genome.fa.s10.2.7.7.80.10.50.1000.110.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  110  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)
33821574--33821614	21	2.0	21	90	0	64	26	2	7	63	1.33
33823208--33823351	56	2.5	58	88	4	204	35	3	4	56	1.35
33824784--33824850	29	2.2	29	84	5	80	52	14	10	22	1.72
33824896--33824969	18	4.3	18	76	10	64	44	10	0	44	1.39
33828979--33829059	33	2.5	33	86	8	103	48	7	6	38	1.56
33828979--33829060	34	2.5	31	84	9	101	48	7	6	37	1.56
33830265--33830333	29	2.3	29	82	7	86	53	2	5	37	1.40
33833773--33833811	19	2.1	19	85	9	53	38	2	2	56	1.27
33833883--33834047	59	2.8	59	95	0	294	46	8	5	40	1.57
33834067--33834104	16	2.4	16	90	0	58	42	7	2	47	1.46
33834078--33834139	23	2.7	23	82	2	72	48	1	1	48	1.21
33845448--33845999	42	13.3	42	85	1	736	38	23	16	21	1.93
33847647--33847755	44	2.5	44	86	2	141	29	29	18	22	1.97
33848243--33848296	28	2.0	27	81	3	63	33	27	0	38	1.57
33848846--33848870	13	1.9	13	100	0	50	40	24	4	32	1.73
33849279--33849311	13	2.6	13	90	4	50	6	12	0	81	0.85
33849259--33849311	12	4.3	12	78	4	61	5	11	3	79	1.03
33849259--33849311	25	2.2	24	89	3	79	5	11	3	79	1.03
33873505--33873557	27	2.0	27	100	0	106	43	3	15	37	1.64
33875040--33875095	16	3.5	16	87	0	85	39	7	25	28	1.82
33875077--33875169	45	2.1	44	90	6	143	35	4	23	36	1.75
33875260--33875393	55	2.4	57	78	10	150	52	2	0	43	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33875413--33875456	21	2.0	21	82	8	52	63	2	0	34	1.07
33880694--33880838	36	4.0	36	97	0	254	29	19	13	37	1.90
33883464--33883575	42	2.6	42	80	16	131	29	25	19	25	1.99
33892300--33892347	9	4.9	10	77	12	55	56	0	0	43	0.99
33892300--33892347	19	2.5	20	83	13	64	56	0	0	43	0.99
33892607--33892670	21	3.1	21	72	17	55	25	12	1	60	1.40
33892636--33892678	21	2.0	21	82	8	52	30	13	0	55	1.39
33892680--33892741	29	2.0	31	85	14	85	25	1	3	69	1.13
33892698--33892742	22	2.1	21	92	8	74	24	0	2	73	0.95
33892698--33892742	21	2.2	19	88	11	63	24	0	2	73	0.95
33906471--33906497	11	2.5	11	100	0	54	92	7	0	0	0.38
33908929--33908959	2	15.5	2	100	0	62	51	0	0	48	1.00
33924004--33924094	30	3.0	30	88	4	121	28	15	19	36	1.92
33937034--33937132	40	2.4	41	86	8	148	18	31	19	31	1.95
33938534--33938697	82	2.0	82	91	0	265	29	19	13	37	1.90
33945438--33945554	39	3.0	38	79	9	128	42	12	9	35	1.75
33949656--33949694	14	2.8	14	84	0	51	46	7	5	41	1.55
33950844--33950903	29	2.1	29	90	0	93	23	11	26	38	1.89
33955917--33956120	42	4.8	42	90	1	284	32	20	22	24	1.98
33955919--33956176	42	6.1	42	88	2	264	31	19	20	28	1.97
33956474--33956531	21	2.8	21	91	0	89	3	50	18	27	1.63
33962799--33963161	9	41.4	9	69	22	195	33	0	21	44	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33962788--33963115	25	13.3	25	77	19	157	34	0	20	44	1.54
33962839--33963110	62	4.4	62	80	15	241	34	0	20	45	1.51
33962906--33963097	44	3.8	53	82	14	264	34	0	19	46	1.50
33962873--33963103	44	5.0	44	75	21	199	33	0	19	46	1.51
33975846--33975910	20	3.3	19	73	16	51	38	16	21	23	1.93
33976954--33976994	18	2.2	18	86	8	55	70	0	17	12	1.16
33979767--33979832	26	2.5	26	82	4	80	19	19	24	36	1.95
33979826--33980025	32	6.3	32	85	0	222	22	20	20	37	1.95
33980017--33980081	22	3.0	21	76	13	69	16	18	18	46	1.85
33982971--33983063	19	5.1	19	68	21	72	45	12	9	32	1.75
33982961--33983086	54	2.3	54	93	0	216	42	15	9	33	1.79
33983161--33983200	20	2.0	21	85	5	55	35	15	17	32	1.91
33984554--33984676	57	2.2	55	80	13	128	9	21	1	67	1.28
33984605--33984676	18	3.9	18	78	7	83	5	20	1	72	1.13
33984605--33984673	6	11.3	6	72	9	59	4	20	1	73	1.07
33984605--33984690	37	2.2	39	76	13	88	8	19	1	70	1.18
33989152--33989193	17	2.5	16	82	17	50	11	21	4	61	1.48
33990409--33990463	20	2.8	20	83	10	76	23	21	16	38	1.93
33998114--33998168	12	4.7	12	84	8	69	16	3	1	78	0.98
33998114--33998159	13	3.7	13	88	8	69	17	4	2	76	1.06
33999799--33999869	9	7.0	10	76	19	67	32	15	26	25	1.95
33999794--33999860	32	2.1	32	100	0	134	35	14	23	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34001418--34001462	20	2.2	20	84	4	54	8	26	0	64	1.23
34011558--34011606	22	2.2	23	82	10	66	30	8	18	42	1.79
34019333--34019362	13	2.3	13	94	0	51	36	16	13	33	1.88
34020668--34020720	20	2.7	20	88	2	81	54	11	7	26	1.62
34022644--34022819	96	1.8	96	92	0	298	34	15	15	35	1.89
34023084--34023146	21	3.0	21	88	2	90	30	3	33	33	1.74
34029037--34029091	25	2.2	25	83	0	65	45	18	18	18	1.86
34030156--34030196	18	2.2	18	86	8	55	70	0	17	12	1.16
34032845--34032910	26	2.5	26	78	4	71	18	19	25	36	1.94
34032904--34033103	32	6.3	32	85	0	222	22	20	20	37	1.95
34033095--34033159	22	3.0	21	76	13	69	16	18	18	46	1.85
34036019--34036111	19	5.1	19	68	21	72	45	12	9	32	1.75
34036009--34036134	54	2.3	54	93	0	216	42	15	9	33	1.79
34036209--34036248	20	2.0	21	85	5	55	35	15	17	32	1.91
34037602--34037724	57	2.2	55	80	13	128	9	21	1	67	1.28
34037653--34037724	18	3.9	18	78	7	83	5	20	1	72	1.13
34037653--34037721	6	11.3	6	72	9	59	4	20	1	73	1.07
34037653--34037738	37	2.2	39	76	13	88	8	19	1	70	1.18
34043204--34043245	17	2.5	16	82	17	50	11	21	4	61	1.48
34044463--34044517	20	2.8	20	83	10	76	23	21	16	38	1.93
34047411--34047443	12	2.8	12	90	4	50	6	18	33	42	1.75
34047786--34047829	23	2.0	23	81	4	54	38	4	29	27	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34053927--34053974	12	3.9	13	78	13	57	22	25	0	52	1.48
34054008--34054053	22	2.1	22	84	8	58	19	4	8	67	1.35
34054441--34054512	18	3.7	20	77	9	76	11	27	1	59	1.40
34055174--34055268	47	2.0	47	100	0	190	34	23	12	29	1.92
34056440--34056618	96	1.9	96	86	0	259	32	11	18	36	1.87
34057629--34057677	24	2.1	24	81	11	57	48	14	14	22	1.79
34058760--34058801	22	2.0	21	90	4	66	30	4	33	30	1.78
34060811--34060859	22	2.2	23	82	10	66	30	8	18	42	1.79
34068589--34068618	13	2.3	13	94	0	51	36	16	13	33	1.88
34069845--34069892	15	3.2	14	77	11	51	6	18	2	72	1.15
34071979--34072003	12	2.1	12	100	0	50	20	8	8	64	1.46
34078547--34078573	14	1.9	14	100	0	54	7	14	7	70	1.32
34087323--34087398	32	2.5	30	81	12	84	31	1	2	64	1.15
34091155--34091198	9	4.6	10	86	11	65	77	6	4	11	1.11
34091155--34091208	19	2.9	19	86	5	74	75	5	3	14	1.12
34091155--34091208	9	5.8	9	80	6	54	75	5	3	14	1.12
34092300--34092331	14	2.3	14	94	0	55	90	0	0	9	0.45
34092293--34092329	18	2.0	19	94	5	67	86	2	0	10	0.67
34093256--34093290	13	2.7	13	90	0	52	42	11	0	45	1.40
34115079--34115161	42	2.0	42	97	0	157	33	19	8	38	1.82
34117385--34117428	22	2.0	22	90	0	70	34	2	36	27	1.70
34118562--34118620	30	2.0	30	83	6	75	28	15	25	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34121094--34121156	21	3.0	21	85	2	81	33	31	4	30	1.78
34127012--34127068	28	2.1	27	86	3	78	8	21	5	64	1.41
34129846--34129883	20	1.9	20	84	10	51	28	28	18	23	1.98
34132624--34132682	20	3.0	20	82	0	64	37	13	27	22	1.91
34136489--34136535	15	3.1	15	84	9	60	70	0	17	12	1.17
34136565--34136640	12	6.3	12	70	17	59	61	1	23	13	1.39
34136588--34136621	15	2.3	15	89	0	50	67	0	26	5	1.13
34138507--34138551	20	2.2	20	84	7	56	26	26	15	31	1.96
34140096--34140143	14	3.1	16	75	25	57	68	2	20	8	1.26
34147817--34147886	30	2.3	31	85	4	90	12	10	1	75	1.10

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