genome.fa.s3.2.7.7.80.10.50.1000.119.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  119  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)
36688392--36688646	127	2.0	128	82	6	311	32	20	19	26	1.97
36706211--36706284	38	1.9	39	83	2	96	60	1	4	33	1.24
36706269--36706307	12	3.3	12	82	7	53	71	0	2	25	0.98
36706262--36706308	20	2.5	20	82	6	62	72	0	2	25	0.96
36714365--36714444	39	2.1	39	97	0	151	25	27	22	25	2.00
36717707--36717818	56	2.0	56	96	0	206	32	16	17	33	1.92
36724876--36724913	17	2.2	18	85	4	51	10	7	2	78	1.04
36728025--36728223	99	2.0	99	89	0	299	30	19	29	21	1.97
36731431--36731523	9	10.3	9	88	0	132	31	9	24	34	1.88
36731431--36731523	27	3.4	27	92	0	159	31	9	24	34	1.88
36732612--36732636	6	4.2	6	100	0	50	84	16	0	0	0.63
36735066--36735194	60	2.2	60	81	6	147	44	10	2	43	1.50
36747143--36747225	34	2.4	34	97	0	157	39	14	8	37	1.76
36747167--36747229	16	3.8	16	69	8	54	41	14	7	36	1.75
36747428--36747472	23	2.0	23	86	8	65	31	17	28	22	1.97
36749384--36750017	315	2.0	315	94	0	1115	26	22	13	37	1.92
36754991--36755110	34	3.5	34	94	0	204	37	15	9	38	1.79
36754979--36755113	68	2.0	67	89	0	198	39	14	8	37	1.76
36755286--36755344	22	2.6	22	86	2	73	33	22	23	20	1.97
36755287--36755354	22	3.0	22	79	14	68	35	22	23	19	1.96
36772004--36772059	20	2.9	19	78	19	62	48	1	1	48	1.22
36776963--36777000	2	19.0	2	84	10	51	50	44	2	2	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36779074--36779110	18	2.1	18	94	0	65	27	5	13	54	1.61
36780742--36780903	84	1.9	84	87	2	236	37	14	22	25	1.92
36782779--36782852	34	2.2	34	85	7	98	47	12	1	39	1.49
36784241--36784270	15	1.9	16	93	6	53	10	3	13	73	1.21
36793360--36793425	29	2.3	29	82	10	82	45	1	3	50	1.26
36793886--36793916	15	2.0	15	93	6	53	64	9	19	6	1.45
36793873--36793916	16	2.8	16	83	13	56	68	9	18	4	1.34
36793869--36793954	26	3.4	25	77	7	75	70	4	22	2	1.16
36803889--36804164	43	6.5	43	82	4	319	32	27	17	23	1.97
36803889--36804199	170	1.8	170	93	0	541	35	26	16	22	1.94
36803896--36804176	127	2.2	127	81	5	352	32	27	17	22	1.96
36807720--36807775	22	2.6	21	75	22	62	37	3	3	55	1.35
36807967--36808053	41	2.1	42	91	4	149	36	19	16	27	1.93
36808283--36808440	75	2.1	76	85	5	214	32	11	13	42	1.80
36809108--36809269	82	2.0	82	89	4	247	44	27	3	25	1.69
36809120--36809293	82	2.1	82	83	3	224	46	24	2	25	1.66
36809285--36809321	14	2.6	14	86	0	56	35	32	0	32	1.58
36809369--36809400	14	2.2	15	94	5	57	37	28	0	34	1.57
36809777--36810018	41	5.9	41	89	1	358	30	23	21	24	1.99
36810050--36810185	40	3.4	40	77	3	141	19	22	21	36	1.96
36813975--36814169	50	3.9	50	80	2	205	21	27	23	28	1.99
36822421--36822487	29	2.3	28	84	5	80	37	1	0	61	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36825085--36825110	3	8.7	3	100	0	52	69	0	30	0	0.89
36838700--36838898	40	4.8	41	73	9	170	25	21	21	31	1.98
36838650--36838972	127	2.5	125	87	4	452	24	22	20	33	1.97
36838872--36839078	93	2.3	87	88	9	342	23	24	22	29	1.99
36838880--36839063	93	2.0	93	98	0	359	22	23	22	31	1.98
36839048--36839243	40	4.7	41	76	13	195	22	23	23	29	1.99
36838973--36839253	127	2.2	127	90	1	447	22	22	24	30	1.99
36838753--36839192	220	2.0	220	89	2	679	22	22	21	32	1.98
36847517--36847541	5	5.0	5	100	0	50	40	0	20	40	1.52
36852272--36852315	16	2.8	16	80	12	56	77	2	2	18	0.98
36852773--36852966	2	99.0	2	87	4	279	46	1	1	51	1.17
36853204--36853273	3	23.3	3	81	5	79	64	2	2	30	1.22
36853232--36853282	12	4.5	11	83	11	59	64	1	0	33	1.05
36856156--36856267	29	4.0	29	78	11	99	59	2	1	35	1.22
36856144--36856282	28	5.1	27	73	14	99	62	2	2	33	1.19
36856521--36856565	17	2.6	17	83	10	65	51	0	0	48	1.00
36856512--36856562	18	2.9	18	85	11	70	47	0	0	52	1.00
36856522--36856581	18	3.4	18	80	15	63	45	1	0	53	1.10
36856569--36856614	20	2.2	20	88	3	65	23	6	0	69	1.11
36861301--36861330	2	15.0	2	100	0	60	50	0	0	50	1.00
36861452--36861488	2	18.5	2	100	0	74	51	0	0	48	1.00
36864746--36864792	20	2.3	20	86	13	62	34	2	4	59	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36865093--36865123	16	1.9	16	93	0	53	29	0	0	70	0.87
36871976--36872108	67	2.0	67	82	2	160	36	17	12	33	1.88
36872112--36872323	64	3.3	63	69	13	169	33	15	12	38	1.85
36872047--36872575	131	4.0	131	83	1	596	33	16	13	37	1.87
36872047--36872575	262	2.0	262	83	1	666	33	16	13	37	1.87
36887346--36887372	3	9.0	3	100	0	54	66	0	33	0	0.92
36888051--36888109	23	2.6	23	83	0	64	11	20	22	45	1.83
36892436--36892477	19	2.2	20	82	4	50	30	7	11	50	1.66
36909759--36909795	17	2.2	16	90	4	56	81	2	13	2	0.92
36910094--36910131	8	5.0	8	90	6	53	89	2	7	0	0.57
36910165--36910223	3	19.7	3	100	0	118	67	0	0	32	0.91
36911642--36911683	18	2.4	18	84	11	52	57	4	0	38	1.20
36913045--36913107	30	2.1	31	82	8	76	41	1	4	52	1.32
36919183--36919292	43	2.6	43	72	16	102	29	27	19	24	1.98
36921371--36921407	15	2.4	16	86	8	51	64	0	5	29	1.15
36922224--36922295	28	2.6	28	90	0	108	31	12	26	29	1.93
36922224--36922304	28	3.0	24	76	16	63	33	12	23	30	1.92
36924083--36924145	25	2.5	25	100	0	126	39	6	11	42	1.66
36924787--36925013	41	5.5	41	96	0	409	28	19	28	23	1.99
36925965--36926304	23	14.5	23	73	5	277	25	15	17	41	1.88
36925963--36926324	71	5.1	71	86	4	471	25	14	17	41	1.88
36925962--36926304	48	7.3	45	72	9	184	25	15	16	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36926130--36926376	23	10.5	24	72	11	147	27	14	19	38	1.90
36925963--36926376	71	5.8	70	82	5	370	26	14	17	40	1.88
36925963--36926363	212	1.9	212	82	3	502	26	14	17	41	1.88
36931159--36931192	12	2.6	14	81	18	54	58	0	0	41	0.98
36931394--36931435	15	2.7	16	82	14	52	9	7	2	80	0.97
36934768--36934832	4	16.2	4	84	12	89	72	0	27	0	0.85
36934944--36935029	22	4.0	22	70	10	63	68	0	31	0	0.90
36934945--36934994	17	2.9	18	80	11	52	70	0	30	0	0.88
36939634--36939679	15	2.7	18	77	19	62	8	45	10	34	1.70
36939640--36939676	15	2.5	15	95	0	65	8	45	13	32	1.73
36940308--36940423	36	3.6	35	72	23	119	50	11	0	37	1.44
36940337--36940389	26	2.0	26	96	0	97	49	7	0	43	1.31
36940308--36940423	62	1.9	60	92	3	196	50	11	0	37	1.44
36940579--36940628	3	16.7	3	100	0	100	68	32	0	0	0.90
36940848--36940885	11	3.5	11	85	7	51	0	26	0	73	0.83
36940852--36940885	10	3.4	10	92	8	52	0	26	0	73	0.83
36940966--36941030	27	2.4	26	87	5	94	20	27	26	26	1.99
36940982--36941039	27	2.1	27	87	0	80	17	31	25	25	1.97
36941099--36941141	22	2.0	22	90	4	70	44	0	9	46	1.35
36942002--36942031	5	6.0	5	100	0	60	40	0	0	60	0.97
36942053--36942102	23	2.3	20	83	13	55	4	28	4	64	1.30
36950095--36950132	17	2.3	17	90	4	60	52	0	5	42	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36951209--36951243	15	2.2	16	90	5	54	54	5	2	37	1.39
36951511--36951553	22	2.0	22	95	0	77	48	13	9	27	1.73
36952476--36952504	14	2.0	15	93	6	51	31	0	0	68	0.89
36954204--36954452	128	1.9	129	85	2	340	16	15	14	53	1.73
36958426--36958479	29	2.0	26	82	10	63	50	16	12	20	1.78
36958881--36959421	126	4.3	126	93	0	895	32	19	21	26	1.97
36962293--36962325	7	4.7	7	100	0	66	57	15	0	27	1.38
36963532--36963623	11	8.4	11	77	12	91	44	0	32	22	1.53
36963536--36963623	33	2.7	32	82	8	115	44	0	31	23	1.54
36963532--36963623	22	4.2	21	81	12	105	44	0	32	22	1.53

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