genome.fa.s6.2.7.7.80.10.50.1000.35.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   

This is table  35  of  168  ( 20060 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)
9358665--9358709	23	2.0	23	81	0	54	62	15	0	22	1.33
9358889--9358999	19	5.6	19	87	7	159	40	16	7	36	1.76
9358889--9359003	38	2.9	38	93	5	185	40	16	7	35	1.78
9361828--9361868	18	2.2	20	86	8	59	19	14	19	46	1.84
9365210--9365258	25	1.9	26	83	4	64	36	0	4	59	1.17
9366435--9366474	16	2.7	14	85	11	53	57	0	0	42	0.98
9369481--9369614	69	2.0	67	85	8	182	51	5	4	38	1.47
9373673--9373719	24	2.0	24	91	0	76	17	34	17	31	1.92
9374653--9375004	175	2.0	175	97	0	659	33	20	15	30	1.93
9381734--9381869	50	2.7	51	82	3	168	24	17	27	30	1.97
9381738--9381879	51	2.8	50	82	3	169	23	18	27	30	1.98
9391131--9391170	20	2.0	20	90	0	62	25	7	37	30	1.83
9399181--9399222	15	2.7	16	77	7	50	57	2	0	40	1.12
9401188--9401255	12	5.7	12	82	0	82	10	26	38	25	1.88
9402407--9402484	39	2.0	39	100	0	156	30	17	12	38	1.88
9402481--9402568	25	3.6	25	78	7	81	32	20	19	27	1.97
9406475--9406530	22	2.6	22	83	8	62	32	16	32	19	1.94
9409125--9409179	27	2.0	27	100	0	110	25	10	14	49	1.76
9409238--9409269	2	15.5	2	93	6	55	46	50	0	3	1.17
9412567--9412938	185	2.0	185	99	0	735	27	15	22	34	1.94
9416057--9416086	15	1.9	16	93	6	53	43	0	0	56	0.99
9417858--9417895	3	12.7	3	94	0	67	68	0	31	0	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9418446--9418763	161	2.0	161	94	0	557	24	17	16	41	1.89
9420809--9421052	50	4.8	50	77	9	167	28	18	28	25	1.98
9424235--9424269	17	2.0	18	88	5	54	45	2	17	34	1.63
9427717--9427752	17	2.1	18	89	5	56	30	0	5	63	1.17
9430115--9430213	50	2.0	51	84	6	130	35	14	11	39	1.81
9434345--9434393	20	2.5	20	93	0	80	20	14	10	55	1.68
9443989--9444013	13	1.9	13	100	0	50	16	8	20	56	1.65
9449841--9449880	20	2.0	21	90	5	64	35	17	25	22	1.95
9453837--9453888	20	2.8	18	76	21	54	51	3	3	40	1.38
9453881--9453930	24	2.1	23	82	10	57	58	6	2	34	1.34
9455502--9455532	16	1.9	16	93	0	53	74	3	6	16	1.16
9464429--9464474	23	2.0	23	91	0	74	28	32	10	28	1.91
9470869--9470933	27	2.4	26	80	16	71	36	24	23	15	1.93
9471063--9471157	27	3.5	27	85	5	129	23	14	25	36	1.93
9481788--9481881	26	3.6	26	77	7	82	22	22	20	35	1.96
9481976--9482040	33	2.0	33	87	0	94	24	24	23	27	2.00
9487807--9487883	33	2.3	33	84	2	91	24	23	22	29	1.99
9488341--9488369	13	2.1	14	93	6	51	55	13	10	20	1.68
9511988--9512031	15	2.8	16	79	6	54	68	0	0	31	0.90
9511986--9512034	25	2.0	25	84	8	64	67	0	0	32	0.91
9514776--9515069	163	1.8	162	85	3	421	39	24	9	26	1.85
9528461--9528645	51	3.7	50	78	5	167	25	18	25	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9528649--9528747	46	2.2	43	82	12	119	24	19	23	33	1.97
9528871--9528902	16	2.0	16	93	0	55	59	0	15	25	1.36
9530319--9530351	5	6.6	5	100	0	66	36	0	0	63	0.95
9531637--9531787	75	2.0	75	100	0	302	22	7	26	43	1.81
9540696--9540763	33	2.1	33	100	0	136	36	11	23	27	1.90
9542016--9542042	13	2.1	13	100	0	54	66	0	0	33	0.92
9544363--9544493	34	3.8	34	83	6	174	39	0	16	43	1.48
9544608--9544942	125	2.7	125	86	1	483	37	19	16	26	1.93
9548413--9548450	18	2.1	18	95	0	67	39	10	26	23	1.87
9557718--9557768	6	8.5	6	82	18	54	15	5	0	78	0.93
9560502--9560613	37	3.0	37	100	0	224	41	18	18	21	1.91
9564635--9564675	20	2.0	21	86	9	59	39	0	4	56	1.21
9565108--9565366	42	6.1	43	81	4	249	27	28	17	26	1.98
9568988--9569120	40	3.4	40	77	8	123	35	21	21	21	1.96
9569148--9569308	41	4.0	41	89	2	236	18	22	31	27	1.97
9569419--9569470	22	2.4	20	79	17	59	46	5	3	44	1.45
9569946--9570010	14	4.6	13	77	11	58	15	3	49	32	1.60
9569946--9570021	14	5.3	14	75	7	55	17	2	46	34	1.62
9570717--9570788	29	2.5	30	77	6	85	31	0	31	36	1.58
9575234--9575561	43	7.6	42	84	4	327	25	19	28	26	1.99
9575268--9575561	129	2.3	128	85	3	367	26	19	28	25	1.99
9576202--9576235	16	2.2	16	89	5	52	82	2	2	11	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9576650--9576739	42	2.2	41	88	4	128	23	25	20	31	1.98
9581974--9582043	33	2.1	33	83	0	86	42	20	5	31	1.75
9582087--9582277	41	4.6	41	95	0	337	23	27	20	28	1.99
9588355--9588395	16	2.6	16	96	0	73	34	14	14	36	1.87
9590356--9590397	22	2.0	22	86	13	61	14	9	4	71	1.28
9593761--9593794	3	11.3	3	100	0	68	32	0	0	67	0.91
9598731--9598765	14	2.5	14	85	0	52	71	0	14	14	1.15
9600075--9601075	44	22.7	44	86	2	1077	32	12	22	32	1.91
9602562--9602619	3	19.3	3	100	0	116	32	0	0	67	0.91
9626376--9626462	45	1.9	45	93	4	149	33	24	17	25	1.96
9626471--9626658	51	3.7	49	77	3	160	31	29	15	23	1.95
9631555--9631586	14	2.1	16	88	11	50	46	9	12	31	1.73
9637745--9637841	48	2.0	48	97	0	185	21	17	14	46	1.84
9644706--9644813	20	5.8	18	71	15	60	51	3	1	42	1.30
9644670--9644814	68	2.1	71	80	7	163	52	4	2	40	1.37
9648763--9648806	22	2.0	21	83	12	54	4	38	0	56	1.20
9651489--9651542	2	27.0	2	96	0	99	50	1	0	48	1.11
9652360--9652425	27	2.3	29	82	7	73	36	0	3	60	1.12
9652777--9652811	3	11.7	3	100	0	70	68	0	0	31	0.90
9652930--9652982	25	2.1	25	100	0	106	28	13	26	32	1.93
9653211--9653236	2	13.0	2	100	0	52	50	0	0	50	1.00
9655079--9655103	12	2.1	12	100	0	50	40	0	24	36	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9675521--9675673	22	7.0	22	90	0	225	32	14	26	26	1.94
9681558--9681995	215	2.0	217	86	4	601	26	23	15	35	1.94
9682276--9682317	22	1.9	22	95	0	75	21	21	4	52	1.65
9684038--9684232	41	4.8	41	97	0	363	26	28	20	24	1.99
9689564--9689588	12	2.1	12	100	0	50	40	0	8	52	1.31
9689990--9690055	20	3.3	20	71	0	60	25	22	15	36	1.93
9690727--9690778	21	2.5	21	96	0	95	38	9	19	32	1.84
9692485--9692531	15	3.2	15	71	17	53	36	12	17	34	1.87
9698898--9699211	25	12.6	25	70	15	152	27	12	22	37	1.89
9698905--9699226	50	6.5	50	81	2	333	27	11	22	38	1.88
9698923--9699196	99	2.8	98	82	3	334	27	12	21	38	1.89
9699149--9699226	25	3.1	24	77	20	88	23	11	29	35	1.90
9708308--9708386	31	2.6	31	87	2	115	43	10	16	30	1.81
9710035--9710073	20	2.0	20	84	0	51	17	41	5	35	1.72
9720532--9720597	33	2.0	33	96	0	123	24	16	21	37	1.93
9722006--9722067	26	2.4	26	80	0	79	35	12	12	38	1.82
9722777--9722843	34	2.0	33	85	8	91	20	23	23	31	1.98
9725552--9725633	17	4.8	16	76	15	76	75	4	7	12	1.16
9725564--9725640	10	7.6	10	71	17	61	76	5	6	11	1.13
9725673--9725723	26	2.0	26	84	7	68	70	1	5	21	1.18
9725778--9725821	23	2.0	22	90	4	70	75	2	0	22	0.92
9725747--9725813	16	4.4	15	72	20	59	73	1	4	20	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9733158--9733187	11	2.7	11	100	0	60	40	26	6	26	1.81
9741331--9741387	30	1.9	30	85	0	78	38	8	22	29	1.85
9741723--9741773	26	2.0	26	92	0	84	21	23	31	23	1.98
9741749--9742114	43	8.7	42	78	10	331	23	16	25	34	1.95
9741749--9742069	128	2.5	126	90	3	486	23	15	25	35	1.94
9741749--9742113	85	4.3	86	84	6	344	23	16	25	34	1.95
9750256--9750322	3	22.3	3	93	0	116	64	0	1	34	1.03
9765622--9765708	25	3.5	25	73	7	88	22	21	22	32	1.98
9766985--9767042	29	2.0	29	93	3	100	24	39	20	15	1.91
9767646--9767676	12	2.5	12	94	5	53	61	0	0	38	0.96

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   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168