genome.fa.s10.2.7.7.80.10.50.1000.31.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  31  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)
9017781--9017824	14	3.1	14	86	0	61	31	31	9	27	1.88
9019972--9020013	22	1.9	23	85	9	61	59	7	2	30	1.37
9022714--9022743	12	2.5	12	94	0	51	33	13	10	43	1.77
9029551--9029600	5	10.0	5	80	8	57	18	6	0	76	0.99
9030837--9030866	12	2.5	12	94	0	51	33	13	10	43	1.77
9033408--9033447	2	20.0	2	94	0	71	47	0	0	52	1.00
9033583--9033691	41	2.7	41	85	0	137	19	21	28	31	1.97
9034344--9034376	2	16.5	2	100	0	66	48	0	0	51	1.00
9034540--9034799	139	1.9	139	84	3	353	26	8	18	45	1.79
9034516--9034796	70	4.0	69	83	5	323	25	9	18	45	1.79
9034616--9034814	23	8.6	23	70	13	113	27	8	19	45	1.78
9038511--9038564	25	2.3	25	75	18	62	53	7	3	35	1.47
9038661--9038702	21	2.0	21	81	13	50	61	14	11	11	1.56
9040185--9040222	17	2.2	18	85	4	51	52	0	5	42	1.24
9041521--9041570	26	1.9	26	83	0	64	36	16	22	26	1.94
9043575--9043610	15	2.2	16	90	9	56	27	0	0	72	0.85
9044505--9044538	17	1.9	17	88	5	50	20	14	8	55	1.65
9045603--9045639	19	2.0	20	89	10	60	37	21	10	29	1.88
9058034--9058071	17	2.2	17	95	0	67	42	23	15	18	1.89
9058032--9058080	17	2.5	19	78	21	57	40	22	14	22	1.90
9058492--9058595	41	2.6	42	84	4	126	17	24	17	41	1.90
9064683--9064734	22	2.4	22	100	0	104	38	0	57	3	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9069570--9069674	53	2.0	53	92	3	176	46	13	11	28	1.77
9070516--9070844	169	1.9	170	86	1	464	27	23	21	28	1.99
9072097--9072138	21	2.0	21	95	0	75	40	11	14	33	1.82
9075020--9075063	21	2.1	21	87	8	63	38	4	4	52	1.42
9078933--9078962	6	5.0	6	100	0	60	16	0	0	83	0.65
9079766--9079791	2	13.0	2	100	0	52	50	0	0	50	1.00
9080290--9080343	27	2.0	27	92	0	90	33	9	16	40	1.80
9092160--9092201	20	2.0	21	90	4	68	57	11	0	30	1.35
9092160--9092201	22	1.9	22	85	9	59	57	11	0	30	1.35
9092726--9092805	29	2.7	29	81	13	90	31	10	13	45	1.77
9092748--9092806	29	2.0	29	90	3	91	30	8	13	47	1.73
9092752--9092815	29	2.2	29	83	8	76	34	9	10	45	1.72
9104840--9104877	18	2.1	18	85	9	51	65	5	0	28	1.14
9108273--9108318	18	2.6	18	86	3	58	34	0	0	65	0.93
9116220--9116265	13	3.5	13	76	5	56	69	13	13	4	1.33
9116219--9116274	27	2.1	27	100	0	112	71	14	10	3	1.26
9119444--9119476	16	2.1	15	94	5	57	27	3	0	69	1.03
9126794--9126831	17	2.2	17	86	9	51	34	10	0	55	1.34
9126859--9126890	6	5.3	6	100	0	64	50	15	0	34	1.45
9126859--9126907	18	2.7	18	87	3	62	44	18	2	34	1.61
9127174--9127213	17	2.4	16	91	4	62	45	10	2	42	1.51
9127412--9127442	5	6.2	5	92	0	53	45	16	19	19	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9128435--9128471	9	4.1	9	92	0	65	29	10	13	45	1.77
9129391--9129435	23	2.0	21	83	8	54	40	13	11	35	1.80
9131361--9131409	25	2.0	25	100	0	98	46	0	4	48	1.20
9133517--9133580	30	2.1	29	83	11	76	48	6	7	37	1.57
9140251--9140275	4	6.2	4	100	0	50	76	0	0	24	0.80
9140529--9140561	17	2.0	17	94	5	59	45	0	0	54	0.99
9142237--9142261	11	2.3	11	100	0	50	48	8	0	44	1.32
9142252--9142311	14	4.1	14	70	29	54	43	5	0	51	1.23
9142241--9142306	11	6.0	11	73	19	57	45	6	0	48	1.27
9142263--9142300	18	2.1	19	95	5	69	47	2	0	50	1.15
9145435--9145472	11	3.5	11	89	7	51	36	0	0	63	0.95
9145435--9145477	12	3.7	12	84	6	52	39	0	0	60	0.97
9147668--9147755	45	2.0	45	90	0	140	37	0	11	51	1.38
9147723--9147770	25	1.9	25	100	0	96	45	0	14	39	1.45
9148467--9148544	33	2.3	34	82	6	97	56	19	3	20	1.57
9152518--9152626	40	2.8	39	81	2	128	40	19	20	20	1.92
9155338--9155371	18	1.9	18	94	5	61	38	5	0	55	1.24
9156746--9157015	43	6.3	42	80	9	228	22	17	32	27	1.97
9156766--9157015	86	2.9	85	84	3	313	22	18	33	25	1.97
9161837--9161917	39	2.1	39	100	0	162	50	14	12	22	1.76
9168422--9168476	27	2.0	27	100	0	110	41	18	3	36	1.68
9170437--9170534	50	2.0	50	100	0	196	38	20	13	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9170447--9170524	24	3.2	24	64	25	63	41	17	12	28	1.87
9170458--9170535	24	3.2	24	64	25	63	38	17	16	26	1.92
9171691--9171784	45	2.1	45	100	0	188	43	10	22	23	1.84
9175734--9175775	21	2.0	21	100	0	84	23	14	19	42	1.87
9178108--9178239	8	14.9	8	72	15	50	63	0	4	31	1.19
9178110--9178368	9	27.6	9	69	16	111	60	3	3	33	1.29
9178147--9178239	17	5.3	17	71	13	64	65	1	3	30	1.15
9178973--9179003	7	4.4	7	100	0	62	38	0	0	61	0.96
9187123--9187248	54	2.3	53	79	5	144	17	29	23	29	1.97
9188441--9188470	16	1.9	16	93	6	53	46	13	0	40	1.43
9194897--9194947	26	2.0	27	88	7	79	39	1	3	54	1.30
9194924--9194965	17	2.4	18	92	7	70	40	0	2	57	1.12
9196199--9196236	19	2.0	19	100	0	76	5	36	5	52	1.47
9198991--9199026	17	2.1	17	89	5	54	19	2	11	66	1.35
9199747--9199796	26	1.9	26	84	8	66	56	8	4	32	1.47
9201351--9201377	14	1.9	14	100	0	54	62	14	7	14	1.51
9206266--9206354	25	3.6	25	75	4	74	35	20	22	21	1.96
9213755--9213812	25	2.3	25	84	0	80	39	18	25	15	1.91
9216908--9217200	98	3.0	98	96	0	541	27	9	25	37	1.86
9221791--9221823	16	2.1	16	94	0	57	78	6	15	0	0.93
9226884--9226920	15	2.4	15	95	4	65	54	0	29	16	1.43
9229578--9229634	24	2.4	24	100	0	114	50	5	17	26	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9229908--9229938	6	5.2	6	92	0	53	80	0	19	0	0.71
9230263--9230307	23	2.0	24	86	8	67	55	0	20	24	1.43
9230625--9230718	37	2.5	35	79	14	91	43	1	22	32	1.60
9230851--9230946	39	2.5	39	80	6	108	20	23	28	27	1.99
9235574--9235933	85	4.3	85	88	5	477	22	15	25	35	1.94
9235574--9235845	126	2.1	127	87	3	397	22	15	25	36	1.93
9242642--9242801	79	2.0	79	86	0	221	43	15	6	34	1.73
9245069--9245109	2	20.5	2	94	0	73	53	46	0	0	1.00
9254763--9254808	25	1.9	24	83	16	60	41	0	2	56	1.11
9256786--9256818	15	2.2	15	94	0	57	51	36	0	12	1.39
9259228--9259274	21	2.3	21	88	3	69	21	21	31	25	1.98
9263568--9263609	19	2.4	16	88	11	57	21	0	2	76	0.90
9267545--9267569	11	2.3	11	100	0	50	60	0	24	16	1.36
9273880--9273936	22	2.8	20	80	14	64	31	3	0	64	1.10
9273880--9273942	25	2.9	22	82	15	69	31	3	0	65	1.09
9273901--9273968	25	2.7	25	82	6	84	32	5	1	60	1.30
9277346--9277520	65	2.7	65	85	5	237	33	15	18	32	1.92
9277515--9277547	16	2.1	16	100	0	66	33	24	0	42	1.55
9282414--9282477	25	2.7	23	83	11	92	18	21	25	34	1.96
9291910--9291957	6	7.8	6	81	4	51	75	4	2	18	1.07
9291932--9291956	13	1.9	13	100	0	50	80	0	4	16	0.87
9309425--9309585	51	3.3	50	85	8	217	29	21	14	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9309429--9309592	44	3.6	44	87	5	202	30	21	15	31	1.95
9313402--9313435	17	2.0	17	88	0	50	32	23	0	44	1.54
9315672--9315705	16	2.2	16	89	5	52	35	8	5	50	1.58
9326051--9326334	50	5.6	50	82	6	286	22	30	20	26	1.98
9326051--9326334	100	2.8	103	81	6	319	22	30	20	26	1.98
9332515--9332577	27	2.3	27	81	10	74	46	1	1	50	1.20
9336003--9336054	26	2.0	26	100	0	104	38	7	11	42	1.70
9341625--9341669	18	2.4	19	85	11	65	46	2	0	51	1.13
9341671--9341717	19	2.4	20	80	20	55	38	0	6	55	1.26
9345463--9345501	7	5.6	7	100	0	78	28	0	0	71	0.86

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