genome.fa.s8.2.7.7.80.10.50.1000.151.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  151  of  190  ( 22705 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)
44193479--44193574	49	2.0	49	85	0	129	25	35	23	15	1.94
44194003--44194110	44	2.4	43	75	11	103	31	20	17	30	1.96
44194494--44194535	20	2.0	22	90	9	70	30	0	2	66	1.04
44195013--44195088	21	3.7	21	91	3	111	38	7	14	39	1.75
44196850--44197047	99	2.0	100	84	3	256	36	14	12	36	1.84
44200526--44200576	27	1.9	26	84	11	68	21	9	13	54	1.67
44204381--44204441	30	2.0	30	100	0	122	19	13	16	50	1.77
44204502--44205130	318	2.0	318	96	0	1168	26	11	18	43	1.85
44207147--44207184	14	2.8	13	92	7	67	47	5	10	36	1.61
44207422--44207632	34	6.1	34	82	2	217	19	22	16	41	1.90
44207421--44207630	69	3.0	69	81	3	253	20	21	16	41	1.90
44207422--44207620	103	1.9	103	91	0	326	19	22	17	40	1.91
44214764--44214828	26	2.5	26	80	5	69	53	3	3	40	1.32
44217178--44217332	43	3.6	42	88	3	204	30	31	18	20	1.96
44217178--44217319	42	3.3	42	91	3	212	28	32	19	19	1.96
44217360--44217458	43	2.3	42	98	1	189	27	28	19	25	1.98
44217200--44217608	160	2.6	159	90	5	619	34	26	13	24	1.93
44217360--44217492	43	3.1	42	89	6	153	30	29	16	23	1.96
44217403--44217630	117	2.0	115	92	1	384	39	23	10	26	1.87
44218217--44218404	7	26.6	7	72	9	78	41	35	1	22	1.61
44218217--44218272	22	2.6	21	86	8	69	42	39	0	17	1.50
44218316--44218462	21	6.9	21	70	13	86	44	28	2	25	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44218845--44218960	41	2.8	41	88	2	144	29	30	19	20	1.97
44218685--44219025	154	2.2	153	90	2	531	28	26	19	25	1.99
44220369--44220404	14	2.6	15	83	16	51	50	5	0	44	1.25
44221515--44221557	21	2.0	21	90	0	68	23	9	13	53	1.69
44226991--44227023	17	1.9	17	88	11	50	51	3	3	42	1.32
44231707--44231806	2	50.0	2	89	0	155	49	4	1	46	1.27
44233056--44233157	21	4.9	21	88	0	132	43	16	26	13	1.85
44235065--44235189	21	6.0	21	66	3	72	40	16	24	18	1.90
44235048--44235183	42	3.2	42	77	4	148	41	16	25	16	1.89
44235279--44235363	24	3.5	24	82	3	98	27	27	4	41	1.76
44240439--44240597	43	3.7	43	81	5	169	22	18	29	29	1.97
44241952--44242016	32	2.0	32	100	0	130	41	9	18	30	1.82
44244878--44244963	45	1.9	45	82	0	109	37	12	24	25	1.91
44245119--44245179	27	2.3	27	82	5	70	27	9	29	32	1.89
44249015--44249039	13	1.9	13	100	0	50	12	0	0	88	0.53
44251741--44251811	28	2.5	28	76	15	74	28	4	1	66	1.19
44252423--44252455	2	16.5	2	100	0	66	48	0	0	51	1.00
44254435--44254472	19	2.0	19	89	0	58	36	5	2	55	1.37
44255890--44255956	29	2.3	29	80	7	73	11	16	11	59	1.60
44255990--44256048	3	19.7	3	92	0	100	32	0	3	64	1.10
44256595--44257002	108	3.8	108	92	1	629	31	16	18	33	1.93
44260356--44260424	6	11.7	6	84	7	79	71	10	4	14	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44260356--44260434	30	2.7	29	78	7	72	73	10	3	12	1.22
44260341--44260461	24	5.2	22	71	15	84	71	9	8	10	1.30
44260403--44260501	50	1.9	52	82	8	123	72	6	12	9	1.26
44261371--44261463	14	6.8	14	87	7	75	70	0	11	17	1.15
44261389--44261473	7	12.7	7	91	6	133	68	0	16	15	1.22
44262666--44262780	44	2.5	46	85	2	162	30	22	22	24	1.99
44263051--44263483	44	9.7	43	70	13	196	30	16	23	29	1.96
44263011--44263273	142	1.9	142	90	0	427	30	17	23	28	1.97
44263234--44263396	46	3.8	41	76	10	137	26	19	24	30	1.98
44263232--44263395	87	1.9	87	84	3	220	26	18	25	29	1.98
44264543--44264922	108	3.5	108	92	1	609	30	17	18	34	1.94
44266329--44266397	31	2.2	31	82	5	86	34	15	11	37	1.84
44275662--44275708	6	7.7	6	97	2	85	82	0	14	2	0.75
44281688--44281790	51	2.0	51	96	0	188	42	6	6	43	1.57
44283329--44283358	2	15.0	2	100	0	60	50	0	0	50	1.00
44283457--44283496	21	1.9	21	84	0	53	50	12	0	37	1.41
44283901--44283933	17	1.9	17	93	0	57	36	0	27	36	1.57
44287606--44287674	34	2.0	34	97	0	129	36	14	21	27	1.93
44291299--44291412	45	2.5	44	83	4	147	42	11	21	24	1.86
44291519--44291642	27	4.6	27	79	6	92	38	15	25	20	1.91
44291519--44291615	27	3.6	27	85	2	106	38	15	25	20	1.92
44291501--44291642	53	2.6	54	73	10	139	38	16	26	19	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44294857--44295021	30	5.3	30	78	7	168	33	7	16	41	1.77
44294857--44295021	62	2.6	62	82	5	190	33	7	16	41	1.77
44295300--44295350	25	2.1	24	85	10	68	41	0	5	52	1.25
44296348--44296437	37	2.4	38	83	7	105	43	1	23	32	1.61
44297623--44297798	30	5.8	30	84	2	199	31	9	18	40	1.81
44297671--44297828	30	4.9	35	75	18	96	31	8	18	41	1.81
44304324--44304538	30	7.0	30	82	4	243	32	8	17	41	1.79
44304324--44304537	60	3.5	60	87	3	293	32	8	17	41	1.79
44304324--44304538	90	2.3	91	84	6	272	32	8	17	41	1.79
44305011--44305055	22	2.0	22	100	0	90	22	17	17	42	1.89
44307651--44307680	11	2.6	12	89	10	53	53	16	13	16	1.73
44308265--44308306	20	2.3	17	88	12	57	21	2	2	73	1.06
44309716--44309771	24	2.3	24	76	11	62	50	1	5	42	1.35
44310106--44310216	40	2.8	40	77	9	111	39	24	21	14	1.91
44310259--44310789	114	4.7	114	77	8	498	32	18	21	28	1.96
44310246--44310921	114	5.9	110	76	11	479	32	18	20	27	1.97
44310282--44310921	228	2.8	226	82	4	768	32	19	21	27	1.97
44311671--44311706	14	2.3	17	86	13	51	55	0	2	41	1.14
44313427--44313462	2	18.0	2	94	0	63	47	2	0	50	1.15
44313746--44313788	2	22.0	2	95	4	79	48	0	0	51	1.00
44314301--44314393	17	5.9	17	70	19	58	40	4	5	49	1.45
44314294--44314350	30	1.9	30	92	0	96	35	7	1	56	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44314342--44314380	16	2.5	16	83	4	53	46	0	7	46	1.31
44314312--44314459	61	2.4	61	82	10	178	40	4	7	47	1.53
44314559--44314608	15	3.5	15	81	15	61	62	10	0	28	1.27
44314604--44314661	21	2.8	20	79	7	71	43	15	3	37	1.64
44314552--44314750	95	2.1	96	91	0	319	48	14	2	35	1.55
44314666--44314702	15	2.7	14	84	15	51	56	13	0	29	1.37
44314666--44314703	7	5.6	7	82	17	53	57	13	0	28	1.36
44314646--44314717	27	2.7	27	70	10	67	50	12	1	36	1.49
44314699--44314750	22	2.4	21	83	3	59	42	17	1	38	1.60
44314571--44314807	95	2.4	95	84	11	295	48	15	1	34	1.56
44314758--44315082	9	37.1	9	76	11	284	49	16	1	32	1.54
44314733--44315082	27	12.9	27	79	11	317	48	17	1	32	1.55
44314929--44315071	25	5.7	24	78	12	103	46	19	0	32	1.55
44315044--44315089	7	6.0	7	90	9	56	52	17	0	30	1.45
44320645--44320684	12	3.3	12	92	0	62	42	15	40	2	1.60
44321118--44321324	85	2.5	84	86	10	273	25	24	20	29	1.99
44321119--44321326	42	4.9	42	87	6	264	25	24	20	30	1.98
44322844--44322898	16	3.4	16	89	0	92	38	7	25	29	1.83
44322880--44322973	44	2.1	46	88	7	140	31	3	27	37	1.73
44323071--44323194	58	2.1	58	88	2	178	53	3	0	43	1.17
44325861--44325907	3	15.7	3	100	0	94	0	0	31	68	0.90
44327972--44328050	22	3.7	22	77	14	76	51	2	8	36	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44327942--44328055	41	2.7	43	76	15	114	52	4	9	33	1.54
44328003--44328041	19	2.0	19	85	5	51	56	2	7	33	1.41
44329691--44330224	218	2.4	217	87	4	738	27	24	18	29	1.98
44329922--44330323	174	2.3	173	82	4	443	28	24	18	28	1.98
44330072--44330323	44	5.8	44	70	6	145	30	23	17	29	1.96
44329691--44330304	218	2.8	216	83	4	664	28	24	17	28	1.98
44330338--44330784	131	3.4	131	95	0	786	24	25	21	28	1.99
44332026--44332068	7	6.0	7	84	15	61	13	13	2	69	1.28
44332028--44332069	8	5.6	8	86	8	54	11	11	2	73	1.18
44332990--44333059	6	11.5	6	79	8	61	14	7	11	67	1.42

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