24	24	14	35	1.93
59865601--59865667	25	2.7	26	73	13	68	25	19	20	34	1.96
59871168--59871286	59	2.0	59	100	0	238	31	15	23	30	1.95
59872955--59873006	24	2.2	24	92	0	86	51	7	3	36	1.49
59875092--59875117	2	13.0	2	100	0	52	50	0	0	50	1.00
59876784--59876815	2	16.0	2	100	0	64	50	0	0	50	1.00
59888183--59888217	16	2.2	16	95	5	63	37	0	0	62	0.95
59896065--59896145	26	3.2	25	77	8	85	20	19	20	38	1.94
59898033--59898146	43	2.7	43	88	0	165	29	26	15	28	1.96
59902338--59902508	23	7.5	23	77	3	166	23	19	25	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59902337--59902508	46	3.8	46	84	5	224	24	19	25	30	1.98
59905461--59905497	15	2.4	16	82	13	51	27	13	27	32	1.94
59905746--59905779	15	2.2	16	94	5	61	26	17	5	50	1.69
59910831--59910855	13	1.9	13	100	0	50	48	16	16	20	1.82
59920719--59920777	30	2.0	29	87	6	84	45	0	30	23	1.53
59924851--59924939	42	2.1	42	91	0	142	22	25	37	14	1.92
59932367--59932886	125	4.1	126	86	2	708	36	15	17	29	1.91
59932367--59932886	251	2.1	251	87	2	742	36	15	17	29	1.91
59936189--59936225	18	2.1	18	89	0	56	40	8	24	27	1.83
59939827--59939911	20	4.2	20	73	5	80	57	17	5	18	1.59
59939827--59939907	21	3.9	21	73	7	67	56	17	6	19	1.61
59939833--59939914	42	2.0	41	87	2	119	56	17	7	19	1.64
59940929--59940985	24	2.4	24	87	0	78	38	7	8	45	1.62
59954026--59954063	17	2.2	17	90	0	58	52	7	0	39	1.31
59954040--59954077	20	1.9	20	88	0	58	50	2	2	44	1.30
59956247--59956586	44	7.8	44	72	10	164	29	18	17	34	1.94
59956367--59956575	44	4.7	45	83	3	253	29	19	17	34	1.94
59956375--59956593	89	2.5	89	88	0	314	29	19	16	34	1.94
59968298--59968329	14	2.3	14	94	0	55	50	12	0	37	1.41
59968327--59968368	17	2.5	17	96	0	75	47	4	2	45	1.36
59968310--59968368	20	3.1	19	80	14	68	49	6	1	42	1.39
59968726--59968764	4	9.8	4	82	0	51	74	2	2	20	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59970085--59970111	12	2.2	12	100	0	54	18	7	22	51	1.70
59971064--59971127	29	2.2	28	80	2	74	23	12	17	46	1.81
59974640--59974724	23	3.7	23	90	0	107	31	1	17	49	1.55
59974691--59975144	29	15.8	29	89	1	684	30	0	25	43	1.58
59976520--59976588	32	2.2	32	89	5	104	63	0	1	34	1.03
59976622--59976672	22	2.3	21	83	9	66	37	0	31	31	1.58
59976625--59976723	52	1.9	52	93	0	171	39	0	31	29	1.57
59976677--59976723	22	2.1	22	96	0	85	40	0	34	25	1.56
59979914--59980192	94	3.0	95	80	13	348	31	22	20	26	1.98
59980043--59980226	50	3.8	50	77	15	215	29	20	20	29	1.98

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