genome.fa.s3.2.7.7.80.10.50.1000.141.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  141  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)
42548922--42548966	20	2.2	20	84	7	56	51	6	11	31	1.63
42553741--42553827	41	2.1	41	91	0	138	33	22	12	31	1.92
42553753--42553835	41	2.0	41	95	0	148	30	24	12	33	1.91
42561641--42561700	30	2.0	30	96	0	111	53	15	6	25	1.65
42562669--42562798	27	4.8	27	89	1	181	19	20	36	23	1.95
42562860--42562906	18	2.5	20	79	10	62	63	2	34	0	1.06
42562856--42562909	22	2.4	23	84	12	76	64	1	33	0	1.04
42566229--42566281	6	8.8	6	93	0	88	0	35	30	33	1.58
42567904--42567945	16	2.7	15	85	7	57	57	2	2	38	1.25
42568273--42568685	22	18.2	22	71	18	239	54	13	0	31	1.43
42568326--42568541	27	8.8	25	73	19	188	54	13	0	31	1.46
42568330--42568543	49	4.4	49	88	3	324	54	13	0	31	1.46
42568331--42568546	97	2.2	98	94	0	380	54	13	0	31	1.45
42568273--42568550	49	5.7	48	82	6	321	53	14	0	31	1.46
42568447--42568650	83	2.4	83	83	13	238	54	13	0	31	1.43
42568447--42568685	83	2.8	84	71	17	213	54	12	0	31	1.42
42568853--42568885	3	11.3	3	93	6	59	0	33	0	66	0.92
42568849--42568882	14	2.5	14	95	4	61	0	32	0	67	0.91
42568849--42568886	17	2.3	17	95	4	69	0	34	0	65	0.93
42568854--42568897	17	2.6	17	89	7	63	0	36	0	63	0.95
42569584--42569646	26	2.3	27	79	17	69	39	0	3	57	1.15
42569786--42569844	20	3.0	20	82	0	64	15	40	11	32	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42571204--42571445	50	4.7	50	78	6	204	23	27	22	26	1.99
42572709--42572774	33	2.0	33	85	11	91	74	0	22	3	0.96
42572712--42572770	28	2.2	26	82	14	66	74	0	22	3	0.96
42572921--42573054	60	2.2	60	89	1	205	30	0	11	56	1.41
42573148--42573224	39	2.0	39	97	2	147	31	10	7	50	1.65
42578660--42578697	20	1.9	20	88	0	58	52	10	2	34	1.50
42579017--42579091	27	2.8	27	91	0	114	22	28	25	24	2.00
42582799--42582842	23	1.9	23	86	9	63	9	4	6	79	1.04
42588086--42588160	31	2.5	29	77	12	80	65	2	5	26	1.27
42588254--42588284	2	15.5	2	100	0	62	51	0	0	48	1.00
42604756--42604830	31	2.5	29	77	12	80	65	2	5	26	1.27
42604924--42604954	2	15.5	2	100	0	62	51	0	0	48	1.00
42606744--42606900	40	3.9	41	80	10	205	23	21	25	29	1.99
42606728--42606899	82	2.1	83	90	3	267	23	19	25	31	1.98
42606904--42607810	134	6.7	134	95	1	1593	28	24	20	26	1.99
42606904--42607810	270	3.4	268	95	1	1602	28	24	20	26	1.99
42606930--42607810	404	2.2	404	97	0	1658	28	24	20	26	1.99
42608225--42608420	108	1.8	108	89	2	313	46	10	17	25	1.80
42608386--42608486	45	2.3	43	78	10	103	52	9	12	24	1.70
42608757--42608786	8	3.6	8	91	8	51	0	10	3	86	0.67
42609217--42609334	1	118.0	1	70	0	65	5	6	4	83	0.89
42609237--42609337	26	4.1	25	75	10	84	3	6	5	83	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42609222--42609334	59	1.9	58	83	15	144	5	7	4	83	0.92
42609228--42609342	35	3.4	32	78	18	101	4	6	5	83	0.90
42617492--42617536	23	2.0	23	86	0	63	40	8	0	51	1.33
42630366--42630425	30	2.0	30	86	0	84	21	6	15	56	1.61
42630729--42630801	33	2.2	33	83	7	87	47	15	8	28	1.73
42633695--42633760	30	2.2	30	88	0	96	30	10	42	16	1.82
42633732--42633945	108	2.0	108	90	0	338	27	13	34	25	1.93
42634587--42634641	29	1.9	29	88	3	85	25	0	5	69	1.10
42635147--42635192	22	2.1	22	95	0	83	45	13	0	41	1.43
42636287--42636343	29	1.9	30	85	3	80	42	17	7	33	1.76
42636858--42636885	13	2.2	13	100	0	56	25	7	7	60	1.48
42638221--42638246	11	2.4	11	100	0	52	53	15	0	30	1.42
42640230--42640325	47	2.0	47	85	0	129	31	17	9	41	1.81
42647187--42647241	29	2.0	27	82	13	67	25	9	7	58	1.55
42662561--42662614	26	2.1	27	83	13	69	20	7	31	40	1.80
42663082--42663123	21	2.0	21	90	0	66	42	33	0	23	1.55
42663580--42663613	16	2.1	16	88	5	50	26	0	0	73	0.83
42666153--42666196	24	1.9	22	86	9	61	43	9	0	47	1.35
42668343--42668389	19	2.4	19	85	3	58	65	2	0	31	1.04
42668363--42668398	18	1.9	19	88	5	56	63	2	0	33	1.08
42669422--42669564	9	14.7	9	68	21	67	40	2	3	53	1.30
42669419--42669514	39	2.4	39	76	13	97	36	3	4	56	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42669421--42669516	20	4.8	20	74	13	81	37	3	4	55	1.35
42669422--42669517	30	3.2	29	74	8	86	38	3	4	54	1.36
42669421--42669567	10	14.9	10	67	23	62	40	2	3	53	1.29
42671616--42671644	2	14.5	2	100	0	58	48	0	0	51	1.00
42674161--42674230	29	2.3	29	85	9	88	48	1	12	37	1.50
42678529--42678556	9	3.1	9	100	0	56	32	0	10	57	1.33
42678966--42679091	65	1.9	66	85	4	175	26	17	15	41	1.88
42684352--42684386	2	18.0	2	94	5	63	51	0	0	48	1.00
42687279--42687333	21	2.6	21	91	0	92	21	9	40	29	1.84
42703882--42703906	12	2.1	12	100	0	50	8	8	8	76	1.18
42709162--42709199	6	6.3	6	93	6	60	2	15	15	65	1.38
42722777--42722822	24	1.9	24	86	8	67	39	0	2	58	1.10
42723010--42723051	16	2.6	16	88	7	59	45	7	2	45	1.44
42723025--42723080	23	2.5	23	82	2	69	44	1	1	51	1.22
42726338--42726390	20	2.7	20	85	11	65	60	9	0	30	1.28
42726358--42726395	19	2.1	18	90	5	58	57	7	0	34	1.28
42726337--42726424	20	4.2	20	73	21	63	61	6	1	30	1.29
42726672--42726710	19	2.1	19	85	0	51	64	5	0	30	1.15
42727449--42727524	9	8.4	9	81	5	91	27	10	23	38	1.88
42730501--42730553	10	5.0	11	74	21	51	64	1	1	32	1.15
42736620--42737005	177	2.2	176	91	2	630	38	19	23	19	1.94
42739368--42739405	18	2.2	17	90	4	58	44	2	13	39	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42740635--42740704	32	2.2	32	90	5	108	54	11	12	21	1.69
42746797--42746831	16	2.2	16	90	10	54	45	0	0	54	0.99
42750371--42750416	17	2.7	17	81	15	51	58	2	0	39	1.10
42750590--42750616	7	3.9	7	100	0	54	88	0	11	0	0.50
42750926--42751324	108	3.6	107	74	8	336	38	18	16	26	1.91
42750925--42751334	222	1.8	222	83	3	547	38	18	16	27	1.91
42755090--42755192	48	2.1	50	87	5	147	32	25	16	26	1.96
42761218--42761277	29	2.1	29	100	0	120	41	13	13	31	1.83
42770010--42770057	19	2.6	17	79	20	53	50	4	0	45	1.21
42770410--42770484	33	2.2	34	83	2	89	40	9	4	46	1.55
42771293--42771326	18	1.9	18	88	5	52	29	0	5	64	1.17
42777264--42777311	22	2.3	20	82	10	53	60	0	0	39	0.97
42784171--42784235	18	3.4	18	72	15	67	30	3	0	66	1.07
42784173--42784310	40	3.5	40	84	10	176	34	2	0	62	1.10
42784261--42784310	10	5.1	10	76	13	50	42	2	0	56	1.11
42784253--42784308	28	2.0	28	89	10	87	37	1	0	60	1.07
42784262--42784309	9	5.0	9	78	12	51	39	2	0	58	1.10
42786905--42786989	39	2.2	37	85	8	125	62	0	2	35	1.08
42786940--42787030	9	9.2	9	71	24	51	67	0	2	30	1.03
42786903--42786992	38	2.3	40	88	3	139	61	0	2	36	1.09
42792151--42792217	33	2.0	33	100	0	134	49	20	5	23	1.71
42795881--42795946	34	1.9	34	96	0	123	31	34	16	16	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42803401--42803433	14	2.3	15	94	5	59	33	24	6	36	1.80
42808485--42808530	22	2.1	22	87	0	65	43	4	10	41	1.59
42808755--42808794	18	2.2	18	90	0	62	45	10	20	25	1.81
42812285--42812337	19	2.8	18	78	15	54	30	1	0	67	1.01
42813073--42813147	37	2.0	37	92	0	123	38	10	22	28	1.87
42815422--42815455	2	17.0	2	100	0	68	50	0	0	50	1.00
42817594--42817646	27	2.0	27	85	10	74	26	16	1	54	1.53
42818320--42818354	17	2.1	17	88	0	52	2	40	37	20	1.67
42819508--42819559	2	26.0	2	92	0	86	46	0	0	53	1.00
42829341--42829408	34	2.0	35	82	2	84	16	5	33	44	1.72

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