genome.fa.s7.2.7.7.80.10.50.1000.16.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   

This is table  16  of  204  ( 24458 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)
6153434--6153501	22	3.1	22	91	0	109	35	14	25	25	1.94
6159207--6159332	61	2.1	59	85	5	164	44	2	1	51	1.24
6175089--6175113	4	6.2	4	100	0	50	48	28	0	24	1.52
6184895--6184957	31	2.0	31	96	0	117	41	0	14	44	1.45
6185352--6185405	22	2.4	23	81	12	67	25	27	3	42	1.72
6185352--6185405	11	4.8	12	74	19	53	25	27	3	42	1.72
6185416--6185445	11	2.7	11	94	0	51	30	23	6	40	1.80
6185376--6185453	40	2.0	40	84	5	104	29	26	2	41	1.69
6191333--6191446	18	6.7	18	69	14	82	43	0	0	54	1.12
6191348--6191452	6	18.8	6	67	21	59	43	0	0	54	1.13
6191396--6191449	10	5.1	10	74	12	54	40	0	0	59	0.98
6191390--6191462	33	2.1	34	87	9	105	41	0	0	58	0.98
6191406--6191454	23	2.1	23	96	0	89	38	0	0	61	0.96
6199126--6199192	33	2.0	33	97	0	125	28	31	2	37	1.72
6199396--6199553	42	3.7	43	80	4	169	30	25	13	30	1.94
6202754--6202786	15	2.2	15	100	0	66	51	6	6	36	1.51
6203265--6203355	42	2.2	42	100	0	182	51	16	21	9	1.73
6204809--6204934	63	2.0	63	85	0	171	36	11	15	35	1.85
6206435--6206483	9	5.7	9	80	9	66	44	22	8	24	1.79
6206437--6206467	16	1.9	16	100	0	62	38	25	9	25	1.86
6209090--6209140	21	2.5	20	81	9	57	33	17	5	43	1.73
6215457--6215501	21	2.2	21	88	4	65	28	6	6	57	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6221637--6221743	11	10.4	11	70	22	63	39	3	0	57	1.17
6221619--6221758	40	3.5	41	84	7	189	37	2	0	59	1.12
6221727--6221766	21	1.9	21	89	0	62	37	2	0	60	1.11
6221794--6221874	41	2.0	41	95	0	144	18	25	34	20	1.96
6223181--6223459	51	5.5	49	74	6	218	25	16	25	32	1.96
6223176--6223461	101	2.8	101	90	1	430	25	16	25	32	1.96
6223471--6223597	43	3.0	42	79	14	161	23	18	24	33	1.96
6229268--6229316	7	7.1	7	97	2	91	14	40	14	30	1.85
6238385--6238412	6	4.7	6	100	0	56	85	0	14	0	0.59
6239070--6239099	9	3.3	9	100	0	60	43	0	0	56	0.99
6244703--6244745	21	2.0	21	100	0	86	30	9	13	46	1.75
6246443--6246651	51	4.2	50	85	11	263	33	15	22	28	1.95
6246499--6246646	44	3.2	43	81	14	179	33	15	22	28	1.94
6246436--6246646	95	2.2	94	92	2	343	33	16	22	28	1.95
6247794--6247915	37	3.1	40	75	8	124	33	21	18	27	1.96
6267790--6267828	2	19.5	2	100	0	78	51	0	0	48	1.00
6273434--6273631	105	1.9	101	83	4	252	27	22	15	34	1.94
6273522--6273605	33	2.6	32	79	5	87	28	19	14	38	1.90
6276531--6276579	9	5.1	9	76	13	53	38	0	20	40	1.53
6276619--6276696	18	4.1	18	64	16	50	42	5	8	43	1.58
6276692--6276783	30	3.1	30	91	0	157	43	1	10	44	1.46
6276784--6276849	20	3.2	20	80	16	89	37	9	4	48	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6279083--6279110	7	4.0	7	100	0	56	71	14	0	14	1.15
6279828--6279875	24	1.9	25	87	8	71	37	4	8	50	1.52
6279929--6279992	33	2.1	28	83	16	76	46	6	1	45	1.37
6280357--6280477	14	8.7	15	67	17	55	38	38	0	23	1.61
6280467--6280534	15	4.4	15	67	18	50	52	23	1	22	1.55
6280606--6280647	7	6.0	7	78	10	50	30	47	0	21	1.51
6280610--6280647	15	2.7	14	88	11	60	34	44	0	21	1.52
6280606--6280672	35	1.9	35	84	0	89	35	43	0	20	1.53
6281336--6281665	114	2.9	113	78	4	306	29	23	17	30	1.97
6284614--6284638	3	8.3	3	100	0	50	64	0	36	0	0.94
6291665--6291817	62	2.5	62	93	0	252	22	26	20	30	1.99
6309137--6309166	15	2.0	15	93	0	51	66	3	3	26	1.23
6311382--6311412	15	2.1	15	93	0	53	19	29	19	32	1.96
6319542--6319569	13	2.2	13	100	0	56	21	7	25	46	1.76
6319869--6319932	12	5.3	12	75	7	67	12	10	25	51	1.72
6319862--6319934	24	3.0	24	95	0	128	12	10	23	53	1.69
6321528--6321588	18	3.3	19	86	13	83	44	0	0	55	0.99
6321500--6321588	10	8.8	10	74	20	71	40	0	3	56	1.16
6321528--6321588	2	34.5	2	76	23	66	44	0	0	55	0.99
6323066--6323181	45	2.6	45	87	2	162	19	16	20	43	1.88
6326422--6326465	18	2.5	18	77	3	54	25	0	6	68	1.14
6331353--6331390	14	2.7	14	95	0	67	23	13	13	50	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6332869--6332920	26	2.0	26	81	7	61	50	5	0	44	1.26
6343110--6343148	19	2.1	19	85	0	51	38	0	7	53	1.30
6344197--6344224	6	4.7	6	100	0	56	67	14	0	17	1.22
6350701--6350749	17	2.7	18	84	9	73	36	8	0	55	1.30
6352457--6352488	16	2.0	16	93	0	55	65	21	6	6	1.38
6352489--6352565	27	2.9	27	94	0	127	31	22	33	12	1.92
6353400--6353431	16	2.0	16	93	0	55	6	6	21	65	1.38
6354164--6354197	17	1.9	17	88	5	50	32	14	8	44	1.76
6379837--6379874	19	2.0	19	89	0	58	31	15	31	21	1.94
6379779--6380001	25	9.4	25	82	11	222	36	18	26	18	1.94
6379779--6380001	50	4.7	49	83	11	254	36	18	26	18	1.94
6379779--6380001	75	3.1	75	80	13	249	36	18	26	18	1.94
6384598--6384673	23	3.3	23	92	0	134	31	25	21	22	1.98
6385467--6385522	17	3.4	16	78	11	60	41	0	1	57	1.09
6385482--6385527	15	2.9	17	71	15	53	47	0	2	50	1.13
6385467--6385521	5	11.2	5	74	18	53	40	0	1	58	1.09
6385468--6385523	27	2.0	29	86	6	80	42	0	1	55	1.10
6389394--6389479	24	3.5	25	77	6	88	38	19	25	16	1.92
6390009--6390054	21	2.2	21	84	0	56	43	15	2	39	1.59
6390018--6390059	21	2.0	21	85	0	57	40	21	0	38	1.53
6395171--6395206	18	2.0	18	88	0	54	16	5	55	22	1.62
6400047--6400100	2	27.0	2	88	7	83	46	0	3	50	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6400394--6400435	3	14.0	3	100	0	84	66	0	0	33	0.92
6401041--6401078	19	2.0	19	85	10	51	76	2	2	18	1.02
6402001--6402092	44	2.1	44	83	2	112	28	26	14	31	1.94
6402094--6402776	132	5.2	132	91	1	1046	26	24	19	30	1.98
6402178--6403058	44	20.0	44	67	9	285	27	23	18	30	1.98
6402094--6402776	263	2.6	263	89	0	1044	26	24	19	30	1.98
6402592--6402952	176	2.1	176	97	0	677	28	23	18	29	1.98
6402724--6403058	132	2.5	132	87	0	472	28	22	18	30	1.98
6402460--6403054	308	1.9	308	90	0	938	27	23	18	30	1.98
6403052--6403414	50	7.3	50	70	2	253	24	23	21	30	1.99
6403078--6403467	100	3.9	100	93	0	620	24	23	22	29	1.99
6404005--6404135	65	2.0	65	93	0	226	32	14	32	20	1.93
6405307--6405339	12	3.0	11	87	12	50	72	15	0	12	1.12
6405312--6405401	46	2.0	46	84	4	119	72	7	11	8	1.29
6405376--6405404	14	2.0	15	93	6	51	75	0	20	3	0.94
6405312--6405418	46	2.3	45	81	9	110	69	7	14	9	1.36
6406220--6406259	15	2.7	15	84	11	55	70	0	17	12	1.18
6407470--6407731	88	3.0	88	91	1	400	27	22	25	24	2.00
6408082--6408230	44	3.4	44	87	3	219	30	22	20	26	1.98
6408081--6408269	88	2.1	88	80	4	220	30	22	21	25	1.98
6408261--6408576	40	7.6	40	68	12	170	31	23	20	25	1.98
6408261--6408576	43	7.5	43	63	19	112	31	23	20	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6408215--6408635	127	3.3	127	90	1	603	31	23	20	24	1.98
6409095--6409135	16	2.5	17	84	11	59	65	24	2	7	1.30
6409506--6409538	13	2.7	13	90	9	52	18	0	0	81	0.68
6409503--6409537	18	1.9	18	94	0	61	17	0	0	82	0.66
6419718--6419914	46	4.6	45	82	12	261	27	22	15	34	1.94
6419804--6419878	37	2.0	37	94	0	132	26	22	14	36	1.93
6419758--6419914	83	1.9	83	93	0	269	28	23	14	33	1.93
6424115--6424141	12	2.2	12	100	0	54	22	0	29	48	1.51
6427792--6427855	21	3.0	21	76	0	65	35	42	0	21	1.54
6427784--6427830	14	3.4	14	81	0	58	38	42	0	19	1.51

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