genome.fa.s8.2.7.7.80.10.50.1000.10.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  10  of  190  ( 22705 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)
3042592--3044078	231	6.5	228	81	9	1016	27	15	20	36	1.93
3044279--3044404	30	4.2	29	81	11	148	30	22	5	41	1.76
3044286--3044402	59	2.0	60	86	5	166	32	23	4	40	1.74
3044651--3044685	11	3.1	11	87	4	52	65	14	20	0	1.26
3044764--3044828	14	4.4	14	74	14	58	75	4	20	0	0.98
3044755--3044814	32	1.9	32	89	3	95	75	10	15	0	1.05
3044766--3044824	16	3.7	16	74	17	59	74	5	20	0	1.00
3044928--3045000	4	17.8	4	76	16	69	75	1	23	0	0.88
3044931--3044991	13	4.8	13	82	9	72	77	0	22	0	0.78
3044939--3045012	11	7.4	11	73	24	58	74	1	24	0	0.90
3044928--3045016	29	3.0	30	79	12	96	74	1	24	0	0.89
3044933--3045013	39	2.1	40	86	9	114	75	1	23	0	0.88
3045428--3045474	23	2.0	24	87	4	69	17	0	4	78	0.90
3045427--3045462	19	1.9	19	88	5	56	16	0	5	77	0.94
3045806--3045976	39	4.4	38	76	12	154	33	13	10	42	1.78
3045767--3046103	20	17.2	20	65	21	103	35	11	9	43	1.75
3045806--3045976	38	4.4	37	78	14	177	33	13	10	42	1.78
3046050--3046156	36	2.9	36	82	10	128	37	9	10	42	1.71
3046117--3046161	21	2.2	20	88	8	63	53	6	6	33	1.53
3046030--3046161	20	7.0	20	69	19	97	40	9	10	39	1.71
3047100--3047369	132	2.0	133	95	1	488	38	10	9	42	1.71
3052104--3052139	2	18.0	2	100	0	72	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3055020--3055258	50	4.6	50	84	3	280	21	29	23	25	1.99
3055019--3055265	100	2.4	105	85	6	333	21	29	23	25	1.99
3055363--3055394	13	2.5	13	94	0	55	56	12	0	31	1.37
3059888--3059924	19	2.0	20	89	10	60	54	8	5	32	1.53
3079472--3079547	9	8.4	9	91	0	116	25	7	21	46	1.78
3081220--3081308	45	2.0	45	84	4	117	38	12	20	29	1.89
3081316--3081420	31	3.4	31	81	5	122	41	18	12	27	1.86
3081268--3081427	62	2.6	62	82	0	185	38	16	15	29	1.89
3087755--3087842	31	2.9	30	78	5	88	32	12	14	39	1.84
3088000--3088059	29	2.0	30	90	3	95	51	13	5	30	1.62
3088254--3088287	17	2.0	17	94	0	59	61	0	5	32	1.20
3088431--3088466	2	18.0	2	94	0	63	52	0	0	47	1.00
3088539--3088572	17	2.0	17	94	0	59	61	0	5	32	1.20
3088712--3088772	2	30.5	2	96	0	104	45	0	0	54	1.00
3088181--3088748	282	2.0	283	96	1	1057	47	10	5	36	1.62
3091684--3091723	18	2.2	18	86	0	53	40	12	2	45	1.56
3102966--3103000	13	2.6	13	90	4	52	8	14	17	60	1.58
3105096--3105191	38	2.5	38	86	0	129	37	15	15	31	1.89
3110734--3110785	22	2.3	23	83	12	63	51	1	0	46	1.12
3118653--3118724	29	2.4	30	77	9	76	45	2	1	50	1.25
3121181--3121219	15	2.6	16	84	8	55	66	0	0	33	0.92
3121181--3121219	16	2.5	15	87	4	51	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3122462--3122525	27	2.4	27	83	0	83	17	25	32	25	1.96
3122462--3122543	27	3.0	27	78	3	76	21	23	30	24	1.99
3125958--3126002	8	5.2	8	80	15	54	60	13	0	26	1.34
3125939--3126023	29	3.0	29	91	6	147	57	14	1	27	1.44
3125939--3126037	27	3.8	27	82	15	129	56	14	1	28	1.45
3125993--3126036	21	2.1	21	95	0	79	59	13	2	25	1.46
3125966--3126063	48	2.0	48	82	7	119	58	14	1	26	1.43
3126077--3126117	19	2.2	19	100	0	82	53	14	0	31	1.41
3126248--3126292	4	10.8	4	86	9	63	0	28	0	71	0.87
3126444--3126505	27	2.3	27	91	0	97	17	30	25	25	1.97
3134338--3134380	21	1.9	24	86	13	65	37	0	0	62	0.95
3137029--3137075	12	4.0	12	83	8	53	23	14	14	46	1.82
3138490--3138578	23	3.9	22	75	7	79	15	15	25	42	1.87
3143406--3143479	36	2.0	38	86	5	107	55	8	20	16	1.66
3146691--3146767	39	2.0	40	81	2	93	57	5	1	36	1.30
3148022--3148327	42	7.3	39	75	12	170	21	4	54	18	1.62
3148022--3148159	63	2.2	63	97	0	258	21	5	55	18	1.62
3148039--3148264	105	2.2	105	97	0	425	22	5	55	16	1.61
3148065--3148480	63	6.3	63	77	12	336	21	5	54	19	1.63
3148356--3148478	42	2.8	43	83	8	160	20	4	54	20	1.62
3148378--3148447	21	3.3	21	76	7	70	20	4	57	18	1.57
3148325--3148429	24	4.5	25	71	13	80	16	4	56	22	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3148400--3148460	18	3.1	18	75	24	68	26	4	54	14	1.61
3148345--3148431	24	3.8	24	72	14	83	19	5	56	18	1.61
3150873--3150907	2	17.5	2	93	0	61	48	0	0	51	1.00
3162447--3162552	42	2.5	42	83	3	115	41	14	22	21	1.89
3162461--3162624	21	7.8	21	74	0	121	44	15	22	17	1.86
3162480--3162615	63	2.2	63	89	0	200	41	15	23	19	1.89
3162461--3162623	42	3.9	42	83	0	146	44	15	22	17	1.86
3183071--3183140	15	4.6	15	72	10	52	40	2	1	55	1.23
3184208--3184250	18	2.4	18	88	0	59	41	41	4	11	1.62
3184279--3184322	12	3.4	13	87	9	63	65	11	0	22	1.24
3184285--3184330	6	6.7	7	90	10	53	60	13	2	23	1.43
3184349--3184411	9	6.9	9	88	1	90	22	9	25	42	1.83
3185417--3185446	6	4.8	6	95	4	51	16	0	53	30	1.44
3188879--3188949	33	2.2	33	100	0	142	30	30	18	19	1.96
3189768--3189832	9	7.1	9	82	3	76	43	27	9	20	1.82
3190286--3190335	21	2.4	21	83	9	66	76	0	24	0	0.80
3190356--3190415	18	3.3	18	71	17	61	41	3	8	46	1.50
3192157--3192216	2	30.5	2	96	3	113	50	0	0	50	1.00
3192864--3192924	31	2.0	30	83	3	77	40	14	11	32	1.82
3193370--3193413	14	3.1	14	84	9	63	22	4	0	72	1.02
3194313--3194359	10	4.7	10	78	17	53	19	0	4	76	0.95
3197067--3197180	38	3.1	37	74	9	92	34	18	5	42	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3212942--3212973	3	10.7	3	100	0	64	68	0	0	31	0.90
3215723--3215761	2	20.0	2	94	5	71	48	0	0	51	1.00
3227310--3227379	3	23.3	3	89	5	106	30	2	0	67	1.05
3230752--3230865	26	4.4	26	81	6	126	33	23	26	16	1.96
3233968--3234021	10	5.7	10	74	12	51	59	1	1	37	1.19
3234562--3234593	16	2.0	16	93	0	55	21	6	0	71	1.07
3234625--3234710	18	4.4	18	69	18	57	31	2	4	61	1.29
3234625--3234828	20	10.3	19	70	17	89	32	3	2	61	1.26
3234658--3234697	11	3.6	11	79	0	53	27	2	2	67	1.16
3234625--3234768	60	2.4	60	80	8	150	32	2	2	61	1.24
3234730--3234808	31	2.5	30	78	15	81	34	5	0	60	1.18
3234701--3234809	41	2.7	40	80	7	105	35	3	0	60	1.14
3243458--3243490	2	16.5	2	100	0	66	51	0	48	0	1.00
3244095--3244120	10	2.6	10	100	0	52	61	0	0	38	0.96
3244318--3244483	10	16.6	10	66	21	64	61	1	6	30	1.29
3244432--3244483	11	5.1	11	73	21	51	69	1	1	26	1.10
3244669--3244749	9	8.7	9	71	15	58	27	2	0	70	1.00
3244669--3244748	18	4.2	20	71	16	64	27	2	0	70	1.01
3244668--3244719	27	1.9	27	84	7	70	25	3	0	71	1.03
3244676--3244777	29	3.4	29	74	12	82	29	2	0	66	1.12
3247175--3247250	8	9.4	8	88	8	109	73	2	1	22	1.03
3249794--3249879	43	2.0	43	90	4	138	23	23	1	52	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3250529--3250569	19	2.2	18	86	4	55	34	17	0	48	1.47
3257134--3257160	3	9.0	3	100	0	54	66	0	33	0	0.92
3260132--3260190	22	2.7	22	78	2	57	6	8	13	71	1.30
3266451--3266560	56	2.0	56	92	0	184	28	29	12	30	1.93
3271903--3271944	17	2.6	16	85	7	57	30	2	0	66	1.04
3275681--3275724	15	3.1	15	81	18	51	54	4	34	6	1.47
3275690--3275733	3	14.7	3	80	0	52	56	4	34	4	1.40
3290141--3290189	23	2.1	23	100	0	98	30	12	8	48	1.69
3295300--3295643	174	2.0	171	83	5	433	40	22	13	22	1.89
3310138--3310296	45	3.6	45	77	4	135	33	24	15	25	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