genome.fa.s5.2.7.7.80.10.50.1000.199.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  199  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)
60514490--60514550	10	5.6	10	76	16	59	22	27	0	49	1.50
60516365--60516408	18	2.4	18	96	0	79	15	22	11	50	1.76
60517664--60517712	9	5.4	9	90	9	82	42	20	10	26	1.84
60522169--60522212	22	2.0	22	100	0	88	59	9	18	13	1.60
60523691--60523759	30	2.3	30	82	0	75	26	13	7	53	1.65
60524170--60524254	37	2.3	37	76	11	86	58	1	1	38	1.13
60528899--60528974	30	2.5	30	93	0	125	30	14	26	28	1.95
60534265--60534313	6	8.2	6	93	0	80	44	0	34	20	1.52
60549890--60549935	18	2.8	17	78	15	53	2	30	39	28	1.69
60551537--60551579	13	3.1	14	84	12	54	60	0	0	39	0.97
60554052--60554089	3	12.7	3	100	0	76	65	0	0	34	0.93
60554094--60554123	3	10.0	3	100	0	60	33	0	33	33	1.58
60561206--60561321	31	3.9	29	70	21	96	44	12	18	25	1.83
60561430--60561466	16	2.2	17	95	4	67	70	0	0	29	0.88
60562475--60562508	18	1.9	18	88	5	52	52	5	14	26	1.64
60572947--60573047	30	3.5	28	80	10	114	60	1	4	32	1.29
60573000--60573073	30	2.5	31	77	16	79	66	2	2	28	1.19
60573004--60573092	9	9.3	9	72	13	54	67	3	2	26	1.18
60573206--60573295	39	2.4	37	77	18	96	62	1	4	32	1.22
60580246--60580295	23	2.2	22	79	10	55	14	10	18	58	1.63
60580254--60580297	23	1.9	23	90	0	70	11	11	15	61	1.57
60586215--60586313	11	9.7	11	69	27	51	61	0	3	35	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60586218--60586290	17	4.0	17	73	16	74	67	0	1	31	1.00
60586199--60586329	40	3.3	40	86	6	187	64	0	3	31	1.11
60586727--60586803	9	7.8	9	72	18	55	33	2	2	61	1.24
60592271--60592539	42	6.4	42	92	0	396	47	10	17	24	1.78
60596116--60596156	21	2.0	21	90	0	64	14	56	4	24	1.58
60600154--60600247	29	3.2	30	87	6	129	34	22	4	39	1.74
60600849--60600921	28	2.4	32	75	11	73	68	2	23	5	1.24
60601531--60601569	17	2.3	17	86	8	53	33	15	7	43	1.75
60601588--60601637	26	1.9	25	92	8	82	28	10	16	46	1.78
60601719--60602077	17	21.0	18	69	14	156	29	13	11	45	1.78
60601721--60601895	35	5.0	36	73	10	130	29	14	12	44	1.81
60601679--60601765	42	2.0	43	84	4	113	24	11	13	50	1.75
60601723--60601894	89	1.9	88	84	3	229	30	14	12	43	1.82
60601779--60601922	52	2.7	53	77	10	152	30	14	12	42	1.83
60601719--60602077	18	21.0	17	68	14	143	29	13	11	45	1.78
60609118--60609147	14	2.1	15	93	6	53	43	0	0	56	0.99
60611589--60611639	27	1.9	27	84	4	68	64	3	0	31	1.11
60612711--60612750	21	1.9	21	90	10	64	25	12	7	55	1.63
60614412--60614474	16	4.2	16	74	9	62	44	1	0	53	1.10
60614412--60614488	15	4.4	17	71	18	52	44	1	0	54	1.08
60614772--60614813	18	2.3	19	80	12	52	45	4	4	45	1.45
60615887--60615952	32	2.1	32	94	0	114	50	0	21	28	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60617431--60617475	17	2.7	16	80	10	54	75	4	2	17	1.07
60637160--60637195	16	2.3	15	90	4	54	33	2	5	58	1.36
60638152--60638188	16	2.3	16	90	9	58	40	2	10	45	1.53
60649279--60649373	45	2.1	44	88	1	136	33	27	6	32	1.82
60649354--60649405	16	3.2	16	94	0	86	34	36	0	28	1.58
60652867--60652907	2	20.5	2	100	0	82	51	48	0	0	1.00
60655851--60655902	15	3.6	15	80	12	56	53	1	0	44	1.11
60655801--60656011	104	2.0	104	92	1	352	49	5	3	42	1.41
60659274--60659312	21	1.9	20	94	5	69	25	12	5	56	1.57
60667160--60667375	73	2.9	73	90	3	344	34	17	18	29	1.94
60669289--60669506	107	2.0	107	88	1	321	24	21	26	27	1.99
60669422--60669987	50	11.3	50	71	0	414	26	21	21	30	1.98
60669431--60670018	100	5.9	100	87	0	710	26	21	20	31	1.97
60669420--60670018	200	3.0	200	84	0	793	26	21	20	31	1.98
60670295--60670352	24	2.4	24	88	0	80	31	24	10	34	1.89
60675649--60675791	74	1.9	73	91	1	232	35	18	18	27	1.94
60678353--60678570	24	8.6	24	77	13	195	27	4	43	24	1.72
60678378--60678572	54	3.7	54	81	13	253	28	4	43	24	1.72
60678353--60678570	102	2.1	102	91	1	357	27	4	43	24	1.72
60681277--60681636	196	1.8	196	89	0	567	36	23	13	26	1.91
60682217--60682251	18	1.9	18	100	0	70	17	14	40	28	1.88
60682830--60682874	13	3.5	13	84	6	65	51	15	4	28	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60686216--60686282	28	2.5	26	81	13	73	65	4	2	26	1.26
60688075--60688123	18	2.8	17	81	9	62	73	0	0	26	0.83
60688077--60688123	14	3.5	14	85	5	62	72	0	0	27	0.85
60689620--60689706	28	3.1	26	76	14	84	32	3	4	59	1.34
60689635--60689723	28	3.1	28	73	10	74	29	4	3	62	1.31
60689761--60689806	11	4.7	10	78	21	53	39	0	0	60	0.97
60689760--60689835	29	2.6	30	80	10	79	35	1	1	61	1.12
60689867--60689980	18	6.3	18	70	10	81	32	3	2	61	1.27
60689913--60689981	9	8.0	8	73	23	52	33	1	2	62	1.19
60689913--60689981	25	2.7	26	86	8	88	33	1	2	62	1.19
60691758--60691822	27	2.4	27	84	0	76	33	10	32	23	1.89
60692965--60693012	24	2.0	24	84	8	62	66	4	0	29	1.10
60696276--60696429	27	5.8	27	69	15	108	49	0	11	38	1.39
60696280--60696435	53	2.9	54	76	9	176	48	0	11	39	1.39
60696360--60696404	23	2.0	22	82	4	54	46	0	13	40	1.43
60697224--60697564	168	2.0	168	91	1	558	10	22	19	46	1.81
60708914--60709022	54	2.0	54	89	0	164	33	4	20	42	1.72
60711692--60711729	18	2.1	18	90	0	58	78	0	15	5	0.91
60715737--60715845	54	2.0	54	90	0	173	32	4	21	42	1.73
60719131--60719283	27	5.8	26	69	13	82	47	0	9	42	1.36
60719134--60719287	52	2.9	52	78	9	168	46	0	9	43	1.36
60720100--60720771	168	4.0	168	95	0	1139	10	24	19	45	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60721578--60721605	10	2.8	10	100	0	56	50	0	10	39	1.37
60722143--60722196	21	2.6	21	94	5	92	38	14	20	25	1.91
60722343--60722378	2	18.0	2	100	0	72	50	0	0	50	1.00
60728247--60728298	17	3.1	17	71	13	54	71	5	19	3	1.22
60737742--60737894	27	5.8	26	69	13	82	47	0	9	42	1.36
60737745--60737898	52	2.9	52	78	9	168	46	0	9	43	1.36
60738711--60739390	168	4.0	168	94	0	1137	10	24	19	45	1.81
60740189--60740216	10	2.8	10	100	0	56	50	0	10	39	1.37
60740754--60740807	21	2.6	21	94	5	92	38	14	20	25	1.91
60740951--60740984	2	17.0	2	100	0	68	50	0	0	50	1.00
60746848--60746899	17	3.1	17	71	13	54	71	5	19	3	1.22
60756410--60756562	27	5.8	26	69	13	82	47	0	9	42	1.36
60756413--60756566	52	2.9	52	78	9	168	46	0	9	43	1.36
60757477--60757540	33	1.9	33	93	0	110	9	15	28	46	1.77
60758195--60758236	21	2.0	22	95	4	77	23	4	9	61	1.45
60758472--60758496	12	2.1	12	100	0	50	52	8	0	40	1.31
60764129--60764197	24	2.9	23	79	14	70	52	1	4	42	1.30
60765853--60765964	25	4.5	25	74	5	93	23	20	23	33	1.98
60770863--60771027	51	3.2	50	76	6	179	30	15	24	28	1.96
60771003--60771053	26	2.0	26	92	0	84	27	11	27	33	1.92
60770951--60771104	77	2.0	76	86	5	211	29	14	25	29	1.95
60771028--60771159	50	2.6	51	97	1	248	28	16	26	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60776865--60776984	64	1.9	64	87	0	177	21	20	24	33	1.97
60779035--60779073	20	2.0	20	89	0	60	33	5	12	48	1.63
60779308--60779402	25	3.8	25	87	2	129	23	24	25	27	2.00
60781989--60782145	46	3.4	46	83	1	172	29	19	21	29	1.97
60785294--60785340	25	1.9	25	86	4	69	19	23	17	40	1.91
60787018--60787145	43	3.0	43	83	1	141	44	18	21	14	1.86
60788170--60788418	44	5.7	43	84	8	308	39	19	18	22	1.92
60788162--60788441	44	6.6	39	81	10	236	40	19	18	21	1.92
60788163--60788434	45	6.2	45	85	5	326	40	19	18	21	1.91
60788162--60788441	84	3.3	84	85	5	382	40	19	18	21	1.92

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