genome.fa.s5.2.7.7.80.10.50.1000.140.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  140  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)
42831777--42831812	7	5.1	7	100	0	72	13	27	0	58	1.36
42853887--42853960	37	2.0	37	97	0	139	20	10	28	40	1.86
42858869--42858905	19	1.9	19	100	0	74	27	16	21	35	1.94
42859471--42859495	2	12.5	2	100	0	50	48	0	0	52	1.00
42859757--42859816	28	2.2	28	82	8	70	48	5	1	45	1.34
42865833--42865905	33	2.2	33	100	0	146	46	24	2	26	1.66
42865923--42865960	13	2.8	14	84	4	51	28	18	10	42	1.83
42872077--42872121	7	6.6	7	97	2	83	44	13	11	31	1.78
42874717--42874756	14	2.9	14	84	0	53	32	7	17	42	1.77
42874740--42874779	20	2.0	20	90	0	62	27	10	12	50	1.72
42874725--42874791	34	1.9	35	90	3	109	31	8	13	46	1.74
42874719--42874795	14	5.0	15	71	20	52	32	9	15	42	1.78
42874772--42874856	32	2.6	31	76	9	89	25	10	18	44	1.82
42874878--42874905	14	2.0	14	100	0	56	42	0	0	57	0.99
42875155--42875269	33	3.3	33	69	19	108	43	22	6	26	1.78
42875095--42875308	71	3.0	71	97	0	401	42	21	8	27	1.82
42876287--42876355	35	1.9	36	97	2	131	52	18	2	26	1.60
42876323--42876392	27	2.5	28	81	6	81	52	21	2	22	1.60
42880493--42880544	25	2.1	25	85	7	70	40	11	25	23	1.88
42885959--42886004	18	2.6	18	85	0	56	30	15	26	28	1.96
42898425--42898478	19	2.8	19	94	0	99	37	9	16	37	1.81
42898425--42898501	38	1.9	40	87	10	113	36	7	16	38	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42898683--42898727	23	2.0	23	81	0	54	22	0	15	62	1.33
42899717--42899760	21	2.1	21	100	0	88	52	0	13	34	1.41
42899970--42900019	20	2.5	21	87	9	77	58	6	10	26	1.54
42900855--42900903	8	6.1	8	77	17	57	69	2	0	28	1.00
42906480--42906527	21	2.3	21	89	7	71	4	16	4	75	1.12
42911047--42911081	17	2.0	18	88	5	54	22	5	14	57	1.59
42911802--42911930	43	3.0	44	81	10	167	25	17	27	28	1.98
42911806--42911930	44	2.9	43	82	9	164	24	18	28	28	1.98
42913879--42913966	43	2.2	41	80	11	101	48	5	3	42	1.43
42913954--42914008	25	2.2	25	81	12	60	49	5	1	43	1.36
42922788--42922847	25	2.4	25	76	18	61	48	20	10	21	1.78
42932999--42933052	27	2.0	27	100	0	108	44	11	18	25	1.83
42935973--42936013	20	2.0	20	95	0	73	14	36	4	43	1.67
42942894--42942930	17	2.2	17	100	0	74	51	5	10	32	1.60
42945202--42945528	90	3.6	90	84	0	440	51	14	7	26	1.69
42945617--42945659	21	2.0	22	82	13	54	65	9	2	23	1.34
42952767--42952797	2	15.5	2	100	0	62	48	0	0	51	1.00
42962415--42962460	21	2.1	23	88	8	69	13	26	21	39	1.90
42964979--42965081	51	2.0	51	96	3	190	45	18	7	28	1.77
42965032--42965137	33	3.2	34	83	10	105	42	16	8	33	1.78
42968477--42968525	15	2.9	18	80	20	61	44	0	0	55	0.99
42968477--42968531	15	3.4	16	80	16	53	43	0	1	54	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42968329--42968594	137	1.9	138	91	0	435	47	4	3	44	1.40
42968747--42968782	16	2.2	16	95	0	63	38	33	0	27	1.57
42969366--42969397	2	16.0	2	100	0	64	50	0	0	50	1.00
42970074--42970109	19	2.0	19	89	10	58	33	0	0	66	0.92
42970893--42971031	71	1.9	72	92	1	235	35	19	17	27	1.94
42974002--42974038	18	2.1	18	90	10	58	40	2	5	51	1.39
42974002--42974039	19	2.1	19	90	5	60	39	2	5	52	1.38
42976039--42976081	21	2.0	21	90	0	68	41	0	18	39	1.51
42976884--42976941	2	29.0	2	100	0	116	50	0	0	50	1.00
42976997--42977030	11	3.1	11	88	12	52	76	0	23	0	0.79
42977353--42977396	22	1.9	24	86	9	65	52	0	22	25	1.48
42978584--42978754	43	4.0	42	81	13	197	21	16	28	32	1.96
42978596--42978754	84	1.9	84	88	5	241	22	17	28	31	1.96
42978915--42978946	16	1.9	17	93	6	57	40	0	21	37	1.54
42982779--42982851	25	3.0	25	80	6	69	20	26	20	32	1.97
42985267--42985396	49	2.7	49	93	0	215	21	26	17	34	1.96
42992652--42993038	30	12.8	30	85	2	497	43	17	10	29	1.81
42994119--42994160	20	2.0	21	86	13	61	30	7	16	45	1.74
43000799--43000834	19	1.9	18	88	5	54	2	11	22	63	1.39
43004971--43005039	27	2.5	27	73	15	70	39	1	5	53	1.34
43008952--43008987	2	18.0	2	94	0	63	47	0	52	0	1.00
43010462--43010494	15	2.2	15	94	0	57	63	12	0	24	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43010931--43010975	22	2.0	23	82	4	56	62	4	4	28	1.34
43011034--43011093	26	2.3	26	83	8	77	75	1	3	20	1.04
43011903--43012101	64	3.1	65	63	16	169	22	12	16	48	1.80
43011851--43012106	128	2.0	128	100	0	512	25	12	15	46	1.81
43012594--43013582	217	4.5	217	91	2	1540	27	22	20	29	1.99
43013029--43013572	173	3.1	175	77	11	446	27	22	20	28	1.99
43012681--43013494	44	18.8	44	71	16	434	26	22	21	29	1.99
43026955--43026999	14	3.4	14	75	12	58	8	53	28	8	1.62
43026943--43027008	26	2.5	26	90	4	89	10	54	28	6	1.58
43026943--43026999	26	2.2	26	96	0	105	8	54	29	7	1.58
43036086--43036194	37	2.8	39	77	9	114	23	16	24	34	1.95
43036086--43036219	40	3.4	40	76	7	130	25	16	25	32	1.96
43058504--43058563	21	3.0	20	80	7	59	33	6	5	55	1.48
43059407--43059435	14	2.1	14	100	0	58	51	6	0	41	1.28
43063763--43063809	21	2.2	21	88	0	67	36	25	14	23	1.93
43064814--43064865	27	1.9	27	88	0	77	34	28	21	15	1.94
43065868--43065910	20	2.2	20	87	4	61	20	16	4	58	1.56
43068398--43068647	134	1.9	134	100	0	500	28	4	20	47	1.68
43072711--43072782	35	2.0	35	89	8	108	51	1	11	36	1.46
43075485--43075677	57	3.4	57	83	1	235	30	11	15	41	1.83
43075485--43075736	113	2.2	114	82	1	292	31	11	15	42	1.82
43075485--43075772	56	5.1	53	77	11	179	30	12	14	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43075570--43075774	113	1.8	113	81	9	249	31	11	13	43	1.79
43076427--43076656	113	2.0	113	97	0	433	35	12	14	37	1.84
43102786--43102819	16	2.1	16	100	0	68	64	5	11	17	1.45
43103898--43103953	26	2.0	29	86	10	82	51	0	1	46	1.11
43109780--43109826	2	23.5	2	100	0	94	51	0	0	48	1.00
43111644--43111686	16	2.6	16	81	7	50	55	2	2	39	1.25
43112367--43112465	52	2.1	46	85	14	130	50	5	8	36	1.54
43119949--43120025	40	1.9	40	86	5	111	37	3	2	55	1.32
43129777--43129807	15	2.1	15	93	0	53	25	32	3	38	1.72
43131860--43131915	29	1.9	29	82	7	69	19	10	16	53	1.71
43142709--43142792	43	1.9	43	92	2	141	33	25	26	15	1.95
43142710--43142824	42	2.7	43	84	9	112	34	24	23	17	1.96
43152083--43152132	21	2.4	20	83	12	57	48	20	6	26	1.72
43164896--43164952	30	1.9	30	100	0	114	28	26	31	14	1.94
43165109--43165138	12	2.5	12	94	0	51	16	30	30	23	1.96
43167741--43167778	20	1.9	20	94	0	67	23	7	0	68	1.16
43173027--43173067	11	3.7	11	96	0	73	41	2	0	56	1.13
43173015--43173078	22	3.0	21	74	17	60	35	1	0	62	1.05
43173361--43173413	21	2.5	20	76	8	52	35	1	11	50	1.49
43173623--43173724	25	4.1	25	70	9	91	33	19	20	26	1.97
43173579--43173738	25	6.4	25	65	11	67	33	21	20	24	1.97
43178445--43178506	21	3.0	21	68	0	52	14	24	17	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43178436--43178562	41	3.1	41	82	1	137	14	23	17	44	1.85
43180593--43180634	20	2.2	20	87	12	61	57	4	21	16	1.58
43181085--43181114	16	1.9	16	93	6	53	30	0	20	50	1.49
43181257--43181318	32	1.9	32	90	0	97	20	8	30	40	1.82
43183848--43184013	23	7.1	23	73	6	109	19	1	34	43	1.61
43183848--43183965	48	2.5	48	84	1	148	21	2	34	41	1.67
43188200--43188232	3	11.0	3	100	0	66	66	0	0	33	0.92
43190029--43190231	51	4.0	51	75	3	176	26	25	16	31	1.97
43190215--43190257	21	2.0	21	81	0	50	27	27	4	39	1.76
43190236--43190395	51	3.1	51	84	1	187	27	23	16	33	1.95

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