genome.fa.s3.2.7.7.80.10.50.1000.109.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  109  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)
33915961--33916042	40	2.0	42	83	4	105	24	24	29	21	1.99
33915980--33916058	40	2.0	39	85	9	106	20	25	31	22	1.98
33916151--33916469	97	3.3	95	83	5	399	39	2	17	40	1.64
33916480--33916774	126	2.4	126	88	3	434	33	18	20	27	1.96
33919749--33919948	111	1.8	110	92	3	339	49	5	4	41	1.46
33919909--33920011	34	3.2	33	82	10	124	50	4	3	40	1.42
33919933--33920011	34	2.2	36	93	4	135	51	5	3	39	1.42
33920430--33920472	18	2.4	18	84	0	50	46	9	25	18	1.79
33937799--33937863	29	2.2	29	83	0	76	27	6	15	50	1.67
33940691--33940733	18	2.3	19	84	11	54	46	6	0	46	1.30
33940916--33940960	23	2.0	23	83	16	58	44	11	0	44	1.39
33943174--33943262	42	2.1	42	97	0	169	42	10	6	40	1.65
33943261--33943303	15	2.7	15	85	7	50	2	13	2	81	0.89
33943278--33943311	15	2.3	15	89	0	50	2	11	2	82	0.89
33943257--33943319	17	3.9	15	82	15	65	4	11	3	80	0.97
33944172--33944228	8	6.6	8	78	11	51	75	0	8	15	1.04
33944289--33944326	20	1.9	20	84	10	51	78	10	0	10	0.95
33948632--33949132	46	11.7	44	70	11	272	28	20	18	32	1.97
33948587--33948875	84	3.4	84	74	8	296	30	20	17	31	1.96
33948537--33948919	171	2.2	171	93	0	649	29	20	17	32	1.96
33948722--33949126	44	9.6	41	71	13	137	28	21	18	31	1.97
33948767--33949048	129	2.2	130	90	1	433	28	20	18	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33961544--33961580	2	18.5	2	100	0	74	51	0	0	48	1.00
33964722--33964767	16	2.8	17	80	6	58	41	19	2	36	1.64
33965775--33965885	33	3.4	33	78	10	95	27	2	46	22	1.65
33969438--33969485	16	2.9	16	90	3	69	33	0	22	43	1.54
33970876--33971025	36	3.9	36	78	16	165	28	20	12	38	1.89
33970826--33971026	82	2.5	81	92	3	325	28	20	14	36	1.92
33974572--33974609	2	19.0	2	100	0	76	50	0	0	50	1.00
33974892--33974927	19	1.9	19	94	5	65	38	2	2	55	1.29
33976154--33976179	13	2.0	13	100	0	52	46	7	7	38	1.61
33980888--33980942	24	2.3	24	87	0	74	23	30	18	27	1.97
33981089--33981181	24	3.8	24	87	4	116	18	31	22	27	1.97
33981172--33981252	30	2.8	30	90	3	121	20	24	28	25	1.99
33986123--33986156	16	2.1	17	88	5	52	38	0	8	52	1.33
33990930--33991081	41	3.7	41	81	0	187	23	18	30	28	1.97
33991579--33991626	25	1.9	25	91	0	78	35	0	4	60	1.16
33991782--33991819	14	2.7	15	84	12	53	26	2	28	42	1.69
33991789--33991885	21	4.6	21	76	3	70	24	2	39	34	1.67
33991838--33991877	20	2.0	20	85	0	53	25	2	45	27	1.66
33996247--33996348	43	2.4	43	78	6	116	26	17	27	28	1.98
33998842--33998957	43	2.7	44	79	12	116	27	31	15	25	1.96
34004880--34004925	24	1.9	24	90	0	74	28	15	34	21	1.94
34004880--34004937	24	2.4	24	85	0	62	27	13	34	24	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34017173--34017211	5	7.8	5	85	8	53	82	0	15	2	0.79
34017173--34017219	16	3.1	16	81	9	62	78	0	19	2	0.85
34019998--34020216	45	4.9	44	81	6	183	41	15	21	21	1.90
34019999--34020216	90	2.4	90	78	7	219	41	15	21	22	1.90
34024907--34025038	41	3.2	42	81	6	164	15	20	26	37	1.92
34024929--34025093	41	4.0	42	75	12	121	17	19	23	40	1.92
34024896--34025091	82	2.4	82	76	10	211	16	19	22	40	1.91
34026130--34026168	7	5.7	7	96	3	71	56	0	28	15	1.40
34029756--34029854	43	2.3	43	85	3	146	27	15	17	40	1.89
34030410--34030553	47	3.1	47	68	18	131	45	2	2	48	1.31
34030380--34030594	91	2.4	91	92	1	360	47	3	3	45	1.36
34030701--34030730	15	1.9	16	93	6	53	43	0	6	50	1.28
34030601--34031010	120	3.4	120	96	0	757	43	2	3	49	1.35
34030722--34030756	18	2.0	17	88	5	52	45	0	0	54	0.99
34030908--34030979	37	1.9	37	81	10	85	45	2	5	45	1.41
34030962--34030996	18	2.0	17	88	5	52	45	0	0	54	0.99
34031153--34031249	45	2.2	45	85	5	126	34	27	6	31	1.82
34032113--34032163	18	2.8	18	85	5	59	45	5	1	47	1.38
34032375--34032423	21	2.4	20	86	6	71	67	0	4	28	1.09
34037837--34037871	6	5.8	6	100	0	70	51	0	31	17	1.45
34041096--34041125	6	4.8	6	95	4	51	53	0	30	16	1.44
34048900--34048938	14	2.7	15	84	7	55	53	12	7	25	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34054941--34054999	31	1.9	31	86	6	84	49	10	0	40	1.37
34055119--34055180	32	1.9	32	90	0	97	35	16	14	33	1.89
34055498--34055729	112	2.1	114	84	7	305	50	19	3	26	1.65
34061311--34061336	4	6.5	4	100	0	52	53	0	23	23	1.46
34071342--34071615	51	5.4	51	90	0	406	27	24	15	32	1.95
34071342--34071615	102	2.7	102	93	0	460	27	24	15	32	1.95
34071547--34071673	65	2.0	65	90	3	202	25	24	16	33	1.96
34075553--34075801	50	4.8	50	88	3	336	20	30	23	25	1.99
34075552--34075801	100	2.4	104	89	5	373	21	30	23	25	1.99
34075896--34075927	13	2.5	13	94	0	55	56	12	0	31	1.37
34076139--34076196	30	1.9	30	89	0	89	31	24	3	41	1.71
34079958--34079994	8	4.8	8	93	6	67	35	0	0	64	0.94
34079958--34079994	15	2.4	16	95	4	67	35	0	0	64	0.94
34080025--34080080	26	2.2	25	83	3	67	33	0	1	64	1.04
34081299--34081368	25	2.8	25	85	8	90	57	5	0	37	1.23
34081295--34081368	23	3.0	23	80	9	76	55	6	0	37	1.27
34082347--34082418	21	3.5	21	75	7	85	33	11	12	43	1.78
34082360--34082423	19	3.3	19	81	16	85	35	12	9	42	1.75
34083974--34084004	15	2.1	15	100	0	62	35	19	12	32	1.90
34084888--34084965	21	3.7	21	91	8	124	39	0	0	60	0.97
34085041--34085114	10	7.1	10	71	19	53	29	0	2	67	1.04
34085055--34085116	21	3.1	21	88	6	94	30	0	3	66	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34085062--34085130	30	2.4	31	83	9	83	34	0	1	63	1.03
34085169--34085253	29	2.9	28	78	15	75	40	0	2	57	1.11
34088636--34088738	30	3.5	30	82	4	102	26	23	28	22	1.99
34091359--34091404	20	2.2	20	84	3	56	50	6	2	41	1.40
34091464--34091507	21	2.1	21	82	0	52	54	0	6	38	1.27
34091638--34091716	34	2.3	36	84	8	119	60	0	0	39	0.97
34091670--34091748	23	3.5	22	75	11	70	55	5	0	39	1.22
34091673--34091716	21	2.0	23	91	8	74	61	0	0	38	0.96
34091757--34091832	9	8.8	8	70	16	53	76	3	3	15	1.09
34091744--34091791	13	3.9	13	81	13	57	75	6	0	18	1.01
34091751--34091850	9	10.9	9	71	10	51	76	3	5	16	1.09
34093593--34093638	9	5.1	9	94	0	83	45	13	10	30	1.77
34094643--34094668	5	5.2	5	100	0	52	19	19	19	42	1.90
34098867--34098895	15	1.9	15	100	0	58	31	13	27	27	1.94
34114423--34114462	10	3.9	10	87	12	55	17	0	2	80	0.83
34116174--34116240	29	2.3	29	89	0	98	31	23	29	14	1.95
34117720--34117795	40	1.9	39	84	7	100	14	9	7	68	1.38
34118612--34118649	5	7.8	5	88	5	60	81	2	15	0	0.80
34119430--34119496	29	2.3	29	89	0	98	31	23	29	14	1.95
34122978--34123020	12	3.2	13	78	21	52	44	2	9	44	1.49
34125434--34125509	30	2.5	30	91	0	125	22	15	31	30	1.95
34125478--34125577	36	2.8	36	76	8	105	30	17	24	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34127413--34127476	21	3.1	20	86	2	92	35	23	21	18	1.95
34127934--34127958	8	3.1	8	100	0	50	0	24	0	76	0.80
34128176--34128236	5	12.6	5	77	19	67	55	0	0	44	0.99
34129128--34129237	23	5.1	21	70	9	87	40	21	16	21	1.91
34129931--34129983	5	10.6	5	95	0	97	58	0	1	39	1.09
34129934--34130006	15	4.6	17	88	10	86	57	0	1	41	1.07
34133719--34133823	43	2.5	41	84	6	131	29	16	28	25	1.97
34133721--34133831	41	2.6	43	84	5	138	28	17	28	25	1.97
34140542--34140658	35	3.3	35	86	1	162	15	12	32	39	1.85
34143954--34143982	12	2.5	12	94	5	51	44	20	0	34	1.52

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