genome.fa.s3.2.7.7.80.10.50.1000.148.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  148  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)
44801172--44801273	39	2.6	40	80	3	125	24	19	26	29	1.98
44801342--44801465	39	3.1	39	78	5	131	29	20	23	27	1.99
44801890--44801993	7	14.6	7	70	7	66	24	0	27	47	1.58
44801890--44802016	14	8.9	14	72	13	71	22	0	31	44	1.59
44801982--44802050	21	3.2	22	80	13	65	17	0	42	40	1.49
44801890--44802050	7	22.6	7	69	13	51	21	0	34	43	1.58
44802207--44802268	24	2.6	23	75	7	61	53	3	0	43	1.17
44804162--44804438	9	30.0	9	70	15	129	45	16	2	36	1.61
44804144--44804259	54	2.1	56	87	7	166	46	16	1	35	1.57
44804287--44804436	51	2.9	51	89	8	209	45	17	0	37	1.49
44813085--44813278	43	4.5	43	91	0	289	24	17	26	31	1.97
44813365--44813406	22	1.9	22	90	0	66	45	26	19	9	1.80
44824581--44824629	25	2.0	25	83	0	62	14	16	16	53	1.74
44826133--44826175	18	2.5	17	81	11	52	32	0	2	65	1.06
44831431--44831463	7	4.7	7	88	11	50	72	0	15	12	1.12
44831431--44831463	13	2.3	15	90	10	52	72	0	15	12	1.12
44832731--44833397	88	7.6	88	89	1	863	28	22	24	24	1.99
44833596--44834673	100	10.8	100	87	1	1424	29	23	24	22	1.99
44845409--44845460	19	2.7	19	82	5	61	36	0	1	61	1.07
44849106--44849163	19	3.2	19	83	9	68	36	0	1	62	1.06
44856575--44856641	24	2.8	24	69	15	66	17	8	43	29	1.80
44860674--44860724	21	2.4	21	83	3	66	33	0	1	64	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44862952--44862992	6	6.8	6	91	0	55	36	2	43	17	1.62
44862953--44863009	18	3.2	18	82	5	53	40	3	42	14	1.62
44863390--44863553	69	2.4	69	87	1	238	29	14	18	36	1.91
44873202--44873248	4	11.8	4	86	0	67	27	4	23	44	1.72
44873206--44873248	16	2.7	16	92	0	77	27	4	23	44	1.73
44876628--44876685	3	19.0	3	77	22	59	67	1	1	29	1.11
44881129--44881181	23	2.3	23	93	0	97	32	26	20	20	1.98
44881407--44881445	18	2.2	17	86	13	53	46	20	0	33	1.51
44887195--44887279	43	2.0	43	90	2	136	34	21	9	35	1.85
44891050--44891107	2	29.0	2	100	0	116	50	0	0	50	1.00
44909878--44909919	11	3.5	11	82	17	57	73	2	4	19	1.12
44911512--44911582	29	2.4	28	86	4	88	46	2	14	36	1.59
44915549--44915606	29	2.0	29	80	12	66	39	12	1	46	1.51
44930945--44930979	16	2.2	17	90	10	56	42	5	0	51	1.25
44933187--44933238	14	3.7	14	71	19	54	46	1	17	34	1.59
44943337--44943386	26	1.9	26	91	0	82	34	20	8	38	1.82
44945641--44945718	28	2.8	28	92	0	120	26	25	14	33	1.94
44955443--44955478	16	2.2	16	90	0	54	69	8	2	19	1.27
44959153--44959219	19	3.2	21	68	29	61	43	20	10	25	1.84
44959314--44959362	18	2.8	17	75	6	62	30	16	0	53	1.43
44959374--44959454	27	3.0	27	90	0	135	41	17	1	39	1.57
44960117--44960143	6	4.5	6	100	0	54	0	14	0	85	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44960367--44960415	15	3.3	15	81	13	66	57	4	0	38	1.18
44961807--44961900	3	31.3	3	76	8	93	63	3	3	29	1.25
44968454--44968706	99	2.6	98	80	6	305	45	13	13	27	1.81
44968648--44968779	70	1.9	71	92	4	223	53	11	9	25	1.68
44983747--44983948	106	1.9	106	88	0	305	30	18	17	33	1.94
44998608--44998633	6	4.3	6	100	0	52	46	0	0	53	1.00
45007895--45008192	144	2.1	144	86	3	408	34	27	7	29	1.85
45013448--45013524	9	8.6	9	73	17	54	57	2	1	38	1.21
45013446--45013524	19	4.4	17	73	14	61	56	2	1	39	1.21
45013446--45013526	28	2.9	27	74	15	76	56	2	1	39	1.20
45013457--45013526	19	3.8	19	74	12	65	58	1	1	38	1.16
45013561--45013610	17	2.9	17	78	3	64	62	2	2	34	1.18
45014370--45014439	30	2.3	31	85	11	101	51	4	0	44	1.21
45017372--45017406	16	2.1	18	89	10	56	42	0	0	57	0.99
45017961--45018032	31	2.3	32	76	9	78	45	9	11	33	1.72
45027704--45027788	24	3.5	24	75	10	75	34	1	4	60	1.25
45029314--45029366	5	10.2	5	88	8	79	37	0	1	60	1.08
45030058--45030122	3	21.7	3	80	0	76	35	0	3	61	1.12
45030058--45030122	27	2.4	27	100	0	130	35	0	3	61	1.12
45037061--45037152	47	2.0	47	87	6	134	23	11	8	55	1.64
45037706--45037751	22	2.0	22	87	4	65	28	0	10	60	1.30
45041743--45041809	31	2.2	31	97	0	125	29	14	11	43	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45041848--45042083	115	2.0	116	82	6	289	40	9	11	38	1.74
45043079--45043124	18	2.6	17	81	18	58	8	6	4	80	1.01
45045724--45045767	21	2.1	21	91	0	70	54	13	11	20	1.69
45053960--45054016	26	2.1	27	93	3	98	33	22	5	38	1.77
45081068--45081361	156	1.9	156	92	0	498	44	21	7	27	1.78
45083920--45083978	24	2.6	23	82	12	68	69	1	0	28	0.98
45083920--45083967	11	4.2	12	81	7	57	70	0	0	29	0.87
45083920--45083980	11	5.2	12	78	9	56	70	1	0	27	0.97
45083932--45083979	24	2.0	25	87	4	71	68	2	0	29	1.01
45086236--45086266	3	10.3	3	100	0	62	67	0	32	0	0.91
45088443--45088470	2	14.0	2	100	0	56	50	0	0	50	1.00
45092588--45092744	72	2.2	71	86	2	224	36	12	19	31	1.89
45092799--45092887	29	3.1	29	65	12	74	44	7	8	38	1.65
45095131--45095177	17	2.8	16	81	9	58	40	0	4	55	1.19
45095131--45095185	17	3.5	17	81	16	57	43	0	3	52	1.18
45095812--45095858	25	1.9	25	83	12	62	51	4	2	42	1.33
45097171--45097259	44	2.0	44	88	0	133	28	10	24	37	1.88
45099475--45099537	31	2.0	31	81	6	74	36	9	15	38	1.81
45106437--45106490	23	2.3	23	80	0	63	16	14	35	33	1.90
45107758--45107982	112	2.0	112	99	0	441	43	20	8	27	1.80
45126560--45126624	28	2.4	27	80	12	62	46	0	7	46	1.31
45134233--45134529	157	1.9	155	87	3	434	37	11	13	38	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45149292--45149370	32	2.5	31	80	13	81	50	2	0	46	1.14
45149706--45149768	19	3.1	20	73	13	65	66	11	4	17	1.39
45154938--45154964	7	3.9	7	100	0	54	44	0	14	40	1.46
45157549--45157584	18	1.9	18	88	5	54	58	2	0	38	1.13
45167350--45167441	29	3.1	29	75	6	76	43	8	7	40	1.64
45167364--45167441	30	2.6	29	80	9	77	41	8	8	41	1.68
45167529--45167562	8	4.4	8	85	7	52	73	0	2	23	0.97
45167996--45168054	31	1.9	31	89	6	93	45	15	6	32	1.72
45168805--45169219	220	1.9	220	81	3	512	25	23	28	23	2.00
45176629--45176656	14	2.0	14	100	0	56	64	0	0	35	0.94
45177064--45177119	2	28.5	2	96	3	105	51	0	0	48	1.00
45194995--45195063	15	4.6	14	75	18	50	63	0	0	36	0.94
45194998--45195082	44	2.0	44	82	8	106	61	0	0	38	0.96
45200068--45200112	21	2.1	21	83	0	54	53	0	6	40	1.27
45202078--45202155	38	2.1	38	97	0	147	24	11	30	33	1.91
45205209--45205258	16	3.2	16	83	13	68	60	20	2	18	1.46
45205690--45205786	47	2.1	47	98	0	185	20	9	23	46	1.79
45206948--45206981	14	2.4	14	86	13	52	64	2	0	32	1.08
45211426--45211459	1	34.0	1	87	0	50	94	0	5	0	0.32
45211426--45211461	11	3.0	12	92	8	56	91	0	8	0	0.41
45213940--45213975	16	2.1	18	90	10	58	30	0	13	55	1.39
45223130--45223201	22	3.3	22	94	0	117	25	27	16	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45223314--45223353	19	2.1	19	85	0	53	42	2	0	55	1.13
45235140--45235431	103	2.8	103	90	1	442	24	25	29	20	1.99
45235353--45235505	80	1.9	80	91	2	254	21	25	28	24	1.99
45235433--45235700	104	2.6	104	83	3	342	23	22	30	22	1.99
45236515--45236566	15	3.5	15	75	0	59	5	21	13	59	1.55
45236525--45236572	10	4.8	10	81	0	51	10	16	10	62	1.53
45237190--45237231	22	1.9	22	100	0	84	45	9	0	45	1.36
45241239--45241278	16	2.4	16	87	4	53	42	0	17	40	1.49
45241237--45241287	27	1.9	27	84	4	68	45	1	15	37	1.58
45241775--45241822	22	2.2	22	92	0	78	39	10	0	50	1.37

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