genome.fa.s3.2.7.7.80.10.50.1000.99.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  99  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)
31094445--31095093	217	3.0	216	90	1	1012	27	22	20	29	1.98
31094201--31095000	44	18.3	44	70	15	321	27	23	19	29	1.98
31100415--31100477	31	2.0	31	96	0	117	58	11	12	17	1.62
31105084--31105146	32	2.0	32	90	3	101	76	9	9	4	1.15
31108713--31108755	16	2.6	16	85	3	59	65	2	2	30	1.18
31108727--31108771	19	2.4	19	85	10	58	64	2	4	28	1.25
31111042--31111093	26	2.0	26	100	0	104	30	11	11	46	1.76
31113237--31113522	112	2.6	109	87	3	394	36	20	14	29	1.92
31113866--31113895	2	15.0	2	100	0	60	50	0	0	50	1.00
31114105--31114162	3	19.0	3	96	3	107	65	0	1	32	1.03
31115737--31115843	20	5.8	18	70	22	62	53	3	2	40	1.33
31115931--31115980	21	2.4	21	74	12	50	12	46	30	12	1.77
31119597--31119754	63	2.5	63	90	0	244	22	27	14	35	1.93
31119723--31119807	44	1.9	44	86	9	120	25	23	11	38	1.89
31122382--31122410	12	2.4	12	100	0	58	62	0	20	17	1.33
31122383--31122422	18	2.2	18	86	0	53	65	0	17	17	1.28
31128355--31128389	3	11.7	3	100	0	70	34	0	31	34	1.58
31132167--31132242	29	2.6	29	82	0	107	28	22	23	25	1.99
31132364--31132491	57	2.2	57	91	0	202	32	10	20	35	1.87
31132364--31132519	57	2.7	57	85	0	159	33	10	18	37	1.85
31133925--31133963	18	2.2	17	90	4	60	43	2	2	51	1.29
31134355--31134434	31	2.6	31	86	4	99	25	20	13	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31134413--31134471	29	2.0	31	83	12	79	22	16	22	38	1.93
31136726--31136809	44	1.9	44	90	0	132	27	13	13	46	1.79
31138485--31138527	21	2.0	21	82	8	52	32	4	0	62	1.15
31138990--31139019	16	1.9	15	93	6	51	36	0	13	50	1.42
31142845--31142897	23	2.2	25	93	6	92	62	3	0	33	1.13
31142845--31142907	23	2.7	22	88	11	74	63	3	0	33	1.10
31143251--31143306	29	2.0	29	85	3	78	37	1	0	60	1.07
31152691--31152854	84	2.0	84	84	7	217	60	9	18	10	1.56
31162443--31162533	41	2.2	42	76	9	98	19	19	27	32	1.96
31167392--31167432	19	2.2	19	90	0	64	39	7	12	41	1.70
31171220--31171260	19	2.2	19	86	0	55	31	4	12	51	1.60
31171298--31171379	41	2.0	41	97	0	155	30	4	15	48	1.66
31183831--31183988	30	5.3	30	89	3	237	12	29	24	34	1.91
31184897--31184938	20	2.0	22	86	9	61	50	16	11	21	1.77
31197081--31197139	21	2.8	20	80	14	57	54	3	1	40	1.27
31197106--31197192	28	3.0	28	93	6	138	57	0	1	41	1.06
31197131--31197228	45	2.2	46	90	5	155	61	0	1	37	1.03
31197121--31197175	11	5.4	11	77	22	66	58	0	1	40	1.09
31197131--31197199	17	4.4	17	79	20	96	59	0	0	40	0.97
31197178--31197247	29	2.4	29	97	2	133	64	0	2	32	1.08
31197251--31197282	5	6.2	5	92	7	55	0	40	56	3	1.15
31198001--31198053	5	10.0	5	78	11	52	75	0	9	15	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31212158--31212216	30	1.9	31	89	3	93	22	28	13	35	1.92
31215763--31215869	47	2.3	47	95	0	187	38	28	5	27	1.79
31217859--31217912	22	2.5	22	81	6	56	72	5	9	12	1.27
31217868--31217912	11	4.1	11	79	0	54	75	6	6	11	1.18
31218676--31219152	37	11.8	40	81	15	449	27	21	14	35	1.93
31218721--31219116	82	5.0	79	88	8	519	27	21	14	36	1.93
31218925--31219116	36	5.0	36	82	13	240	27	20	14	36	1.92
31223412--31223451	16	2.5	16	87	0	53	37	2	0	60	1.11
31230672--31230709	16	2.4	16	90	0	58	31	0	34	34	1.58
31230689--31230797	45	2.6	43	77	10	109	35	5	27	31	1.80
31230923--31230964	15	2.7	16	82	14	52	52	2	0	45	1.13
31230932--31231093	15	10.9	15	65	23	58	50	3	1	44	1.30
31230921--31231218	120	2.5	121	93	3	503	50	4	2	42	1.36
31231259--31231319	28	2.2	28	85	5	81	50	3	0	45	1.17
31234120--31234149	3	10.0	3	92	0	51	30	0	3	66	1.07
31237184--31237217	8	4.2	8	85	14	52	73	2	0	23	0.97
31239192--31239273	40	2.0	40	81	4	94	40	14	14	30	1.86
31239262--31239425	74	2.2	72	84	6	206	35	15	12	36	1.85
31239383--31239704	161	2.0	161	98	0	617	35	17	21	25	1.95
31242064--31242198	66	2.0	66	92	0	225	41	20	9	28	1.84
31247603--31247744	42	3.4	42	90	0	230	25	21	22	30	1.98
31253589--31254179	9	64.8	9	75	13	442	34	0	16	47	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31254137--31254188	18	2.9	18	88	0	50	30	3	21	44	1.70
31254137--31254188	27	1.9	27	84	0	68	30	3	21	44	1.70
31254214--31254325	35	3.1	37	78	17	135	29	1	12	56	1.47
31254190--31254308	35	3.2	36	78	16	129	31	1	12	54	1.48
31254404--31254447	15	2.8	16	82	10	54	56	0	4	38	1.20
31254650--31254694	23	2.0	23	81	0	54	42	4	6	46	1.50
31257935--31258002	21	3.2	21	81	6	57	47	39	0	13	1.43
31259198--31259497	120	2.6	114	79	8	289	26	24	18	31	1.98
31259945--31260017	38	1.9	38	94	0	128	23	2	30	43	1.67
31268862--31268980	42	2.8	42	80	2	141	15	25	19	39	1.91
31268862--31268980	21	5.7	21	66	0	67	15	25	19	39	1.91
31270560--31270691	46	2.9	46	86	4	167	28	23	9	37	1.87
31276199--31276237	19	2.1	19	100	0	78	51	5	10	33	1.58
31276678--31276745	21	3.2	21	67	8	57	13	23	19	44	1.85
31276668--31276759	42	2.2	43	84	7	118	13	21	21	43	1.86
31281386--31281519	66	2.1	64	91	2	214	27	9	17	44	1.80
31282103--31282129	14	1.9	14	100	0	54	25	0	0	74	0.83
31282590--31282630	18	2.3	18	80	12	50	24	0	2	73	0.96
31286871--31287298	69	6.2	69	83	1	462	19	20	22	37	1.94
31292187--31292261	39	1.9	39	89	5	116	14	32	20	33	1.92
31294358--31294420	24	2.6	23	80	7	72	31	3	7	57	1.43
31300492--31300537	15	3.1	15	80	0	65	82	6	0	10	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31302113--31302159	15	3.2	15	82	11	53	65	6	4	23	1.33
31302163--31302208	19	2.4	18	82	10	56	78	4	2	15	1.01
31319431--31319482	22	2.2	25	80	16	67	51	0	1	46	1.12
31319447--31319485	11	3.4	11	80	13	51	51	0	2	46	1.14
31319465--31319501	14	2.4	17	86	13	53	45	0	0	54	1.00
31322469--31322501	9	3.7	9	91	0	57	24	12	24	39	1.89
31322467--31322501	18	1.9	18	100	0	70	28	11	22	37	1.89
31322628--31322687	30	2.0	30	86	3	84	20	43	0	36	1.52
31323089--31323141	26	2.0	26	92	0	88	41	3	0	54	1.18
31323140--31323186	17	2.8	17	76	20	53	31	2	10	55	1.46
31323524--31323549	5	5.2	5	100	0	52	23	19	19	38	1.93
31330721--31330984	133	2.0	133	98	0	510	29	22	15	32	1.94
31335660--31335723	3	21.3	3	100	0	128	32	0	0	67	0.91
31336116--31336177	24	2.6	24	82	10	65	50	0	3	46	1.17
31336346--31336484	54	2.6	54	77	8	149	33	14	23	28	1.94
31338526--31338551	7	3.7	7	100	0	52	53	0	0	46	1.00
31338592--31338617	7	3.7	7	100	0	52	42	46	11	0	1.40
31346490--31346545	19	2.9	19	86	7	69	67	0	3	28	1.07
31349115--31349163	20	2.5	20	86	6	64	10	36	16	36	1.82
31349384--31349519	60	2.2	57	81	11	130	32	0	8	58	1.34
31350736--31350786	2	25.5	2	95	0	93	49	1	0	49	1.12
31350887--31350935	2	24.0	2	91	4	80	48	4	0	46	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31353025--31353192	55	3.1	55	84	10	204	34	14	11	39	1.83
31353549--31353595	18	2.6	18	72	0	58	14	42	4	38	1.66
31357470--31357502	11	3.1	11	82	8	50	75	6	12	6	1.16
31357629--31358325	132	5.4	132	85	4	885	30	20	24	24	1.99
31357629--31358344	254	2.8	255	87	3	979	29	20	24	25	1.99
31367510--31367548	16	2.4	16	95	0	69	38	0	2	58	1.12
31368555--31368690	53	2.6	53	87	0	200	19	20	28	30	1.97
31369699--31369757	28	2.1	28	100	0	118	25	16	23	33	1.96
31371185--31371222	20	1.9	20	88	0	58	52	7	2	36	1.45
31375998--31376086	42	2.1	42	100	0	178	38	8	12	40	1.74

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