genome.fa.s2.2.7.7.80.10.50.1000.186.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  186  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)
56648389--56648422	2	17.0	2	100	0	68	50	0	0	50	1.00
56652159--56652203	24	1.9	24	90	4	74	33	4	11	51	1.58
56656062--56656129	27	2.5	28	88	4	104	38	10	2	48	1.52
56656131--56656174	18	2.4	19	88	11	74	86	9	0	4	0.70
56656327--56656502	18	10.0	17	70	17	78	65	0	33	0	0.97
56656329--56656430	24	4.3	23	71	11	73	66	0	33	0	0.92
56656332--56656411	34	2.8	28	75	24	85	67	0	32	0	0.91
56656347--56656504	38	4.3	36	82	11	171	67	0	32	0	0.96
56656349--56656473	10	12.7	10	71	16	82	67	0	32	0	0.97
56656420--56656503	32	2.6	33	82	14	88	69	0	29	1	0.97
56656329--56656479	10	15.1	10	68	20	59	67	0	31	0	0.96
56657268--56657318	18	2.8	18	87	3	66	25	0	7	66	1.18
56657357--56657422	27	2.4	27	92	7	107	42	7	0	50	1.31
56657422--56657465	18	2.4	19	88	11	74	84	9	2	4	0.85
56657422--56657464	17	2.4	18	92	3	70	86	6	2	4	0.79
56658764--56658800	17	2.2	17	100	0	74	29	16	8	45	1.76
56661802--56661971	82	2.1	82	96	0	313	34	14	14	36	1.87
56666270--56666303	17	2.0	17	94	0	59	14	35	20	29	1.93
56671557--56671606	3	16.7	3	100	0	100	66	0	0	34	0.92
56671605--56671633	3	9.7	3	100	0	58	34	31	0	34	1.58
56671919--56672019	27	3.7	27	85	0	94	10	36	26	25	1.89
56671941--56672021	27	3.0	27	88	0	117	9	39	23	27	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56672085--56672153	28	2.5	29	90	6	108	49	1	10	39	1.46
56672620--56672660	19	2.1	20	86	4	57	56	12	9	21	1.65
56673566--56673645	21	3.8	21	81	5	90	46	12	28	12	1.78
56676588--56676633	24	1.9	24	86	0	65	56	21	10	10	1.64
56686000--56686114	50	2.3	50	95	0	203	59	0	3	37	1.15
56685985--56686131	39	3.7	39	80	11	158	59	0	2	37	1.12
56686038--56686114	11	7.4	11	75	18	67	57	0	3	38	1.17
56686061--56686144	17	4.6	17	69	21	53	61	0	1	36	1.04
56685999--56686133	50	2.7	50	88	4	175	60	0	2	36	1.12
56687836--56687870	18	2.0	17	88	5	52	54	0	0	45	0.99
56688309--56688356	26	1.9	25	84	16	64	52	2	0	45	1.12
56688284--56688492	92	2.3	92	85	6	273	46	3	3	46	1.37
56695926--56695959	18	1.9	17	88	5	50	35	2	11	50	1.54
56696146--56696177	6	5.3	6	96	0	55	50	0	12	37	1.41
56696684--56696751	26	2.6	27	77	13	70	45	2	0	51	1.16
56696743--56696776	15	2.1	16	89	10	52	58	0	0	41	0.98
56701726--56701764	18	2.2	19	86	9	55	35	2	0	61	1.10
56707006--56707382	123	3.0	125	91	3	589	29	15	21	33	1.95
56710506--56710573	17	3.8	17	71	16	57	48	1	5	44	1.36
56710392--56710634	115	2.1	116	95	0	434	43	6	9	40	1.64
56710628--56711372	23	33.1	23	70	17	312	26	0	24	47	1.53
56710629--56711372	46	16.5	46	72	16	480	26	0	25	47	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56710708--56710739	15	2.2	15	94	5	57	21	0	21	56	1.43
56710662--56710857	61	3.1	61	83	11	241	24	0	26	48	1.55
56710660--56711375	68	10.6	67	74	17	503	26	0	25	47	1.54
56710837--56710944	53	2.0	53	84	7	139	27	0	24	48	1.52
56710814--56711321	67	7.0	76	71	20	263	27	0	25	46	1.53
56711003--56711079	38	2.0	37	85	9	102	25	0	25	48	1.52
56711404--56711459	25	2.3	23	80	11	67	41	12	0	46	1.42
56711415--56711462	25	1.9	25	95	0	87	39	12	0	47	1.41
56711891--56711930	18	2.2	18	95	0	71	40	7	30	22	1.81
56712776--56712813	20	1.9	20	84	10	51	55	7	2	34	1.43
56713790--56713829	11	3.6	11	93	6	64	42	0	35	22	1.54
56714141--56714166	12	2.2	12	100	0	52	26	7	15	50	1.71
56715099--56715142	19	2.3	19	84	7	54	72	6	6	13	1.25
56715777--56715812	3	12.0	3	87	0	54	61	0	38	0	0.96
56716175--56716245	36	2.0	37	94	0	110	16	11	25	46	1.80
56716921--56716980	18	3.2	18	75	13	66	10	13	38	38	1.78
56716922--56716990	21	3.4	21	79	13	74	10	13	40	36	1.78
56717633--56717672	9	4.2	9	84	12	53	42	27	10	20	1.83
56717631--56717674	20	2.2	20	95	0	79	47	25	9	18	1.77
56717631--56717663	11	3.2	11	83	16	52	45	27	9	18	1.79
56717592--56717733	68	2.1	66	96	2	257	35	18	16	30	1.93
56717701--56717732	9	3.6	9	100	0	64	37	28	9	25	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56717927--56717955	14	2.1	14	100	0	58	41	20	6	31	1.79
56722002--56722275	6	44.7	6	84	4	314	60	13	5	19	1.52
56722735--56722775	21	2.0	21	90	0	64	26	26	17	29	1.97
56726985--56727029	21	2.1	21	95	0	81	37	15	15	31	1.89
56733149--56733235	21	4.1	21	81	7	104	36	24	20	18	1.95
56733183--56733235	23	2.4	22	90	6	81	33	22	20	22	1.97
56733149--56733235	44	2.0	41	82	6	102	36	24	20	18	1.95
56733509--56733540	16	1.9	17	93	6	57	25	21	0	53	1.46
56734148--56734191	12	3.7	11	82	11	52	0	20	0	79	0.73
56734563--56734591	7	4.3	7	95	4	51	68	0	0	31	0.89
56734718--56734771	18	2.8	20	75	13	51	44	3	1	50	1.30
56736316--56736395	41	2.0	40	85	2	106	31	26	17	25	1.97
56736540--56736916	185	2.0	185	89	1	567	44	16	8	30	1.78
56736516--56736906	31	12.7	31	87	2	495	43	16	8	30	1.78
56736516--56736906	123	3.2	121	84	3	494	43	16	8	30	1.78
56739148--56739176	6	4.8	6	100	0	58	34	65	0	0	0.93
56747413--56747473	31	2.0	31	87	6	88	44	8	8	39	1.64
56750930--56750983	28	1.9	28	88	0	81	50	22	9	18	1.75
56751699--56751751	16	3.3	16	89	0	79	39	1	32	26	1.67
56751733--56751821	44	2.0	44	91	4	142	28	4	31	35	1.77
56760424--56760733	114	2.7	114	86	3	410	24	23	26	25	2.00
56760635--56760795	73	2.2	73	83	2	189	26	19	21	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56760521--56760917	187	2.1	187	85	0	515	26	22	23	27	1.99
56760435--56761101	301	2.2	299	84	2	899	25	23	24	26	2.00
56760703--56761034	114	2.9	115	85	2	436	25	23	23	27	2.00
56760932--56761178	72	3.4	72	87	3	354	24	23	25	27	2.00
56761711--56761785	14	5.1	14	75	10	60	28	1	32	38	1.65
56761766--56761805	14	2.9	14	88	0	53	20	0	45	35	1.51
56761777--56761815	12	3.0	13	88	7	53	17	0	51	30	1.46
56761778--56761832	19	2.7	20	80	11	58	23	0	45	30	1.53
56761910--56761948	14	2.8	14	84	0	51	23	0	43	33	1.54
56762382--56762462	24	3.2	24	78	13	99	44	0	9	45	1.37
56764508--56764672	13	12.5	13	75	7	127	40	9	4	46	1.56
56764532--56764681	53	2.8	53	94	0	264	40	10	4	45	1.56
56764876--56764919	23	1.9	23	95	0	79	43	18	0	38	1.50
56766556--56766645	21	4.3	21	85	0	99	34	20	42	3	1.68
56767029--56767300	42	6.4	43	79	5	279	26	19	21	32	1.97
56767048--56767301	85	3.0	84	82	4	287	26	20	21	31	1.97
56767359--56767401	21	2.0	22	86	4	61	46	20	18	13	1.83
56768906--56768959	19	2.8	19	97	0	99	35	11	18	35	1.86
56769674--56769731	25	2.3	25	75	3	62	31	6	0	62	1.22
56771620--56771664	19	2.4	19	85	7	56	26	24	11	37	1.89
56775898--56775953	24	2.3	24	100	0	112	32	12	26	28	1.93
56776237--56776683	44	10.1	44	78	6	382	30	18	23	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56776232--56776661	178	2.4	178	90	0	680	30	19	23	26	1.98
56776249--56776620	134	2.8	132	80	5	338	30	18	24	26	1.97
56776237--56776683	222	2.0	222	85	5	609	30	18	23	27	1.97
56777020--56777182	41	3.7	41	70	16	137	33	21	17	27	1.95
56776973--56777178	93	2.2	93	98	0	394	36	19	16	27	1.93
56777154--56777278	44	2.9	44	89	3	191	27	20	24	28	1.99
56777350--56777627	89	3.1	89	84	3	362	27	23	24	24	2.00
56779951--56780318	131	2.8	132	89	1	569	30	18	26	25	1.98
56780641--56780671	14	2.2	14	94	0	53	77	9	0	12	0.99
56780782--56780837	19	2.9	19	94	0	85	37	10	17	33	1.85

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