genome.fa.s5.2.7.7.80.10.50.1000.56.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   

This is table  56  of  208  ( 24913 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)
15868186--15868244	23	2.6	22	79	10	57	67	5	1	25	1.20
15868209--15868250	15	2.8	15	85	7	59	71	2	4	21	1.16
15868359--15868404	18	2.5	19	83	13	60	21	0	6	71	1.08
15868357--15868401	19	2.5	19	82	7	58	22	0	6	71	1.09
15875470--15875773	59	5.2	59	86	2	434	36	11	26	24	1.90
15875470--15875772	116	2.6	117	89	2	448	36	11	27	24	1.90
15875496--15875785	29	9.9	29	70	9	196	36	12	26	24	1.90
15876045--15876083	20	1.9	20	89	5	60	38	20	0	41	1.53
15879378--15879441	32	2.0	32	100	0	128	21	31	6	40	1.78
15879539--15879600	31	2.0	31	100	0	124	22	12	32	32	1.92
15879695--15879721	13	2.1	13	100	0	54	14	14	0	70	1.17
15879719--15879765	11	4.5	11	82	12	64	31	2	19	46	1.61
15879726--15879764	20	2.0	20	100	0	78	30	2	20	46	1.64
15884500--15884718	29	7.5	28	68	15	88	34	10	29	25	1.89
15884513--15884745	88	2.7	87	86	4	333	35	10	28	25	1.89
15884642--15884802	59	2.8	60	87	6	233	36	10	27	25	1.89
15884513--15884815	88	3.5	88	80	8	305	34	11	28	25	1.91
15884526--15884817	29	10.0	29	71	11	211	35	10	28	25	1.89
15885997--15886035	20	1.9	20	89	5	60	35	17	2	43	1.63
15891651--15891735	29	2.9	30	77	5	84	47	25	5	21	1.73
15894614--15894654	18	2.2	19	86	4	57	31	14	0	53	1.41
15895199--15895383	56	3.2	57	72	17	139	59	17	1	22	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15895260--15895511	37	6.8	36	80	14	218	57	19	1	21	1.48
15895190--15895517	70	4.9	66	74	17	216	57	18	1	21	1.50
15895285--15895538	70	3.5	70	79	12	282	58	18	1	21	1.48
15895234--15895510	107	2.6	107	81	13	333	58	19	1	21	1.47
15895324--15895506	40	4.9	39	76	16	167	56	19	2	21	1.52
15895449--15895578	30	4.4	27	74	19	86	59	16	2	21	1.48
15896155--15896201	16	2.9	16	87	0	76	40	2	23	34	1.67
15900094--15900184	37	2.5	37	85	7	114	41	3	3	51	1.34
15909850--15909882	16	2.1	16	88	11	50	36	9	9	45	1.68
15920315--15920382	26	2.7	25	80	13	84	36	20	22	20	1.95
15920484--15920531	25	1.9	25	82	0	60	33	20	29	16	1.95
15927890--15928028	61	2.3	61	87	0	188	30	26	15	28	1.96
15931900--15931992	42	2.2	43	80	5	100	31	22	18	27	1.97
15937814--15937986	74	2.3	74	87	2	249	33	14	21	30	1.93
15938453--15938505	26	1.9	27	88	11	81	67	0	1	30	1.01
15938495--15938529	8	4.2	8	92	7	61	88	0	0	11	0.51
15938495--15938529	17	2.1	17	94	5	63	88	0	0	11	0.51
15938529--15938555	13	2.1	13	100	0	54	40	0	0	59	0.98
15940229--15940287	27	2.2	27	93	0	100	49	5	15	30	1.66
15941201--15941253	24	2.2	25	86	3	72	32	5	13	49	1.65
15943765--15943826	25	2.5	23	82	10	61	22	29	14	33	1.94
15945578--15945638	3	19.3	3	80	12	61	27	1	3	67	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15946116--15946312	106	1.8	109	85	3	283	29	16	19	33	1.94
15950384--15950440	26	2.3	26	79	11	66	59	7	7	26	1.49
15952509--15952551	20	2.1	20	82	4	50	65	4	4	25	1.32
15954216--15954319	46	2.3	43	80	12	120	25	17	23	34	1.96
15959592--15959721	39	3.3	39	83	2	154	30	2	21	46	1.64
15959677--15959718	22	1.9	22	85	9	59	28	0	23	47	1.52
15960374--15962307	464	4.2	463	88	1	2644	27	21	28	22	1.99
15962414--15962457	11	3.7	11	90	9	61	36	6	18	38	1.77
15963633--15963839	48	4.3	48	81	3	245	27	23	28	21	1.99
15966451--15966494	21	2.0	22	95	4	81	45	0	0	54	0.99
15969719--15969803	23	3.9	22	79	18	81	23	3	1	71	1.08
15982056--15982099	2	22.0	2	100	0	88	50	0	0	50	1.00
15982679--15982730	27	1.9	27	96	0	95	26	21	36	15	1.93
15983229--15983303	28	2.8	26	91	4	123	25	0	14	60	1.35
15984523--15984621	44	2.2	44	94	0	171	5	33	2	59	1.30
15985341--15985380	19	2.1	19	100	0	80	42	15	5	37	1.68
15987293--15987408	25	4.7	24	75	9	81	31	20	24	23	1.98
15987834--15987892	28	2.1	28	96	0	109	32	22	13	32	1.92
15989820--15989846	6	4.5	6	100	0	54	62	0	0	37	0.95
15996653--15996684	2	16.0	2	100	0	64	50	0	0	50	1.00
15996913--15997005	26	3.6	26	86	0	132	19	31	25	23	1.98
16028280--16028490	85	2.5	84	80	1	224	31	17	18	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16033589--16033623	2	17.5	2	100	0	70	51	0	0	48	1.00
16033638--16033672	18	2.0	17	88	5	52	34	17	0	48	1.47
16039234--16039273	21	2.0	19	85	9	53	27	5	10	57	1.52
16044230--16044291	25	2.5	25	86	0	79	20	19	24	35	1.96
16044252--16044300	25	2.0	25	88	4	73	20	22	28	28	1.98
16044449--16044500	26	2.0	26	81	7	61	40	7	17	34	1.78
16047759--16047793	18	1.9	18	94	0	61	48	8	14	28	1.73
16054050--16054101	23	2.3	23	93	0	86	7	19	28	44	1.78
16059459--16059524	33	2.0	33	100	0	132	12	9	36	42	1.74
16061506--16061556	26	2.0	26	88	0	75	11	17	27	43	1.84
16082921--16083013	35	2.6	35	89	1	132	17	15	30	37	1.90
16086324--16086360	12	3.1	12	92	0	65	48	0	2	48	1.15
16087788--16088086	33	8.4	33	66	23	135	33	27	19	19	1.96
16087781--16087988	75	2.8	75	88	0	308	31	27	21	19	1.97
16087893--16088120	102	2.2	102	90	0	366	32	29	17	20	1.96
16095262--16095529	33	7.7	33	70	18	188	32	26	20	20	1.97
16095271--16095531	135	1.9	135	90	1	416	32	27	19	20	1.97
16104064--16104119	23	2.4	23	84	0	67	23	16	14	46	1.83
16107908--16108145	50	4.6	50	86	4	269	23	29	20	26	1.99
16114622--16114683	26	2.4	26	86	5	81	41	12	12	32	1.81
16115239--16115324	43	2.0	43	100	0	172	34	11	16	37	1.85
16119767--16119817	26	2.0	26	84	0	66	54	11	5	27	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16120173--16120204	16	1.9	17	93	6	57	40	0	6	53	1.26
16121845--16121886	21	2.0	21	85	0	57	52	0	2	45	1.13
16121883--16121920	15	2.5	15	83	8	51	47	10	2	39	1.52
16122255--16122286	8	4.0	8	100	0	64	12	0	0	87	0.54
16127547--16127571	13	1.9	13	100	0	50	24	32	36	8	1.84
16128079--16128347	90	3.0	90	86	0	349	26	26	14	31	1.95
16128510--16128545	6	6.0	6	100	0	72	50	16	0	33	1.46
16136777--16136831	3	18.3	3	100	0	110	32	0	0	67	0.91
16143036--16143094	25	2.3	26	74	5	68	35	18	27	18	1.94
16144445--16144513	25	2.7	26	82	4	79	40	18	11	28	1.86
16144449--16144598	51	3.0	50	75	6	142	38	16	14	30	1.88
16144459--16144613	25	6.2	25	72	11	102	38	16	14	30	1.89
16146153--16146218	22	3.0	22	78	14	73	28	0	3	68	1.05
16146240--16146295	25	2.2	26	87	9	80	35	1	3	58	1.26
16146750--16146776	7	3.9	7	100	0	54	59	0	0	40	0.98
16149238--16149316	33	2.4	33	89	4	124	40	12	8	37	1.75
16151575--16151634	26	2.2	28	80	8	72	56	11	3	28	1.51
16151584--16151633	12	3.9	12	79	20	57	58	10	2	30	1.42
16151979--16152067	39	2.2	42	78	9	96	67	10	2	20	1.31
16152204--16152274	31	2.2	32	78	7	83	33	25	0	40	1.56
16153053--16153098	23	2.0	24	83	12	60	6	8	6	78	1.10
16152653--16153798	380	3.0	379	91	3	1838	32	16	13	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16161191--16161223	2	16.5	2	100	0	66	51	0	0	48	1.00
16162220--16162259	4	10.0	4	88	0	53	42	25	7	25	1.80
16166864--16166905	21	2.0	21	90	0	66	14	33	26	26	1.94
16167378--16167411	15	2.3	15	89	0	50	61	20	17	0	1.34
16168849--16168958	37	3.0	37	90	2	161	26	22	15	35	1.94
16168920--16169045	52	2.6	46	77	13	153	28	23	13	34	1.93
16168932--16169031	52	1.9	52	89	0	155	29	22	14	35	1.93
16178983--16179069	31	2.9	30	78	13	81	43	10	10	35	1.73
16180131--16180206	37	2.1	37	100	0	152	18	22	15	43	1.88
16183432--16183693	131	2.0	131	100	0	524	41	20	15	22	1.90

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   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208