genome.fa.s10.2.7.7.80.10.50.1000.9.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  9  of  202  ( 24201 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)
2996209--2996434	18	11.8	18	68	23	92	0	29	0	69	0.94
2996183--2996432	57	4.4	55	74	16	206	0	30	0	69	0.94
2996328--2996445	30	4.1	28	72	15	98	0	34	0	64	1.00
2996475--2996553	27	2.9	27	82	0	95	15	30	29	25	1.96
2996625--2996668	23	1.9	23	100	0	88	47	0	9	43	1.35
2998237--2998288	16	3.0	16	76	23	52	46	0	28	25	1.53
2998373--2998432	30	2.0	30	83	3	75	41	0	38	20	1.52
2998630--2998666	9	4.1	9	92	0	65	29	10	13	45	1.77
2998720--2998750	9	3.4	9	90	0	53	38	22	12	25	1.90
3001924--3001954	9	3.4	9	90	0	53	25	12	22	38	1.90
3002008--3002044	9	4.1	9	89	0	56	45	13	8	32	1.73
3002450--3002833	192	2.0	193	96	0	716	41	11	3	43	1.57
3003302--3003334	15	2.1	16	88	5	50	36	6	3	54	1.41
3005732--3006183	173	2.6	173	80	5	473	34	15	5	44	1.70
3006296--3006325	13	2.3	13	100	0	60	43	6	13	36	1.70
3007275--3007333	30	2.0	28	87	6	82	33	22	10	33	1.87
3013572--3013909	123	2.7	123	93	1	597	29	16	22	31	1.96
3016726--3016876	29	4.8	29	81	16	185	31	0	25	43	1.55
3016922--3017036	36	3.2	36	65	11	92	46	15	4	33	1.66
3016954--3017064	25	4.6	25	68	20	83	45	14	2	37	1.59
3016882--3017066	71	2.6	71	95	0	334	44	14	3	37	1.62
3018148--3018172	7	3.6	7	100	0	50	60	12	0	28	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3019253--3019317	10	6.5	10	74	0	58	64	0	0	35	0.94
3019253--3019317	30	2.2	30	100	0	130	64	0	0	35	0.94
3019318--3019439	51	2.4	51	91	4	192	41	0	28	29	1.56
3019412--3019437	12	2.2	12	100	0	52	38	0	30	30	1.58
3020511--3020547	17	2.1	19	90	10	60	64	2	0	32	1.07
3021481--3021573	31	3.1	30	78	12	75	35	7	7	49	1.59
3022102--3022145	17	2.4	17	85	11	52	75	2	4	18	1.09
3022184--3022232	24	1.9	25	84	12	64	67	0	4	28	1.09
3026360--3026394	18	2.0	18	88	5	54	54	5	8	31	1.54
3027576--3027609	3	11.3	3	87	12	52	61	0	2	35	1.11
3028839--3028887	13	3.9	13	75	20	50	59	0	0	40	0.98
3031370--3031453	39	2.2	39	97	0	159	36	17	21	23	1.94
3051264--3051310	24	2.0	24	91	0	76	36	6	25	31	1.81
3055458--3055808	153	2.3	152	92	1	569	29	9	8	52	1.63
3056574--3057055	150	3.2	151	88	4	670	52	6	9	30	1.59
3058333--3058414	33	2.5	33	84	9	114	30	15	7	46	1.73
3059020--3059147	63	2.0	63	93	0	220	42	13	14	29	1.83
3071354--3071405	24	2.1	25	85	3	70	38	21	23	17	1.93
3076769--3076794	2	13.0	2	100	0	52	50	0	0	50	1.00
3078362--3078759	20	19.8	20	65	14	97	20	17	9	52	1.71
3078350--3078469	38	3.1	38	76	8	116	20	19	6	53	1.67
3078348--3078410	18	3.3	18	74	10	63	22	17	3	57	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3078362--3078478	40	3.0	38	77	14	114	22	18	7	51	1.71
3078487--3078655	83	2.0	83	90	2	268	20	17	9	53	1.71
3078505--3078657	42	3.7	41	73	6	137	21	16	9	52	1.72
3079712--3079760	19	2.6	19	93	0	80	20	4	8	67	1.34
3092951--3092988	18	2.1	18	95	0	67	57	18	5	18	1.58
3093294--3093343	3	16.7	3	100	0	100	32	0	0	68	0.90
3093910--3093988	37	2.2	37	90	2	124	12	10	25	51	1.70
3096033--3096400	184	2.0	184	96	0	673	22	10	18	48	1.78
3099613--3099639	4	6.8	4	100	0	54	0	0	22	77	0.76
3102649--3102697	24	2.0	24	92	0	80	26	18	12	42	1.85
3102993--3103054	31	2.0	31	84	6	81	45	1	9	43	1.46
3103761--3103806	16	2.6	18	77	16	51	69	0	0	30	0.89
3104288--3104312	2	12.5	2	100	0	50	52	48	0	0	1.00
3118561--3118779	41	5.3	42	76	4	155	27	19	29	23	1.98
3118967--3119044	33	2.4	33	84	4	95	25	11	30	32	1.91
3121021--3121212	102	1.9	102	84	2	260	36	23	13	26	1.92
3124276--3124340	33	2.0	33	87	6	96	44	13	6	35	1.69
3126776--3126802	11	2.5	11	100	0	54	66	0	0	33	0.92
3127997--3128044	24	2.0	25	83	4	62	68	8	6	16	1.35
3130218--3130286	31	2.3	31	82	2	77	49	7	2	40	1.45
3131346--3131406	28	2.2	28	93	0	104	27	19	26	26	1.99
3131346--3131416	28	2.5	28	88	0	88	26	19	25	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3134973--3135149	87	2.0	88	95	1	320	44	7	18	29	1.77
3136996--3137047	27	1.9	27	100	0	104	15	21	32	30	1.94
3136921--3137122	102	2.0	102	94	0	350	21	19	27	31	1.97
3138485--3138514	2	15.0	2	100	0	60	50	0	0	50	1.00
3138832--3138874	22	2.0	22	86	9	61	18	23	16	41	1.89
3141109--3141199	23	4.0	23	95	0	146	30	25	21	21	1.99
3141294--3141322	8	3.6	8	100	0	58	34	27	13	24	1.93
3143153--3143200	18	2.4	21	80	19	59	31	0	0	68	0.90
3143152--3143198	21	2.2	20	88	7	67	29	0	0	70	0.88
3143149--3143191	12	3.8	12	79	17	56	27	0	0	72	0.85
3154612--3154732	53	2.2	54	82	2	145	38	23	16	20	1.92
3158325--3158445	60	2.1	57	81	6	136	29	11	13	45	1.78
3162726--3162766	21	2.0	21	85	9	57	24	9	0	65	1.22
3166351--3166379	13	2.1	14	93	6	51	82	0	17	0	0.66
3174132--3174169	13	2.9	13	88	0	58	26	10	23	39	1.87
3179546--3179592	22	2.1	22	88	0	67	25	17	29	27	1.97
3181798--3181897	50	2.0	50	94	0	173	36	19	12	33	1.88
3186219--3186243	6	4.2	6	100	0	50	16	32	0	52	1.44
3191381--3191447	34	1.9	35	90	3	109	32	8	13	44	1.75
3199949--3200009	17	3.6	16	75	14	50	72	0	9	18	1.11
3199947--3200007	27	2.3	28	80	8	74	70	0	11	18	1.16
3215041--3215084	20	2.2	20	92	4	72	70	0	0	29	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3215052--3215098	19	2.5	19	82	0	58	72	0	0	27	0.85
3216829--3216975	74	2.0	74	90	0	231	39	31	12	16	1.86
3220200--3220274	21	3.6	21	79	12	75	14	14	10	60	1.60
3224631--3224676	18	2.7	16	81	15	56	32	0	8	58	1.28
3225069--3225109	16	2.5	17	80	11	50	46	0	2	51	1.14
3228987--3229034	24	2.0	25	83	4	62	68	6	6	18	1.32
3229275--3229363	38	2.2	40	83	13	105	37	5	6	50	1.52
3239624--3239690	34	1.9	35	90	3	109	34	8	10	46	1.70
3242542--3242584	21	1.9	21	86	13	59	46	4	6	41	1.51
3243693--3243927	115	2.0	116	96	0	436	34	18	12	34	1.88
3253180--3253229	20	2.6	19	83	3	64	72	4	4	20	1.18
3256002--3256041	14	2.9	14	84	0	53	32	7	17	42	1.77
3256025--3256064	20	2.0	20	90	0	62	27	10	12	50	1.72
3256010--3256076	34	1.9	35	90	3	109	31	8	13	46	1.74
3257123--3257147	11	2.3	11	100	0	50	56	0	8	36	1.29
3260624--3260965	173	2.0	173	88	4	512	29	14	22	33	1.94
3263533--3263671	68	2.0	68	100	0	278	25	8	7	58	1.54
3263744--3263786	3	14.3	3	100	0	86	32	0	0	67	0.91
3272635--3272713	33	2.4	34	82	14	87	40	3	0	55	1.18
3272668--3272728	28	2.2	26	76	18	61	42	3	0	54	1.17
3273823--3273888	31	2.1	31	83	5	80	37	16	7	37	1.77
3274312--3274373	31	2.0	31	96	0	115	19	4	35	40	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3285602--3285635	18	1.9	17	88	5	50	61	0	0	38	0.96
3292286--3292346	31	2.0	31	90	0	95	47	13	6	32	1.68
3292945--3292981	13	2.8	14	84	12	51	54	0	0	45	1.00
3295928--3296002	20	4.1	19	68	22	70	56	0	5	38	1.22
3298241--3298317	31	2.5	31	78	4	93	25	18	12	42	1.86
3301926--3301955	3	10.0	3	100	0	60	66	0	0	33	0.92
3306702--3306727	3	8.7	3	100	0	52	30	0	0	69	0.89
3310401--3310444	22	2.0	22	82	8	54	54	2	4	38	1.33
3312900--3312997	27	3.7	27	72	13	87	30	2	5	62	1.28
3313629--3313693	29	2.2	29	94	0	112	33	15	16	33	1.91

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