genome.fa.s2.2.7.7.80.10.50.1000.187.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  187  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)
56782543--56782584	19	2.2	20	87	8	61	45	11	9	33	1.73
56783668--56783711	23	1.9	23	90	0	70	50	6	22	20	1.72
56786721--56786757	11	3.5	11	78	14	51	10	18	21	48	1.78
56786720--56786759	20	2.0	20	100	0	80	10	20	20	50	1.76
56793673--56793716	22	2.0	22	100	0	88	50	22	9	18	1.75
56798911--56798941	15	2.1	15	93	0	53	45	0	9	45	1.36
56799529--56799556	7	4.0	7	100	0	56	85	0	0	14	0.59
56803293--56803388	30	3.2	29	77	14	97	28	20	22	28	1.99
56806442--56806483	6	7.0	6	94	0	66	38	0	45	16	1.48
56806552--56806639	27	3.2	27	86	1	122	25	18	37	19	1.94
56810321--56810370	21	2.5	21	87	6	68	32	18	16	34	1.92
56812265--56812553	51	5.7	50	83	5	305	29	15	25	30	1.96
56814894--56814957	22	2.9	22	76	0	56	45	15	21	17	1.85
56816739--56816773	10	3.5	10	92	0	52	17	11	5	65	1.43
56822608--56822659	16	3.2	16	83	5	70	28	0	32	38	1.57
56822896--56822930	18	2.0	17	88	5	52	54	0	0	45	0.99
56823032--56823073	15	2.7	16	82	14	52	52	2	0	45	1.13
56822790--56823098	156	2.0	157	95	0	557	44	2	5	48	1.39
56823041--56823082	15	2.9	15	82	10	52	52	0	0	47	1.00
56823151--56823202	15	3.6	15	80	12	56	53	1	0	44	1.11
56823030--56823320	120	2.4	120	96	0	537	49	5	2	43	1.36
56823368--56823415	26	1.9	25	84	16	64	52	2	0	45	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56823324--56823551	92	2.5	92	83	8	234	47	4	3	45	1.38
56828045--56828073	9	3.2	9	100	0	58	58	31	10	0	1.31
56831782--56831904	49	2.5	50	80	7	146	26	17	26	30	1.98
56834377--56834406	6	5.0	6	100	0	60	66	33	0	0	0.92
56838222--56838293	34	2.1	34	97	2	137	36	20	27	15	1.93
56839516--56839544	10	2.9	10	100	0	58	17	41	0	41	1.49
56839534--56839589	22	2.5	22	91	2	85	26	30	1	41	1.66
56839583--56839669	29	3.2	29	64	26	82	29	27	0	42	1.56
56839561--56839674	51	2.2	51	98	0	219	28	28	0	43	1.55
56839596--56839672	22	3.2	22	64	22	55	28	24	0	46	1.53
56840818--56840842	7	3.6	7	100	0	50	28	0	12	60	1.32
56841494--56841528	18	1.9	18	94	0	61	25	31	8	34	1.86
56841951--56842036	43	2.0	45	90	4	140	37	1	11	50	1.47
56841993--56842105	36	3.2	36	64	12	97	41	1	11	45	1.51
56842113--56842750	29	25.0	23	73	20	337	46	24	0	28	1.58
56842124--56842282	23	7.0	20	75	21	72	48	22	0	28	1.51
56842113--56842285	92	1.9	92	89	7	271	48	23	0	28	1.51
56842256--56842740	29	18.1	29	74	17	469	45	25	0	28	1.58
56842287--56842671	103	3.6	103	88	6	477	44	26	0	28	1.59
56842141--56842742	80	7.8	79	74	19	449	45	25	0	28	1.57
56842357--56842740	103	3.7	103	73	14	356	45	25	0	28	1.59
56842694--56842736	23	2.0	20	95	4	59	48	20	0	30	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56842747--56842984	116	2.1	116	93	0	404	37	9	8	44	1.68
56842960--56843001	17	2.4	18	80	4	50	42	9	2	45	1.49
56846016--56846484	123	3.8	123	90	1	699	34	22	15	27	1.94
56855607--56855659	19	2.7	18	78	21	54	35	7	13	43	1.72
56857492--56857550	23	2.6	22	82	10	75	44	20	3	32	1.68
56859712--56859765	25	2.2	25	93	0	90	35	22	22	20	1.96
56862067--56862111	21	2.1	22	91	4	74	40	2	0	57	1.11
56864474--56864515	10	4.2	10	87	6	59	78	0	21	0	0.75
56864482--56864523	7	6.1	7	80	5	50	76	0	23	0	0.79
56880081--56880282	102	2.0	101	92	0	332	30	26	21	21	1.98
56880185--56880321	42	3.5	42	75	17	157	32	25	18	22	1.97
56880183--56880356	75	2.3	75	92	0	294	33	25	19	20	1.96
56880046--56880386	177	1.9	177	91	0	556	31	26	20	21	1.98
56881172--56881334	79	2.1	79	91	0	263	31	12	23	32	1.92
56887341--56887377	18	2.1	18	100	0	74	43	18	0	37	1.51
56887536--56887590	14	4.0	14	70	13	51	25	23	21	29	1.99
56895445--56895495	24	2.0	24	85	7	66	68	0	17	13	1.21
56897729--56897792	20	3.2	20	93	2	101	50	6	1	42	1.37
56900885--56901530	215	3.0	215	93	1	1100	29	25	13	31	1.93
56909228--56909287	14	4.2	14	79	10	52	68	0	8	23	1.16
56910865--56911153	44	6.4	44	74	8	188	29	20	20	30	1.97
56911038--56911154	46	2.6	45	87	1	162	26	22	22	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56922585--56922620	16	2.3	16	90	4	56	69	0	0	30	0.89
56922583--56922632	21	2.3	21	83	10	57	68	2	2	28	1.12
56922887--56922921	18	1.9	18	94	0	61	60	0	2	37	1.12
56926559--56926693	72	1.9	72	85	3	191	37	8	12	40	1.75
56934964--56935074	42	2.7	42	92	4	181	34	22	18	25	1.96
56935262--56935432	60	2.8	61	79	11	188	43	16	4	34	1.69
56935227--56935438	61	3.5	58	76	10	192	44	16	4	35	1.67
56937306--56937378	28	2.6	29	84	8	96	32	21	5	39	1.77
56937411--56937472	32	1.9	32	83	6	81	56	17	0	25	1.41
56941039--56941074	6	6.0	6	96	0	63	16	2	0	80	0.83
56944519--56944555	15	2.4	16	91	8	60	75	0	13	10	1.04
56945876--56945964	29	3.0	27	71	14	70	62	4	2	30	1.27
56946421--56946453	18	1.9	17	88	11	50	63	18	12	6	1.48
56948825--56948920	8	11.6	8	71	18	56	33	1	1	64	1.07
56948823--56948896	19	4.0	19	75	13	66	36	1	0	62	1.04
56948842--56948921	26	2.8	30	82	14	91	33	0	1	65	1.01
56948836--56948921	9	9.4	9	73	21	65	32	0	1	66	1.00
56952318--56952411	45	2.1	45	95	0	170	35	25	8	30	1.86
56952508--56952571	32	2.0	32	93	0	110	29	18	3	48	1.64
56968150--56968227	39	2.0	39	97	0	147	47	11	7	33	1.68
56970362--56970395	16	2.1	16	88	0	50	55	2	0	41	1.15
56970631--56970664	13	2.6	13	85	0	50	50	14	2	32	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56972214--56972252	20	2.0	19	85	5	51	53	2	2	41	1.28
56972924--56972970	16	2.9	16	74	0	58	40	2	2	55	1.24
56974836--56974938	27	3.6	27	70	17	73	59	0	6	33	1.30
56974837--56974956	29	4.3	27	71	16	100	58	0	6	34	1.30
56975383--56975465	3	27.7	3	97	0	157	65	1	0	33	1.01
56975711--56975809	49	2.0	48	81	12	114	44	27	4	24	1.71
56976188--56976237	21	2.4	21	75	0	55	18	30	46	6	1.73
56979863--56979928	29	2.2	30	84	7	82	48	33	0	18	1.48
56980963--56980998	2	18.0	2	100	0	72	0	50	0	50	1.00
56987297--56987383	46	1.9	46	86	4	124	42	19	2	35	1.64
56998460--56998510	25	2.2	24	83	13	63	49	39	3	7	1.51
56999740--56999818	3	26.3	3	70	10	54	29	10	1	59	1.38
57000447--57000487	20	2.0	20	100	0	82	29	9	9	51	1.67
57012064--57012671	132	4.6	132	87	2	790	29	19	25	25	1.98
57012669--57012777	51	2.1	51	84	0	137	32	16	24	26	1.96
57012677--57012794	51	2.3	51	80	0	128	29	20	21	28	1.98
57014400--57014478	3	26.3	3	70	10	54	29	10	1	59	1.38
57016107--57016531	8	53.6	8	90	2	473	17	0	32	49	1.53
57020483--57020524	18	2.3	19	79	4	50	50	0	4	45	1.23
57022370--57022405	5	7.4	5	93	6	65	58	0	0	41	0.98
57023504--57023546	10	4.2	10	80	14	52	55	2	11	30	1.48
57023505--57023546	21	2.0	21	86	9	59	57	2	11	28	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57024826--57024940	40	2.9	39	83	3	149	41	26	15	15	1.87
57024826--57024954	40	3.3	39	79	7	143	41	27	16	14	1.87
57026379--57026434	28	2.0	28	100	0	112	35	14	14	35	1.86
57028023--57028099	38	2.0	38	94	0	136	22	25	31	20	1.98
57028065--57028223	66	2.4	66	80	6	178	25	21	28	23	1.99
57028287--57028352	30	2.2	30	88	0	96	22	33	24	19	1.97
57029054--57029096	22	2.0	22	100	0	86	37	13	25	23	1.92
57037505--57037579	23	3.0	25	82	7	91	46	10	16	26	1.79
57037505--57037579	12	6.2	12	80	9	80	46	10	16	26	1.79
57041561--57041659	19	5.4	19	87	3	132	38	6	18	37	1.75

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