genome.fa.s7.2.7.7.80.10.50.1000.56.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   

This is table  56  of  204  ( 24458 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)
18185022--18185095	37	2.0	37	100	0	148	27	16	10	45	1.80
18196086--18196198	37	2.9	40	78	9	142	32	23	16	26	1.96
18197056--18197094	10	3.9	10	83	12	53	0	28	2	69	1.02
18197059--18197097	20	2.0	19	90	5	60	0	30	2	66	1.05
18197149--18197173	9	2.8	9	100	0	50	56	0	0	44	0.99
18202032--18202190	43	3.7	44	75	13	154	32	25	16	25	1.97
18206192--18206218	4	6.8	4	100	0	54	77	0	0	22	0.76
18206276--18206329	26	2.2	25	87	12	76	53	1	5	38	1.35
18206498--18206542	23	2.0	22	91	4	72	55	4	8	31	1.51
18220201--18220237	2	18.5	2	100	0	74	48	0	0	51	1.00
18227019--18227090	22	3.3	22	94	0	117	30	16	27	25	1.97
18227090--18227261	51	3.4	50	92	1	272	27	23	16	31	1.96
18230917--18230998	16	5.3	15	71	14	60	32	17	19	30	1.95
18233504--18233732	51	4.5	50	91	1	359	31	15	24	28	1.95
18233504--18233732	101	2.3	101	90	0	368	31	15	24	28	1.95
18236747--18236799	26	2.0	27	96	3	99	56	9	0	33	1.32
18236792--18236820	10	2.7	11	89	10	51	68	17	6	6	1.34
18236794--18236819	10	2.6	10	100	0	52	69	15	7	7	1.35
18236850--18236925	27	2.8	27	83	0	107	27	27	27	17	1.97
18237005--18237040	11	3.4	11	88	7	56	72	0	27	0	0.85
18237005--18237045	11	3.8	10	87	12	55	68	0	29	2	1.03
18237005--18237045	21	1.9	22	90	5	66	68	0	29	2	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18237051--18237145	47	2.0	47	100	0	190	29	0	10	60	1.30
18237068--18237153	21	4.0	21	68	21	61	26	0	10	62	1.27
18237223--18237248	3	8.7	3	100	0	52	0	0	30	69	0.89
18237438--18237490	26	2.0	26	96	0	97	43	0	7	49	1.31
18237496--18237532	12	3.1	12	92	0	56	21	0	16	62	1.33
18240936--18240985	15	3.2	16	72	8	50	32	12	22	34	1.90
18244127--18244165	19	2.0	21	85	10	55	23	2	10	64	1.37
18244235--18244263	3	9.7	3	100	0	58	0	0	31	68	0.89
18244453--18244505	26	2.0	26	96	0	97	43	0	7	49	1.31
18244419--18244591	62	2.8	62	96	1	314	36	0	11	52	1.38
18244479--18244591	36	3.4	36	73	22	138	35	0	12	52	1.39
18244515--18244567	26	2.0	26	96	0	97	43	0	7	49	1.31
18244573--18244609	12	3.1	12	92	0	56	21	0	16	62	1.33
18247745--18248193	160	2.8	158	72	14	393	30	12	8	49	1.69
18249034--18249159	39	3.1	40	77	12	141	0	32	0	67	0.91
18249078--18249228	4	37.0	4	76	16	100	0	32	0	67	0.91
18249034--18249223	29	7.0	28	68	21	88	0	33	0	66	0.92
18249043--18249228	40	4.5	42	78	15	176	0	32	0	67	0.91
18249017--18249223	83	2.5	80	84	10	251	0	31	0	68	0.90
18249047--18249219	39	4.3	39	78	17	167	0	32	0	67	0.91
18249127--18249218	35	2.7	34	83	11	100	0	33	0	66	0.92
18249273--18249339	27	2.5	27	92	0	107	16	26	28	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18249402--18249453	26	2.0	26	100	0	104	34	0	7	57	1.27
18252284--18252343	30	2.0	30	100	0	120	43	0	26	30	1.55
18252292--18252345	19	3.3	19	62	37	52	44	0	24	31	1.54
18254069--18254172	45	2.3	44	90	1	154	25	28	20	25	1.99
18254058--18254586	44	11.7	45	72	8	299	28	21	18	31	1.97
18254787--18254925	44	3.1	44	66	17	115	21	23	26	28	1.99
18255054--18255369	44	7.1	44	66	13	164	23	22	25	29	1.99
18254640--18255488	267	3.2	266	84	3	1032	23	22	24	29	1.99
18255174--18255566	45	8.8	45	72	7	185	25	22	22	28	1.99
18254640--18255458	89	9.2	89	84	2	914	22	22	24	30	1.99
18263159--18263206	18	2.7	18	80	0	60	45	12	14	27	1.81
18265816--18265950	43	3.2	41	82	5	153	27	32	19	20	1.97
18267447--18267477	5	6.2	5	100	0	62	19	0	0	80	0.71
18270293--18270405	15	6.3	16	67	28	52	38	4	1	54	1.31
18270298--18270434	58	2.4	58	97	2	258	40	5	1	53	1.32
18270298--18270456	58	2.7	58	90	3	196	40	5	3	50	1.40
18270720--18270761	15	2.9	15	85	3	50	35	45	0	19	1.50
18270760--18270793	7	4.7	7	85	7	50	41	32	0	26	1.56
18270692--18270793	14	7.1	15	73	16	56	39	37	0	23	1.55
18271041--18271074	7	4.7	7	85	7	50	41	32	0	26	1.56
18271037--18271074	14	2.7	15	84	12	53	44	28	0	26	1.54
18271037--18271083	15	3.3	15	85	8	62	42	31	0	25	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18271037--18271090	22	2.5	22	78	3	56	42	31	0	25	1.55
18270622--18271156	281	1.9	276	86	6	767	44	26	2	26	1.68
18271434--18271628	41	4.8	41	95	0	327	29	27	20	22	1.98
18272784--18272886	30	3.4	30	72	11	102	52	3	2	40	1.35
18272782--18272897	60	1.9	61	92	1	198	51	3	2	42	1.32
18275736--18275814	39	2.0	39	92	0	131	32	10	15	41	1.80
18278250--18278284	2	17.5	2	100	0	70	48	0	0	51	1.00
18281950--18282014	31	2.2	30	81	10	71	21	9	3	66	1.34
18294253--18294436	91	2.0	91	89	2	280	48	23	5	21	1.71
18295983--18296014	6	5.3	6	100	0	64	0	34	15	50	1.45
18301392--18301467	22	3.4	23	82	8	77	26	30	0	43	1.55
18301390--18301465	33	2.3	33	80	13	84	25	30	0	44	1.54
18301390--18301467	11	7.0	11	72	21	65	25	29	0	44	1.54
18301427--18301526	51	2.0	51	82	7	123	27	25	2	46	1.64
18301488--18301522	11	3.2	11	87	0	52	22	25	2	48	1.64
18302663--18302688	7	3.7	7	100	0	52	26	0	15	57	1.38
18303107--18303484	21	18.1	22	79	8	373	45	28	0	25	1.59
18303107--18303484	43	9.1	42	77	9	373	45	28	0	25	1.59
18303136--18303214	36	2.2	36	90	4	124	45	31	0	22	1.53
18303157--18303193	15	2.5	15	95	0	65	45	32	0	21	1.52
18303157--18303202	15	3.0	16	78	15	53	47	30	0	21	1.51
18303115--18303484	65	6.0	58	73	18	207	45	28	0	25	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18306637--18307079	126	3.5	125	85	3	545	29	23	16	30	1.96
18308131--18308187	23	2.4	23	82	5	60	50	0	0	49	1.00
18308151--18308196	24	2.0	23	86	4	65	45	2	0	52	1.13
18324361--18324400	17	2.4	17	100	0	80	7	20	15	57	1.61
18325519--18325560	2	21.0	2	100	0	84	50	0	0	50	1.00
18327013--18327039	7	3.9	7	100	0	54	29	14	40	14	1.86
18331844--18331877	17	2.0	17	88	0	50	76	0	23	0	0.79
18332672--18332728	3	19.3	3	85	3	80	29	1	3	64	1.20
18332867--18332922	25	2.3	23	77	22	60	37	7	0	55	1.27
18333530--18333582	9	6.1	9	86	8	83	54	11	0	33	1.36
18333529--18333585	25	2.3	25	93	0	96	54	10	0	35	1.35
18333655--18333696	16	2.6	16	92	0	66	42	7	2	47	1.43
18333670--18333730	22	2.8	22	84	0	77	47	1	1	49	1.21
18335075--18335132	30	2.0	29	86	10	82	60	0	3	36	1.14
18344030--18344122	33	2.8	35	69	18	90	55	7	3	33	1.44
18347935--18347990	27	2.1	27	86	6	78	33	3	1	60	1.24
18348771--18348836	21	3.1	21	74	8	80	53	3	3	40	1.32
18348781--18348815	7	5.0	7	96	0	61	60	0	0	40	0.97
18358647--18358691	22	2.2	20	84	8	54	46	6	11	35	1.66
18366213--18366313	26	3.9	25	78	10	105	40	7	17	33	1.79
18366227--18366298	25	2.8	25	80	2	90	38	6	20	33	1.80
18381376--18381625	52	4.9	52	90	5	395	34	15	23	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18381480--18381673	46	4.3	46	79	15	226	37	14	21	26	1.92
18381368--18381636	98	2.7	98	91	4	421	34	14	23	26	1.94
18381600--18381708	37	3.0	37	93	2	186	36	16	22	24	1.94
18382369--18382498	25	5.2	25	87	0	154	31	20	29	19	1.97
18384819--18384909	44	2.1	44	93	0	155	49	8	10	30	1.68
18397863--18398182	167	1.9	168	87	0	471	36	23	16	23	1.94
18399386--18399445	24	2.5	24	86	2	75	38	20	23	18	1.93
18403848--18403895	24	2.0	24	95	0	87	18	16	31	33	1.94
18406201--18406241	9	4.6	9	81	0	55	26	0	4	68	1.10
18406201--18406241	18	2.3	18	91	0	64	26	0	4	68	1.10

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