genome.fa.s5.2.7.7.80.10.50.1000.145.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   207   208   

This is table  145  of  208  ( 24913 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)
44145136--44145418	79	3.7	76	80	6	256	44	11	12	31	1.77
44149911--44149973	20	2.8	22	79	18	60	38	0	3	58	1.14
44153790--44153886	40	2.5	40	82	1	124	10	15	27	46	1.78
44155676--44155711	18	2.1	18	94	5	65	36	11	2	50	1.53
44161513--44161560	25	1.9	25	95	0	87	50	39	0	10	1.37
44166053--44166093	16	2.4	18	88	8	59	24	12	0	63	1.28
44166608--44166759	77	2.0	77	81	2	180	46	9	9	34	1.69
44172538--44172637	45	2.2	45	82	3	121	26	24	11	39	1.88
44182539--44182571	17	1.9	17	93	0	57	48	0	12	39	1.40
44183301--44183392	40	2.3	40	96	0	166	33	4	20	41	1.72
44184226--44184273	19	2.6	18	83	9	60	52	2	25	20	1.58
44185652--44185744	48	1.9	48	89	4	143	46	7	24	21	1.77
44187255--44187289	9	3.9	9	85	14	54	45	8	0	45	1.34
44189965--44190012	24	2.0	24	95	0	87	37	18	8	35	1.81
44190315--44190376	7	8.6	7	92	7	106	14	0	43	41	1.45
44190315--44190376	15	4.3	14	93	6	106	14	0	43	41	1.45
44190315--44190376	22	2.9	22	97	2	117	14	0	43	41	1.45
44190918--44191046	63	2.0	63	96	0	240	27	20	32	18	1.96
44190928--44191045	21	5.7	20	73	11	94	27	21	33	17	1.96
44190918--44191061	63	2.3	63	92	0	225	27	21	31	19	1.97
44193139--44193306	51	3.3	51	99	0	329	33	7	19	38	1.81
44221408--44221493	45	1.9	45	82	0	109	46	3	8	41	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44221825--44221855	2	15.5	2	100	0	62	51	0	0	48	1.00
44222407--44222444	19	2.0	20	84	5	51	60	10	0	28	1.30
44228993--44229118	43	3.0	42	73	12	130	24	15	25	34	1.94
44235045--44235089	22	2.0	22	100	0	90	31	0	35	33	1.58
44235302--44235348	19	2.5	19	85	0	67	31	12	23	31	1.92
44236557--44236605	17	2.8	17	81	3	53	14	4	6	75	1.14
44238785--44238814	9	3.3	9	90	0	51	56	6	0	36	1.26
44240708--44240762	23	2.4	23	84	6	67	60	0	1	38	1.08
44244305--44244331	13	2.1	13	100	0	54	29	0	7	62	1.22
44251308--44251464	38	4.2	38	86	0	208	13	22	31	33	1.92
44253011--44253064	24	2.2	24	87	6	74	31	3	7	57	1.44
44253275--44253318	18	2.4	18	84	0	52	18	0	18	63	1.31
44260394--44260995	50	12.2	50	80	3	590	33	22	18	24	1.97
44260869--44261011	50	2.9	50	85	4	128	34	20	21	22	1.96
44262014--44262067	24	2.2	24	87	6	74	31	3	7	57	1.44
44262302--44262345	18	2.4	18	84	0	52	18	0	18	63	1.31
44268792--44268854	25	2.5	25	82	5	83	33	15	25	25	1.95
44268901--44269041	25	5.6	25	70	15	87	33	21	25	19	1.97
44268982--44269041	26	2.3	25	85	0	75	36	21	23	18	1.95
44288571--44288646	28	2.5	30	75	8	75	55	5	5	34	1.45
44290263--44290600	44	7.7	45	72	14	206	26	21	21	30	1.98
44290303--44290622	88	3.6	87	79	7	324	26	21	20	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44290303--44290622	132	2.4	131	77	10	337	26	21	20	32	1.97
44290627--44290845	44	4.9	45	72	6	185	23	20	24	31	1.98
44290626--44290860	89	2.6	89	85	1	319	23	20	23	31	1.98
44292957--44293043	3	28.7	3	83	11	106	28	2	2	66	1.16
44293342--44293371	2	15.0	2	92	0	51	53	0	0	46	1.00
44294770--44294824	7	8.1	7	76	15	53	0	23	0	76	0.79
44294770--44294835	27	2.6	25	88	7	89	0	22	0	77	0.77
44294799--44294835	20	1.9	20	88	5	58	0	21	0	78	0.75
44297539--44297567	11	2.6	11	100	0	58	10	27	17	44	1.81
44297709--44297761	24	2.2	25	86	3	72	45	3	22	28	1.70
44299967--44300041	28	2.5	30	78	8	82	56	5	4	34	1.41
44301306--44301332	9	3.0	9	100	0	54	11	33	33	22	1.89
44304853--44304920	29	2.3	29	100	0	136	26	7	19	47	1.75
44312193--44312226	16	2.1	16	88	5	50	50	5	5	38	1.51
44314074--44314115	22	1.9	22	95	0	75	42	26	7	23	1.80
44314280--44314337	30	1.9	31	85	3	82	48	3	20	27	1.66
44322016--44322079	33	1.9	33	90	0	101	17	23	15	43	1.87
44328795--44328874	20	3.9	20	80	6	88	28	20	21	30	1.98
44328969--44328993	9	2.8	9	100	0	50	24	20	36	20	1.95
44330530--44330584	16	3.4	16	74	18	60	45	3	30	20	1.68
44330527--44330587	32	1.9	32	96	0	113	44	3	29	22	1.69
44330601--44330692	39	2.4	39	86	0	130	40	17	16	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44334965--44335025	32	1.9	32	93	0	104	45	3	27	22	1.68
44335039--44335130	39	2.4	39	94	0	157	38	16	19	26	1.92
44337305--44337365	30	2.0	30	96	0	113	16	21	32	29	1.95
44340789--44340814	2	13.0	2	100	0	52	50	0	0	50	1.00
44348178--44348692	257	2.0	252	88	6	772	37	15	8	37	1.79
44349795--44349828	3	11.3	3	100	0	68	32	0	0	67	0.91
44349924--44350051	40	3.2	40	75	11	122	34	21	23	21	1.97
44349940--44350067	40	3.2	40	80	3	143	35	21	19	22	1.96
44350103--44350511	41	10.0	41	88	2	498	20	22	26	30	1.98
44350740--44350772	14	2.3	15	94	5	59	30	0	33	36	1.58
44351038--44351109	28	2.5	29	75	8	76	20	2	38	37	1.68
44355363--44355390	2	14.0	2	100	0	56	50	0	0	50	1.00
44357657--44357716	30	2.0	31	83	3	77	40	0	38	21	1.54
44357825--44357886	30	2.1	30	87	0	88	41	0	38	19	1.51
44357928--44357964	9	4.1	9	92	0	65	29	10	13	45	1.77
44358016--44358046	9	3.4	9	90	0	53	38	22	12	25	1.90
44358150--44358215	19	3.3	19	74	12	69	18	3	19	59	1.51
44358163--44358241	25	3.5	24	66	24	64	13	7	17	60	1.56
44358150--44358231	41	2.0	41	92	0	137	15	7	19	57	1.62
44358555--44358819	43	6.2	43	84	2	291	21	19	30	28	1.98
44358855--44358896	22	1.9	22	95	0	75	40	28	21	9	1.84
44361796--44361851	7	8.0	7	91	0	94	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44362760--44362795	16	2.2	16	90	0	54	58	0	16	25	1.38
44365233--44365288	28	2.0	28	100	0	112	46	10	10	32	1.73
44366698--44366811	57	2.0	58	87	1	167	28	18	7	45	1.75
44367896--44367922	4	6.8	4	100	0	54	77	0	0	22	0.76
44370450--44370590	39	3.6	39	88	0	210	45	19	4	30	1.70
44371084--44371128	23	1.9	24	86	13	67	48	22	6	22	1.73
44371164--44371268	52	2.0	52	100	0	210	34	19	14	32	1.91
44376832--44376967	39	3.5	39	91	0	218	45	22	3	28	1.69
44376879--44376940	17	3.4	17	69	26	54	46	24	1	27	1.62
44376890--44376962	22	3.5	22	70	25	68	46	24	2	26	1.66
44377872--44377912	18	2.3	18	84	16	50	63	4	7	24	1.40
44379026--44379102	24	3.0	25	73	14	75	25	22	23	28	1.99
44379442--44379715	27	10.2	27	82	3	241	20	14	20	44	1.86
44386774--44386850	26	3.0	26	73	7	75	38	22	20	18	1.93
44387029--44387249	27	8.2	27	84	7	227	20	15	19	43	1.87
44392216--44392469	127	2.0	127	100	0	508	43	12	14	29	1.83
44392561--44392602	22	1.9	22	85	0	57	40	16	4	38	1.70
44403144--44403192	22	2.1	24	78	17	59	38	12	4	44	1.61
44409212--44409349	26	5.3	26	70	2	71	33	17	25	23	1.96
44409416--44409470	26	2.2	26	83	3	67	21	20	27	30	1.98
44409423--44409474	26	2.0	26	88	0	77	21	17	30	30	1.96
44423119--44423152	17	2.0	17	100	0	68	58	5	0	35	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44428363--44428408	4	11.8	4	77	13	51	23	2	2	71	1.08
44428364--44428409	16	2.9	16	81	12	58	23	4	2	69	1.17
44435135--44435305	44	3.9	44	89	3	209	32	16	21	29	1.95
44436579--44436633	4	13.8	4	85	11	69	23	1	0	74	0.91
44436576--44436626	17	3.0	18	86	11	72	23	1	0	74	0.92
44445005--44445110	53	2.0	55	90	7	173	58	1	6	33	1.35
44446765--44446983	45	5.0	44	73	6	147	32	20	13	34	1.91
44446715--44447109	44	8.8	45	71	10	184	29	19	15	35	1.92
44446913--44447085	95	1.8	96	89	1	276	27	17	16	38	1.91
44447209--44447334	44	2.9	43	80	3	144	30	20	18	30	1.96

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   207   208