genome.fa.s5.2.7.7.80.10.50.1000.158.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  158  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)
48102524--48102622	51	1.9	51	97	0	189	20	3	33	43	1.67
48104501--48104664	43	3.8	42	79	4	159	31	26	17	24	1.97
48113359--48113459	49	2.1	49	88	0	148	55	12	13	17	1.69
48115021--48115071	26	1.9	27	92	4	86	31	21	19	27	1.97
48120464--48120498	16	2.2	16	94	0	61	45	11	5	37	1.64
48121659--48121723	29	2.2	30	83	8	80	58	0	6	35	1.23
48124406--48124467	29	2.1	29	84	0	79	22	22	20	33	1.97
48125600--48125856	92	2.8	92	92	2	414	47	12	9	31	1.72
48130159--48130209	23	2.2	23	89	6	77	29	9	19	41	1.84
48136687--48136810	60	2.1	60	84	4	162	33	22	17	26	1.96
48143699--48143767	19	3.6	19	71	13	52	28	8	2	59	1.42
48148914--48148985	29	2.4	28	81	11	72	76	6	8	8	1.16
48150581--48151144	86	6.5	86	91	0	876	29	23	23	23	1.99
48150722--48150943	43	5.2	43	62	12	123	27	23	25	23	2.00
48150851--48150986	43	3.2	43	65	15	109	29	27	22	21	1.99
48151246--48151362	44	2.7	44	83	0	162	26	19	24	29	1.99
48162603--48162678	40	1.9	40	83	5	100	32	13	32	21	1.91
48164364--48164396	16	2.1	16	100	0	66	36	6	36	21	1.78
48164378--48164472	44	2.1	45	84	5	122	32	6	28	32	1.82
48164628--48164662	18	2.0	17	88	5	52	54	0	0	45	0.99
48164720--48164766	14	3.5	14	78	16	55	55	0	0	44	0.99
48177498--48177600	27	3.8	26	84	5	118	38	20	17	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48177492--48177600	54	2.0	54	84	7	141	38	21	17	22	1.93
48191640--48191752	42	2.7	42	81	2	120	43	20	20	15	1.88
48220800--48220886	45	2.0	44	81	2	102	37	18	20	22	1.94
48221408--48221445	20	2.1	19	85	14	53	57	0	10	31	1.32
48222697--48222745	20	2.5	20	83	3	64	61	0	2	36	1.08
48223108--48223155	10	4.6	10	76	19	53	25	8	0	66	1.19
48223087--48223160	32	2.3	32	88	4	105	27	6	1	64	1.26
48228335--48228410	9	8.4	9	92	0	98	44	25	6	23	1.77
48228517--48228560	18	2.4	18	88	0	61	13	2	43	40	1.57
48229126--48229219	28	3.6	25	69	16	73	47	3	0	48	1.17
48233919--48233958	16	2.4	17	91	4	64	22	40	15	22	1.91
48234110--48234161	24	2.2	24	96	0	95	44	23	9	23	1.82
48236965--48237028	3	21.7	3	90	3	103	29	0	3	67	1.06
48239721--48239904	102	1.8	102	84	4	257	24	16	26	32	1.96
48239908--48240002	45	2.1	45	92	0	163	26	18	24	30	1.98
48247575--48247605	9	3.4	9	90	0	53	25	12	22	38	1.90
48247659--48247695	9	4.1	9	92	0	65	45	13	10	29	1.77
48247825--48247874	25	2.0	25	100	0	100	40	36	0	24	1.55
48247934--48247993	30	2.0	31	86	3	86	20	36	0	43	1.52
48248755--48248780	5	5.2	5	100	0	52	19	19	19	42	1.90
48254510--48254542	17	1.9	17	93	0	57	87	0	12	0	0.53
48263641--48263984	44	7.5	44	71	17	202	36	18	17	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48263752--48264066	51	6.6	51	72	13	269	34	18	17	28	1.94
48263622--48264066	95	4.8	94	83	5	469	35	17	17	29	1.93
48264681--48264719	8	4.9	8	81	12	53	64	2	20	12	1.40
48265833--48265876	3	15.0	3	85	4	63	29	2	2	65	1.16
48267502--48267655	60	2.6	59	84	3	184	29	14	25	30	1.95
48267644--48267839	61	3.2	61	86	0	268	31	13	28	27	1.94
48271492--48271529	20	1.9	20	94	0	67	44	0	0	55	0.99
48280937--48281385	221	2.0	221	99	0	880	34	12	17	34	1.88
48283336--48283389	21	2.6	21	78	0	54	29	35	20	14	1.93
48310082--48310369	125	2.3	125	93	0	504	30	20	21	27	1.98
48312237--48312304	30	2.3	30	82	10	77	14	16	41	27	1.87
48313944--48314001	29	2.1	27	84	9	73	58	3	1	36	1.25
48314003--48314036	11	3.2	11	87	8	52	41	0	35	23	1.55
48315062--48315133	25	2.9	25	89	2	110	54	1	1	43	1.17
48315054--48315134	25	2.8	30	75	19	91	53	1	1	44	1.16
48316524--48316554	13	2.4	13	94	0	53	45	0	12	41	1.42
48316563--48316588	12	2.2	12	100	0	52	11	0	15	73	1.11
48317908--48317933	1	26.0	1	100	0	52	0	0	0	100	0.00
48318602--48318673	24	3.0	24	75	11	67	26	4	4	65	1.29
48319254--48319323	35	2.0	35	97	0	131	45	10	2	41	1.52
48331816--48332640	415	2.0	418	95	0	1476	37	12	17	32	1.87
48333236--48333283	15	3.1	15	77	16	62	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48333226--48333276	26	2.0	26	85	11	70	35	0	0	64	0.94
48334032--48334306	138	2.0	138	97	0	514	39	17	20	22	1.92
48337408--48337437	14	2.1	14	100	0	60	30	13	20	36	1.90
48338522--48338616	38	2.5	38	89	3	129	33	18	11	35	1.87
48338543--48338617	38	2.0	38	97	0	141	34	16	13	36	1.87
48339917--48340454	269	2.0	269	85	0	736	31	17	26	24	1.97
48341087--48341149	26	2.4	27	78	7	67	44	0	3	52	1.17
48341194--48341224	15	2.1	15	93	0	53	58	0	0	41	0.98
48342691--48342761	29	2.4	30	76	9	74	38	12	7	42	1.70
48343116--48343148	2	16.5	2	100	0	66	48	0	0	51	1.00
48346421--48346459	2	19.5	2	100	0	78	48	0	0	51	1.00
48350163--48350270	57	1.9	57	92	0	180	32	13	17	36	1.89
48350988--48351046	22	2.8	20	78	14	64	42	1	1	54	1.20
48351989--48352023	15	2.3	15	90	0	52	31	0	0	68	0.90
48361896--48362135	101	2.4	101	90	1	374	33	16	22	27	1.95
48364788--48364837	21	2.4	21	80	3	57	70	4	8	18	1.28
48369812--48369854	22	2.0	22	85	0	59	0	27	16	55	1.41
48371486--48371541	19	2.8	19	94	5	94	37	10	16	35	1.83
48371487--48371564	19	3.6	24	80	16	75	37	8	15	38	1.79
48372169--48372233	23	3.0	21	79	16	71	21	0	4	73	1.00
48374663--48374691	13	2.2	13	100	0	58	48	0	31	20	1.50
48376999--48377178	44	4.1	43	65	14	98	27	17	27	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48377018--48377453	44	10.0	43	65	16	162	30	19	24	25	1.98
48376974--48377516	132	4.1	132	92	1	867	30	19	24	25	1.98
48376974--48377512	262	2.0	262	90	2	857	30	19	24	25	1.98
48377587--48378305	44	16.6	44	68	15	264	28	20	23	28	1.99
48377508--48378090	217	2.7	216	88	2	839	28	20	23	28	1.99
48377676--48377910	128	1.8	129	80	8	282	28	21	22	28	1.99
48377718--48378226	173	2.9	173	84	6	518	28	19	22	29	1.98
48377512--48378304	217	3.7	217	82	7	786	28	19	23	28	1.98
48378836--48378879	21	2.1	21	100	0	88	38	9	13	38	1.77
48378835--48378890	21	2.8	19	87	10	85	37	8	16	37	1.80
48378869--48378913	23	2.0	22	86	4	63	37	4	20	37	1.73
48378879--48378923	23	2.0	23	82	4	56	33	4	17	44	1.69
48381751--48381881	64	2.0	64	98	0	253	28	16	14	40	1.88
48382002--48382095	44	2.1	44	98	0	179	36	13	6	43	1.70
48382020--48382090	22	3.2	22	63	21	58	42	12	7	38	1.70
48382074--48382117	22	2.0	22	91	4	72	40	13	4	40	1.65
48382741--48382836	13	7.4	13	85	0	129	42	18	8	30	1.80
48382741--48382835	26	3.7	26	91	0	145	43	18	7	30	1.78
48389453--48389501	21	2.3	21	86	6	64	16	24	38	20	1.92
48390782--48390945	81	2.0	81	100	0	328	37	19	8	34	1.82
48392706--48394209	545	2.7	546	91	1	2341	39	12	16	30	1.86
48394800--48394827	14	2.0	14	100	0	56	7	28	0	64	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48394780--48394824	19	2.5	18	83	16	58	6	26	0	66	1.16
48394893--48394934	6	7.2	6	91	5	59	2	11	19	66	1.34
48397987--48398028	15	2.7	16	82	14	52	45	2	0	52	1.13
48398166--48398263	45	2.2	45	85	1	126	32	27	4	35	1.76
48398154--48398263	45	2.6	44	78	8	122	31	28	4	35	1.77
48398244--48398295	16	3.2	16	94	0	86	34	36	0	28	1.58
48401702--48401869	47	3.6	45	70	19	132	45	2	3	47	1.35
48401628--48401835	91	2.3	91	88	0	308	46	3	3	46	1.39
48401649--48401810	44	3.6	43	68	19	107	45	2	3	48	1.33
48401750--48401810	28	2.2	28	85	5	81	45	0	3	50	1.17

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