genome.fa.s3.2.7.7.80.10.50.1000.84.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  84  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)
26105124--26105164	17	2.3	18	80	16	50	68	0	21	9	1.18
26105082--26105155	30	2.5	30	82	4	87	75	1	20	2	1.00
26110808--26110990	51	3.6	50	79	5	172	25	19	26	29	1.98
26113717--26113755	17	2.2	18	86	4	53	17	2	10	69	1.28
26116470--26116505	13	2.8	13	91	0	54	72	8	2	16	1.21
26134075--26134126	26	2.0	27	81	11	63	23	19	11	46	1.82
26148148--26148190	22	2.0	22	100	0	86	23	25	13	37	1.92
26149211--26149372	50	3.2	50	76	9	152	41	12	13	32	1.83
26149230--26149371	52	2.8	52	78	7	150	41	14	13	30	1.84
26161077--26161148	21	3.3	21	72	16	56	68	1	23	6	1.22
26161182--26161248	33	1.9	33	82	8	80	46	10	31	11	1.75
26164928--26165153	117	1.9	117	95	0	407	30	25	10	33	1.90
26166703--26166736	15	2.1	17	89	10	54	44	11	0	44	1.40
26168718--26168785	34	2.0	34	100	0	136	41	26	8	23	1.83
26183691--26183744	25	2.2	26	83	6	67	20	20	14	44	1.86
26185707--26185739	12	2.8	12	86	13	50	63	6	9	21	1.45
26206799--26206850	27	1.9	27	84	0	68	34	5	7	51	1.54
26208522--26209047	274	1.9	274	97	0	989	20	16	18	44	1.86
26213178--26213213	12	3.1	12	88	4	56	75	8	2	13	1.15
26214561--26214596	17	2.1	18	89	5	56	63	5	22	8	1.43
26223575--26223617	12	3.6	12	87	0	59	16	20	2	60	1.46
26223601--26223640	18	2.3	18	82	4	55	7	20	5	67	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26223660--26223701	12	3.7	12	81	18	54	11	16	2	69	1.29
26229980--26230019	14	2.9	14	84	0	53	32	7	17	42	1.77
26232463--26232508	23	2.0	23	82	4	56	71	10	8	8	1.30
26233452--26233999	274	2.0	274	96	0	1015	19	16	18	45	1.86
26238984--26239057	23	3.2	23	88	0	121	33	29	5	31	1.80
26241528--26241587	15	4.1	14	78	10	59	70	1	21	6	1.20
26245711--26245784	23	3.2	23	86	0	112	33	28	5	32	1.80
26246980--26247104	62	2.0	62	85	0	169	19	32	18	30	1.95
26250415--26250464	18	2.5	20	87	9	68	74	2	20	4	1.08
26253764--26253822	23	2.5	25	78	13	70	35	33	5	25	1.78
26262425--26262483	23	2.5	25	78	13	70	35	33	5	25	1.78
26268738--26268771	16	2.0	18	88	11	54	44	35	5	14	1.70
26269263--26269294	15	2.1	16	94	5	57	6	21	0	71	1.07
26270303--26270350	11	4.1	11	84	10	60	16	6	4	72	1.20
26270303--26270346	13	3.5	13	78	15	56	13	4	4	77	1.08
26280686--26280720	13	2.7	13	90	0	52	42	11	0	45	1.40
26302226--26302378	22	7.0	22	90	0	225	32	14	26	26	1.94
26306423--26306450	6	4.7	6	100	0	56	14	0	0	85	0.59
26324911--26325212	27	11.2	27	81	0	334	42	21	16	19	1.89
26382771--26382947	50	3.4	50	82	7	185	27	21	27	23	1.99
26389259--26389303	22	2.0	22	83	8	56	40	0	15	44	1.47
26394754--26394780	7	3.9	7	100	0	54	29	14	29	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26396178--26396236	30	2.0	30	83	6	75	30	22	1	45	1.62
26400837--26400888	27	1.9	27	84	0	68	67	0	25	7	1.17
26403953--26403979	14	1.9	14	100	0	54	37	14	14	33	1.88
26413066--26413196	43	3.0	43	86	2	165	32	27	18	21	1.96
26413503--26413636	66	2.0	66	81	5	155	16	23	14	46	1.83
26416681--26417005	150	2.2	149	84	3	404	22	28	22	27	1.99
26416681--26417008	50	6.6	50	80	5	351	21	28	22	27	1.99
26416725--26417009	100	2.9	100	86	3	389	22	29	21	27	1.99
26420073--26420110	20	1.9	20	100	0	76	34	36	10	18	1.85
26422698--26422837	50	2.8	50	78	4	138	22	27	19	30	1.98
26428572--26428620	22	2.3	23	82	13	68	63	12	2	22	1.39
26428755--26428853	25	3.9	25	78	4	92	23	11	45	20	1.82
26429005--26429099	40	2.3	40	83	1	118	14	22	16	46	1.84
26430773--26431012	41	5.7	42	77	9	188	24	17	25	32	1.96
26430817--26431005	85	2.2	84	82	7	222	22	16	26	34	1.95
26440585--26440639	26	2.1	26	86	10	76	52	0	32	14	1.42
26441741--26441792	22	2.4	22	96	0	95	32	21	15	30	1.94
26450140--26450320	40	4.5	40	86	0	254	31	17	31	19	1.95
26450240--26450304	20	3.2	20	65	16	53	32	18	35	13	1.90
26456735--26456944	104	2.0	104	98	0	402	28	21	13	36	1.91
26460171--26460256	20	4.3	20	71	0	55	38	16	22	23	1.93
26460171--26460294	60	2.1	60	84	0	158	38	16	22	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26461338--26461380	22	1.9	23	85	4	61	39	9	2	48	1.48
26462141--26462485	51	6.8	49	79	5	339	30	24	15	29	1.95
26462146--26462485	102	3.4	100	84	4	405	31	25	15	28	1.95
26462141--26462491	153	2.3	150	83	3	427	30	25	14	29	1.95
26462956--26463017	30	2.1	30	81	6	72	25	24	8	41	1.82
26464608--26464664	20	2.8	20	89	0	87	26	28	1	43	1.65
26479369--26479584	32	6.8	32	75	10	156	38	20	19	20	1.93
26479854--26480081	27	8.4	27	88	0	321	22	22	20	34	1.97
26479872--26480107	27	8.8	26	78	10	156	22	20	20	36	1.96
26479854--26480107	81	3.1	80	81	6	289	22	21	20	35	1.96
26482195--26482243	24	2.0	24	96	0	89	48	20	2	28	1.60
26487089--26487166	40	2.0	40	86	0	111	37	16	20	25	1.93
26490103--26490147	20	2.2	20	84	7	56	53	11	4	31	1.56
26492337--26492391	27	2.1	27	89	3	85	36	12	0	50	1.41
26493709--26493738	2	15.0	2	100	0	60	50	0	0	50	1.00
26530493--26530528	11	3.3	11	92	0	54	41	8	8	41	1.65
26544809--26545051	50	4.9	50	79	5	215	21	28	20	28	1.98
26550195--26550224	13	2.3	13	94	0	51	36	10	3	50	1.53
26551053--26551356	72	4.2	71	79	5	281	47	13	5	33	1.66
26551065--26551347	143	2.0	144	81	3	338	47	13	5	32	1.67
26553439--26553487	22	2.3	23	82	13	68	63	12	2	22	1.39
26553622--26553721	25	3.9	25	81	2	119	24	9	45	22	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26553619--26553721	50	2.0	52	86	3	147	23	8	46	21	1.79
26553734--26553823	35	2.6	34	82	10	94	35	1	34	28	1.65
26553763--26553852	35	2.6	35	76	11	87	38	2	31	27	1.69
26553894--26553987	40	2.3	40	80	3	118	15	22	19	42	1.89
26555225--26555296	22	3.3	22	94	0	117	30	16	27	25	1.97
26555643--26555890	40	5.9	42	77	8	186	25	16	25	33	1.96
26555695--26555890	85	2.3	84	80	6	216	22	17	26	34	1.96
26569740--26569921	20	9.1	20	62	4	53	31	18	31	19	1.95
26569737--26569921	40	4.6	40	87	0	271	32	17	30	18	1.95
26574650--26574817	27	6.2	27	84	4	160	44	17	14	23	1.85
26574634--26574800	54	3.1	53	79	1	181	46	17	13	22	1.82
26574661--26574848	54	3.5	53	79	5	157	43	17	15	23	1.88
26574917--26574966	24	2.2	23	89	7	75	20	8	28	44	1.79
26581657--26581698	19	2.2	20	95	4	77	59	9	11	19	1.59
26611618--26611859	50	4.9	50	79	3	238	23	27	20	28	1.99
26614448--26614489	21	2.0	21	90	0	66	50	2	14	33	1.56
26614452--26614497	21	2.2	21	84	0	56	54	2	8	34	1.43
26615160--26615211	22	2.4	22	96	0	95	32	21	15	30	1.94
26623546--26623731	40	4.6	40	87	2	266	31	18	31	18	1.95
26623649--26623715	20	3.3	20	66	12	55	31	19	35	13	1.90
26626506--26626538	14	2.3	15	89	5	50	24	21	27	27	1.99
26627315--26627355	14	2.7	15	85	7	57	73	2	2	21	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26627857--26627910	25	2.2	25	89	0	81	24	12	46	16	1.82
26629182--26629216	17	2.0	18	88	5	54	14	25	42	17	1.86
26629432--26629599	27	6.2	27	85	1	169	42	17	15	23	1.88
26629416--26629582	54	3.1	54	83	1	201	44	18	14	22	1.85
26629408--26629582	81	2.2	81	82	2	217	44	18	14	21	1.86
26629408--26629631	27	8.3	27	80	5	109	42	18	16	22	1.89
26629408--26629612	81	2.5	79	77	4	187	43	19	15	22	1.87
26629565--26629651	27	3.2	26	79	9	77	39	17	21	21	1.93
26629700--26629749	24	2.2	23	89	7	75	20	8	28	44	1.79
26630921--26630950	13	2.3	13	94	0	51	36	16	13	33	1.88

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