genome.fa.s10.2.7.7.80.10.50.1000.11.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  11  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)
3657674--3657699	5	5.2	5	100	0	52	42	19	19	19	1.90
3658171--3658218	19	2.6	19	78	18	57	60	0	2	37	1.09
3658556--3658592	9	4.1	9	92	0	65	29	10	13	45	1.77
3665511--3665550	19	2.0	20	85	4	55	25	20	7	47	1.75
3669707--3670468	44	17.3	44	66	13	264	29	18	24	28	1.98
3669709--3670512	132	6.1	132	88	2	1166	28	18	24	28	1.98
3669709--3670484	265	2.9	263	87	3	1144	28	18	24	28	1.98
3670504--3670617	44	2.6	44	90	0	183	33	13	23	29	1.93
3672157--3672198	21	2.0	21	85	0	57	30	4	2	61	1.29
3672391--3672423	2	16.5	2	100	0	66	48	0	0	51	1.00
3709168--3709285	57	2.1	57	98	0	227	40	12	18	27	1.87
3720092--3720133	14	3.1	14	86	3	50	59	2	0	38	1.10
3722647--3722673	6	4.5	6	100	0	54	0	0	18	81	0.69
3734063--3734165	43	2.4	43	83	4	120	43	21	16	18	1.88
3734104--3734190	43	2.0	43	82	4	104	44	18	17	19	1.87
3734306--3734435	49	2.7	49	93	2	217	28	13	14	43	1.84
3739465--3739498	16	2.1	17	89	10	54	26	14	11	47	1.79
3743001--3743032	10	3.3	10	95	4	57	75	6	0	18	1.01
3742968--3743106	42	3.0	47	81	13	164	62	1	3	32	1.21
3743071--3743096	11	2.4	11	100	0	52	53	0	7	38	1.30
3748203--3748251	23	2.1	22	82	14	55	30	2	0	67	1.02
3749037--3749132	45	2.1	45	94	3	167	35	8	9	46	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3756705--3756741	18	2.1	18	100	0	74	24	21	21	32	1.98
3763404--3763468	27	2.4	27	78	0	76	35	18	16	29	1.93
3768179--3768277	42	2.4	42	92	0	162	20	25	16	38	1.92
3769165--3769230	27	2.4	27	79	0	78	36	18	16	28	1.93
3785864--3785920	19	2.7	21	76	18	55	56	1	1	40	1.20
3787053--3787095	18	2.4	18	84	7	52	55	2	0	41	1.12
3789454--3789506	20	2.7	21	88	8	76	35	0	3	60	1.15
3791392--3791454	33	1.9	33	84	9	85	44	4	3	47	1.40
3791447--3791480	17	1.9	18	88	5	52	8	23	14	52	1.69
3806286--3806335	26	1.9	26	87	0	73	10	20	24	46	1.81
3810781--3810830	26	1.9	26	83	0	64	10	18	24	48	1.78
3814279--3814308	7	4.3	7	95	0	51	20	43	13	23	1.86
3821229--3821614	190	2.0	190	98	0	754	33	20	17	27	1.95
3834407--3834440	17	2.0	17	88	0	50	64	8	0	26	1.22
3834993--3835018	7	3.7	7	100	0	52	15	0	61	23	1.33
3835646--3835692	14	3.4	14	79	2	51	80	2	6	10	0.96
3837810--3837895	27	3.2	26	76	9	91	66	6	2	24	1.28
3849342--3849378	16	2.3	16	95	0	65	37	5	32	24	1.78
3849547--3849836	120	2.4	121	93	2	514	51	4	1	43	1.27
3855495--3855524	9	3.3	9	100	0	60	0	10	0	90	0.47
3862648--3862681	15	2.3	15	89	0	50	41	23	8	26	1.83
3866425--3866477	28	1.9	28	85	11	74	35	9	7	47	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3871398--3871438	3	13.7	3	100	0	82	34	0	0	65	0.93
3886766--3886966	100	2.0	100	100	0	402	36	2	13	46	1.59
3889290--3889319	15	2.0	15	93	0	51	36	6	0	56	1.26
3923326--3923367	22	2.0	20	86	9	57	57	4	19	19	1.58
3923583--3923637	21	2.6	21	82	0	65	30	36	7	25	1.83
3923900--3923941	19	2.3	18	87	4	57	69	4	0	26	1.08
3925273--3925661	158	2.5	150	89	3	571	29	24	21	23	1.99
3928433--3928517	21	4.0	21	79	10	93	16	18	24	40	1.91
3929607--3929642	18	2.0	18	88	0	54	38	0	0	61	0.96
3942105--3942132	2	14.0	2	100	0	56	50	0	0	50	1.00
3942412--3942481	9	7.4	9	71	19	54	70	0	0	30	0.88
3942405--3942481	10	8.0	10	83	11	81	68	0	0	31	0.90
3942405--3942476	21	3.7	21	78	10	66	68	0	0	31	0.90
3949493--3949613	8	14.2	8	70	17	66	16	4	2	76	1.08
3949493--3949522	15	2.0	15	93	0	51	13	3	0	83	0.77
3949533--3949566	17	2.0	17	88	0	50	14	8	2	73	1.19
3949564--3949612	26	2.0	25	92	8	82	18	0	2	79	0.83
3949657--3949701	20	2.2	20	80	7	56	51	0	0	48	1.00
3950069--3950116	13	3.5	13	78	15	51	58	0	2	39	1.10
3950181--3950249	7	9.7	7	87	3	102	60	0	0	39	0.97
3950637--3950701	20	3.2	20	69	16	62	38	7	3	50	1.47
3950628--3950712	40	2.1	41	93	2	145	36	7	3	52	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3950636--3950723	40	2.2	40	85	4	115	37	6	3	52	1.45
3950782--3950928	71	2.1	72	88	1	215	51	2	2	42	1.30
3951068--3951126	6	10.0	6	80	12	52	79	1	3	15	0.94
3951056--3951121	30	2.1	32	83	5	82	75	1	3	19	1.01
3951378--3951448	19	3.6	19	70	20	65	59	1	0	39	1.06
3951380--3951458	21	3.9	21	73	20	78	58	1	1	39	1.14
3951470--3951544	14	5.5	14	73	17	59	53	1	1	44	1.17
3951503--3951600	35	2.8	33	82	14	119	55	2	3	39	1.27
3951721--3951762	19	2.3	18	80	12	50	73	4	9	11	1.22
3952576--3952614	18	2.1	19	90	4	62	46	12	20	20	1.83
3953258--3953293	3	12.0	3	93	0	63	66	2	0	30	1.06
3957059--3957222	17	9.2	17	76	15	109	43	12	12	31	1.80
3957058--3957222	34	4.7	35	79	10	167	43	12	12	32	1.80
3957130--3957170	19	2.1	20	90	4	66	34	9	9	46	1.70
3957058--3957216	37	4.5	35	79	14	157	43	12	13	30	1.81
3957326--3957367	21	2.0	20	90	4	66	40	9	14	35	1.78
3957529--3957563	5	7.0	5	100	0	70	80	0	0	20	0.72
3957519--3957579	20	3.0	20	82	2	77	72	0	0	27	0.85
3957538--3957588	15	3.4	15	84	12	61	76	0	0	23	0.79
3957722--3957841	9	12.7	9	73	12	98	0	19	0	80	0.77
3957726--3957838	7	16.6	7	77	20	89	0	20	0	78	0.80
3957724--3957818	14	6.8	14	78	14	99	0	18	1	80	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3957720--3957843	24	5.4	23	74	17	91	0	19	0	79	0.77
3958079--3958108	14	2.1	14	93	0	51	10	23	46	20	1.80
3958502--3958644	30	4.9	30	83	5	177	40	4	21	33	1.73
3958519--3958650	58	2.2	60	87	2	196	40	5	21	32	1.76
3958817--3959445	76	8.3	75	88	5	899	35	21	16	25	1.94
3958834--3959432	153	3.9	154	91	4	937	34	22	16	26	1.95
3958817--3959446	229	2.7	230	90	4	920	36	21	16	25	1.94
3966352--3966598	17	14.1	17	70	12	160	43	11	12	31	1.79
3966366--3966597	35	6.6	36	77	12	128	43	11	12	32	1.79
3966352--3966475	35	3.5	35	78	14	121	45	12	9	32	1.74
3966702--3966743	21	2.0	20	90	4	66	40	9	14	35	1.78
3966906--3966943	5	7.4	5	94	5	67	76	0	0	23	0.79
3967097--3967168	9	8.1	9	75	18	62	1	15	0	83	0.72
3967096--3967191	25	3.9	25	78	10	108	2	16	0	81	0.79
3967101--3967186	30	2.8	31	81	13	90	2	16	0	81	0.79
3967099--3967191	43	2.2	42	83	7	116	2	15	0	82	0.76
3967099--3967191	21	4.4	20	79	16	98	2	15	0	82	0.76
3967331--3967378	25	1.9	25	82	0	60	6	8	4	81	0.98
3967331--3967379	26	1.9	25	83	4	62	6	8	4	81	0.97
3967330--3967384	26	2.3	23	76	14	56	5	7	3	83	0.89
3967477--3967538	20	3.3	20	78	14	62	0	27	0	72	0.85
3967487--3967545	16	4.1	15	78	18	63	0	28	0	71	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3967475--3967531	30	1.9	30	85	7	80	0	26	0	73	0.83
3967496--3967545	3	16.0	3	80	15	57	0	30	0	70	0.88
3967628--3967690	21	3.0	21	76	9	65	1	34	0	63	1.04
3967925--3968069	30	4.9	30	84	3	177	39	3	24	32	1.72
3967938--3968069	59	2.2	60	84	1	185	38	3	25	32	1.74
3969604--3969674	25	2.8	25	78	6	81	21	26	15	36	1.93
3969685--3969751	25	2.7	25	74	2	73	26	25	14	32	1.95
3974248--3974292	21	2.1	21	95	0	81	20	15	4	60	1.52
3978733--3978771	5	7.8	5	100	0	78	61	0	0	38	0.96
3985200--3985243	22	2.0	21	82	4	52	15	6	2	75	1.12

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