genome.fa.s5.2.7.7.80.10.50.1000.130.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  130  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)
39878709--39879052	112	3.1	112	90	0	508	37	11	22	28	1.89
39878709--39879027	56	5.7	56	84	1	415	37	12	22	26	1.90
39881204--39881256	20	2.7	20	77	16	56	26	22	9	41	1.84
39888267--39888359	20	4.6	20	76	10	73	58	4	16	21	1.55
39888286--39888333	22	2.2	22	84	0	60	64	6	12	16	1.46
39888590--39888810	20	10.9	20	64	11	72	57	8	14	19	1.61
39889116--39889230	20	5.8	20	80	1	106	51	12	18	18	1.76
39889469--39889537	20	3.4	21	75	11	65	55	11	10	23	1.66
39889883--39890017	37	3.6	37	89	2	200	50	13	3	32	1.59
39889893--39889990	17	5.4	17	66	13	61	51	13	3	32	1.56
39889900--39889999	20	5.3	20	66	13	77	50	13	4	33	1.60
39893230--39893269	21	1.9	21	85	10	55	62	2	10	25	1.39
39893539--39893655	19	5.5	19	67	21	72	20	1	35	41	1.63
39893558--39893634	25	3.3	25	68	20	85	18	2	33	45	1.63
39893536--39893658	44	2.8	44	98	1	239	20	1	34	43	1.62
39893642--39893666	13	1.9	13	100	0	50	16	0	44	40	1.47
39899524--39899572	17	2.9	17	76	8	55	36	2	0	61	1.08
39900115--39900227	60	1.9	60	81	7	140	23	14	13	49	1.78
39900603--39900782	62	2.9	64	79	6	183	47	12	16	22	1.81
39901454--39901478	13	1.9	13	100	0	50	64	0	4	32	1.12
39910695--39910768	19	3.8	20	84	10	91	56	5	0	37	1.22
39910686--39910760	18	4.0	19	83	8	82	61	4	0	34	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39910705--39910768	20	3.2	20	86	10	80	56	6	0	37	1.25
39912907--39913014	50	2.1	51	93	1	182	25	15	12	46	1.82
39913154--39913193	16	2.6	15	88	7	62	55	5	0	40	1.22
39913472--39913638	39	4.3	39	89	4	241	55	5	9	29	1.56
39913719--39913837	60	2.0	60	91	0	193	52	11	0	35	1.44
39913929--39914038	52	2.1	52	91	3	177	48	11	14	25	1.78
39915071--39915128	15	3.8	15	72	26	50	62	3	5	29	1.33
39915409--39915440	2	16.0	2	100	0	64	50	0	0	50	1.00
39916453--39916495	17	2.5	17	88	0	68	60	0	0	39	0.97
39916456--39916495	8	4.7	9	84	12	57	60	0	0	40	0.97
39920054--39920083	14	2.1	14	93	0	51	50	6	3	40	1.45
39925152--39925215	33	1.9	33	90	6	103	46	10	3	39	1.55
39926084--39926116	17	1.9	17	88	11	50	78	3	15	3	0.99
39927988--39928038	25	2.0	25	100	0	102	52	3	7	35	1.49
39929739--39929778	20	2.0	20	85	9	55	10	22	15	52	1.71
39933612--39933655	23	1.9	22	82	17	54	38	22	0	38	1.55
39933825--39933905	12	6.3	13	67	30	50	35	29	12	22	1.91
39933825--39934016	51	3.8	51	80	8	221	31	28	16	23	1.96
39933827--39934011	101	1.8	101	89	3	291	31	27	16	24	1.97
39933822--39934045	101	2.2	101	81	5	274	30	28	15	25	1.96
39935881--39935910	14	2.1	14	100	0	60	46	6	6	40	1.56
39938106--39938188	39	2.1	39	100	0	166	60	4	14	20	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39940398--39940427	16	1.9	16	93	6	53	66	0	3	30	1.07
39949873--39949926	28	1.9	28	100	0	108	40	20	12	25	1.88
39956802--39956830	15	1.9	15	100	0	58	27	27	13	31	1.94
39958648--39958679	13	2.4	14	94	5	57	34	6	18	40	1.76
39967464--39967655	104	1.8	105	97	1	368	30	19	24	25	1.98
39971070--39971131	31	2.0	31	93	0	106	46	9	20	22	1.80
39974811--39974887	24	3.2	24	92	0	127	33	7	25	32	1.85
39981112--39981393	22	12.8	22	66	10	112	37	19	25	17	1.93
39981222--39981401	66	2.7	65	73	8	150	38	18	25	17	1.92
39982713--39982799	30	2.9	30	83	6	113	54	12	4	28	1.58
39982771--39982845	38	2.0	38	84	5	98	54	14	4	26	1.58
39982863--39982925	25	2.5	26	82	5	76	47	17	4	30	1.68
39982863--39982924	13	4.9	13	80	5	65	48	17	4	29	1.68
39990121--39990156	14	2.6	14	90	0	54	41	38	2	16	1.63
39991521--39991545	13	1.9	13	100	0	50	0	8	28	64	1.22
39992267--39992313	19	2.5	19	85	0	67	25	6	19	48	1.72
39992703--39992728	4	6.5	4	100	0	52	76	0	0	23	0.78
40003613--40003646	13	2.6	13	86	13	52	41	2	0	55	1.15
40003610--40003643	14	2.5	13	86	9	50	35	2	0	61	1.11
40006590--40006641	24	2.2	24	89	0	77	53	7	3	34	1.48
40010094--40010144	18	2.8	19	71	17	54	64	0	0	35	0.94
40010110--40010165	28	2.0	27	86	3	76	66	1	0	32	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40011779--40011824	17	2.6	17	80	16	58	28	4	0	67	1.10
40014429--40014570	45	3.2	46	80	6	123	19	21	21	38	1.94
40014470--40014570	45	2.2	45	87	0	139	17	21	21	38	1.93
40017474--40017513	16	2.5	16	91	0	62	47	2	7	42	1.45
40017502--40017647	75	2.1	69	87	11	208	41	4	7	45	1.53
40017583--40017621	16	2.4	16	95	0	69	38	0	5	56	1.22
40017738--40017879	60	2.4	60	98	0	275	29	20	11	38	1.87
40017919--40017984	19	3.4	19	87	4	87	68	6	4	21	1.30
40018040--40018105	20	3.3	20	80	14	75	68	7	4	19	1.32
40018051--40018105	13	4.2	13	77	9	51	70	9	1	18	1.22
40018120--40018154	16	2.2	16	100	0	70	71	11	0	17	1.14
40018357--40018413	25	2.4	24	82	8	71	21	8	7	63	1.47
40036465--40036510	20	2.3	20	78	14	51	8	6	8	76	1.17
40051445--40051540	48	2.0	48	81	0	111	36	21	6	35	1.79
40051787--40051913	49	2.6	49	82	0	146	28	32	14	25	1.94
40056743--40056773	3	10.3	3	92	0	53	0	35	3	61	1.12
40058664--40058846	101	1.8	102	89	5	291	26	17	26	30	1.97
40058664--40058846	51	3.6	50	78	6	156	26	17	26	30	1.97
40059192--40059239	24	2.0	24	100	0	96	50	0	20	29	1.49
40060505--40060547	15	2.9	15	76	13	52	37	9	13	39	1.78
40060491--40060547	30	1.9	30	100	0	114	36	10	12	40	1.77
40067545--40067645	39	2.6	39	84	6	127	37	29	11	20	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40070731--40070805	36	2.1	36	97	0	141	38	8	9	44	1.66
40084250--40084327	28	2.8	28	84	5	86	44	24	14	16	1.84
40084253--40084358	29	3.6	30	80	10	112	43	24	14	17	1.86
40085348--40085393	24	2.0	23	82	4	56	28	28	26	17	1.98
40085131--40086104	325	3.0	324	94	0	1723	29	19	21	28	1.98
40087002--40087043	18	2.3	18	87	0	57	23	7	45	23	1.78
40087013--40087051	18	2.2	18	95	0	69	20	15	38	25	1.92
40104112--40104515	73	5.5	74	81	5	480	28	14	21	35	1.92
40104073--40104515	36	12.0	37	80	6	479	28	13	21	35	1.92
40104112--40104515	109	3.7	109	86	2	542	28	14	21	35	1.92
40113120--40113153	17	2.0	17	88	0	50	35	11	8	44	1.72
40113510--40113546	14	2.5	15	86	8	58	24	0	8	67	1.17
40114239--40114279	15	2.8	16	78	14	52	73	4	2	19	1.13
40124081--40124268	43	4.4	43	83	2	216	29	28	17	25	1.97
40124629--40124719	43	2.1	43	85	2	121	45	8	10	35	1.71
40129355--40129403	14	3.4	14	77	5	53	48	30	2	18	1.59
40130064--40130114	18	2.6	20	87	9	70	64	13	7	13	1.48
40130270--40130447	7	24.9	7	66	11	65	45	33	1	19	1.60
40130271--40130447	14	11.9	14	68	18	99	45	33	1	19	1.60
40130271--40130447	29	5.9	29	67	22	91	45	33	1	19	1.60
40130342--40130447	21	5.0	21	70	13	72	47	31	1	19	1.61
40130622--40130826	41	5.0	41	80	6	204	30	27	19	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40143497--40143536	22	1.9	20	85	10	53	27	7	0	65	1.20
40147757--40147830	38	1.9	38	100	0	148	39	18	5	36	1.74
40151534--40151576	20	2.2	20	92	8	72	44	18	0	37	1.50
40159542--40159586	18	2.5	19	89	7	67	73	2	0	24	0.95
40160495--40160523	3	9.7	3	100	0	58	68	0	0	31	0.89
40161110--40161273	61	2.9	55	77	12	188	23	17	18	40	1.91
40164258--40164319	6	10.5	6	73	3	54	45	1	17	35	1.59
40164258--40164319	18	3.5	18	74	12	65	45	1	17	35	1.59
40164502--40164543	11	3.7	11	83	3	57	54	2	11	30	1.49
40164530--40164569	17	2.4	17	95	0	71	57	0	5	37	1.21

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