genome.fa.s3.2.7.7.80.10.50.1000.106.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: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  45765648

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   

This is table  106  of  150  ( 17918 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)
33095111--33095173	19	3.4	18	85	12	83	7	1	11	79	1.00
33095104--33095172	29	2.4	29	88	9	97	8	1	10	79	0.99
33095104--33095172	9	7.2	9	80	16	77	8	1	10	79	0.99
33095111--33095192	18	4.4	18	81	14	87	13	1	9	75	1.10
33098651--33098859	108	1.9	108	94	0	364	35	18	15	30	1.92
33100894--33100932	18	2.2	18	86	4	53	69	5	10	15	1.34
33103170--33103216	19	2.5	19	86	6	60	27	19	6	46	1.74
33103359--33103406	24	2.0	24	83	0	60	43	20	25	10	1.83
33110336--33110471	52	2.6	54	89	2	213	44	18	25	11	1.84
33111632--33111798	44	3.8	45	79	7	146	28	22	26	22	1.99
33113520--33113562	21	2.0	22	82	13	54	11	4	6	76	1.13
33113587--33113625	18	2.2	18	95	0	69	28	2	2	66	1.18
33115278--33115310	17	1.9	17	100	0	66	51	30	0	18	1.46
33117097--33117181	44	1.9	44	92	0	143	30	12	10	45	1.76
33125259--33125292	17	2.0	17	94	0	59	35	8	5	50	1.58
33125688--33126003	17	17.9	17	72	12	210	44	12	11	31	1.77
33125691--33126052	35	10.2	36	72	13	155	43	11	12	33	1.78
33125691--33126012	35	9.1	35	75	12	207	43	11	11	32	1.78
33125688--33126003	18	17.9	18	74	11	235	44	12	11	31	1.77
33125953--33126032	18	4.0	22	72	19	77	37	7	12	42	1.71
33125935--33126036	39	2.7	38	86	4	145	39	7	14	38	1.75
33125935--33126051	37	3.1	36	80	8	135	37	8	14	39	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33126280--33126322	19	2.3	19	83	0	59	30	11	16	41	1.83
33126480--33126506	14	1.9	14	100	0	54	81	3	0	14	0.82
33126641--33126696	8	7.6	8	77	18	52	0	19	0	80	0.71
33126638--33126724	14	6.4	14	80	11	74	0	22	0	77	0.78
33126642--33126697	22	2.6	21	81	10	69	0	19	0	80	0.71
33126639--33126712	10	7.0	10	75	15	69	0	21	0	78	0.75
33126850--33126899	21	2.5	20	75	12	59	0	12	16	72	1.13
33126968--33127086	7	16.9	7	82	7	91	0	23	0	75	0.85
33126983--33127086	4	26.0	4	81	14	117	0	25	0	74	0.83
33127201--33127253	21	2.7	21	82	8	67	0	18	7	73	1.06
33127547--33127651	29	3.6	29	79	6	104	42	3	20	33	1.70
33127834--33128653	78	10.7	78	88	6	1107	34	21	16	27	1.95
33127834--33128653	145	5.4	155	87	7	1110	34	21	16	27	1.95
33127938--33128618	223	3.0	223	86	7	917	34	21	16	27	1.95
33129507--33129564	1	58.0	1	75	0	53	0	3	8	87	0.64
33129497--33129547	23	2.2	23	82	0	57	0	9	5	84	0.78
33129507--33129564	13	4.5	13	80	6	64	0	3	8	87	0.64
33129504--33129563	29	2.1	30	84	6	79	0	5	8	86	0.69
33129514--33129564	15	3.4	15	84	10	68	0	1	9	88	0.60
33129508--33129564	30	1.9	29	89	3	87	0	3	8	87	0.64
33136957--33137281	17	18.5	17	71	9	190	43	11	12	32	1.78
33136990--33137066	19	4.2	19	77	9	79	44	12	6	36	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33136956--33137318	35	10.3	35	75	10	233	43	11	12	32	1.79
33137205--33137291	20	4.6	19	76	11	81	40	9	12	37	1.75
33136999--33137305	18	17.1	18	70	15	181	44	11	13	30	1.79
33137223--33137301	20	4.1	20	79	9	76	39	7	11	41	1.70
33137170--33137305	37	3.7	37	78	13	138	41	9	12	36	1.76
33137205--33137320	37	3.1	35	77	10	115	38	8	13	38	1.76
33137493--33137577	18	4.4	18	72	16	73	37	10	15	36	1.82
33137730--33137785	17	3.4	16	76	9	51	64	3	1	30	1.21
33137362--33138238	437	2.0	437	98	0	1682	41	12	11	34	1.79
33137971--33138004	18	1.9	18	88	5	52	44	11	20	23	1.84
33138328--33138397	11	6.1	11	78	15	61	1	21	0	77	0.85
33138332--33138381	7	6.9	7	80	15	57	0	18	0	82	0.68
33138330--33138381	9	5.9	8	77	18	50	0	17	0	82	0.66
33138340--33138385	19	2.4	19	86	10	67	0	17	0	82	0.67
33138346--33138397	20	2.5	21	81	12	63	1	23	0	75	0.91
33138330--33138396	34	1.9	35	85	11	93	1	19	0	79	0.82
33138530--33138583	16	3.2	17	81	7	65	0	12	20	66	1.24
33138644--33138709	1	66.0	1	72	0	51	10	3	0	86	0.68
33138645--33138698	7	7.9	7	95	4	101	12	0	0	87	0.56
33138697--33138792	4	24.0	4	80	16	101	0	26	0	73	0.83
33138652--33138792	7	19.9	7	84	7	90	4	17	0	78	0.92
33138698--33138792	30	3.0	33	82	14	103	0	26	0	73	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33138894--33138952	8	6.3	9	73	21	50	0	16	6	76	1.00
33139137--33139210	29	2.5	29	80	4	85	27	12	13	47	1.78
33139769--33139837	29	2.3	30	87	5	95	49	14	14	21	1.79
33140056--33140159	28	3.6	29	78	3	120	43	3	20	32	1.70
33140085--33140170	30	3.0	28	76	8	91	48	4	16	30	1.66
33140055--33140170	58	2.0	58	88	3	171	45	4	18	31	1.69
33156114--33156173	20	3.0	21	80	9	72	13	25	16	45	1.84
33159216--33159250	14	2.5	14	90	0	52	37	0	48	14	1.44
33169078--33169115	2	19.5	2	94	5	69	50	0	0	50	1.00
33169367--33169409	22	1.9	22	85	4	59	37	18	6	37	1.78
33171834--33171891	25	2.4	24	75	18	57	8	39	1	50	1.43
33174385--33174430	23	2.0	23	82	0	56	36	0	4	58	1.18
33177080--33177111	2	16.0	2	100	0	64	50	0	0	50	1.00
33192297--33192383	45	1.9	45	92	0	147	34	22	16	26	1.95
33192385--33192579	51	3.9	50	72	7	144	30	26	17	24	1.97
33198301--33198360	30	2.0	30	96	0	111	25	3	15	56	1.54
33202840--33202895	18	2.9	19	73	26	55	48	0	0	51	1.00
33202905--33202944	13	3.0	13	86	13	55	52	0	2	45	1.14
33203872--33203920	19	2.5	19	80	12	55	55	2	0	42	1.11
33207100--33207133	17	2.0	17	100	0	68	47	11	11	29	1.76
33208495--33208549	19	2.9	19	97	0	101	36	0	5	58	1.21
33208469--33208549	38	2.2	38	82	10	96	38	0	4	56	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33212587--33212651	28	2.2	31	78	13	75	43	0	43	13	1.44
33224932--33225054	60	2.0	60	96	0	228	30	21	14	34	1.93
33227878--33227937	18	3.3	18	74	4	57	61	0	0	38	0.96
33233261--33233677	133	3.1	132	79	8	416	33	14	21	30	1.93
33233323--33233673	134	2.6	131	81	6	411	31	13	21	32	1.93
33234022--33234074	21	2.6	20	79	5	61	20	3	37	37	1.71
33238510--33238559	17	3.2	17	78	21	72	36	6	6	52	1.51
33238528--33238555	13	2.2	13	100	0	56	39	7	7	46	1.59
33238551--33238589	16	2.5	15	88	8	60	41	0	5	53	1.23
33238532--33238651	62	1.9	62	81	3	143	35	5	11	47	1.62
33238811--33238886	21	3.6	21	80	5	73	40	13	7	38	1.73
33238716--33238953	116	2.1	116	93	1	406	43	11	5	39	1.66
33238946--33239148	9	22.4	9	83	1	253	49	17	0	31	1.53
33238946--33239174	27	8.4	27	85	1	251	47	18	2	31	1.61
33239289--33239444	9	18.7	9	70	17	97	46	19	0	33	1.51
33239336--33239451	41	2.9	40	80	12	114	48	19	0	31	1.50
33239289--33239451	32	5.0	32	73	15	136	46	19	0	33	1.50
33239303--33239451	25	6.0	24	80	12	135	45	20	0	33	1.52
33239371--33239435	16	4.1	16	79	15	80	49	20	0	30	1.49
33242624--33242672	21	2.3	21	85	0	62	38	20	38	2	1.64
33242635--33242674	21	1.9	21	94	0	71	32	17	47	2	1.61
33243056--33243214	42	3.8	42	84	1	194	31	22	20	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33243762--33243812	2	25.5	2	91	0	84	49	3	0	47	1.20
33249438--33249467	14	2.1	14	93	0	51	66	3	13	16	1.37
33254157--33254652	246	2.0	246	99	0	983	37	21	17	22	1.94
33256596--33256637	9	4.4	9	82	11	57	40	26	9	23	1.85
33256594--33256635	20	2.1	20	95	0	75	45	26	9	19	1.80
33257397--33257436	16	2.5	16	83	0	53	22	2	35	40	1.68
33262916--33262946	12	2.6	12	94	0	53	9	22	41	25	1.84
33267033--33267064	2	16.0	2	93	0	55	46	0	3	50	1.17
33267225--33267258	2	17.5	2	93	6	61	50	0	0	50	1.00
33267252--33267359	7	15.0	7	72	15	62	64	1	4	28	1.23

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