genome.fa.s13.2.7.7.80.10.50.1000.22.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  22  of  199  ( 23770 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)
6471008--6471074	24	2.8	24	86	4	91	28	5	0	65	1.16
6471073--6471104	3	10.7	3	100	0	64	34	31	0	34	1.58
6471298--6471326	13	2.3	13	94	5	51	17	0	13	68	1.20
6475278--6475339	13	4.8	13	75	0	61	38	1	20	38	1.63
6475257--6475315	26	2.3	26	81	0	73	38	5	22	33	1.76
6475361--6475419	27	2.3	25	82	8	73	44	5	16	33	1.70
6475371--6475428	25	2.2	27	84	6	75	39	1	18	39	1.61
6478402--6478463	13	4.8	13	91	0	106	29	9	22	38	1.86
6479048--6479091	22	2.0	21	91	4	70	40	4	13	40	1.65
6479654--6479679	12	2.2	12	100	0	52	0	34	7	57	1.27
6479675--6479703	15	1.9	15	100	0	58	6	34	6	51	1.55
6499144--6499191	24	2.0	24	84	15	64	31	0	16	52	1.45
6508392--6508454	25	2.7	22	80	7	63	71	3	4	20	1.18
6508440--6508520	6	13.5	6	98	0	153	83	1	0	14	0.70
6510248--6510326	35	2.2	36	84	11	99	29	11	16	43	1.83
6511205--6511235	16	1.9	16	93	0	53	38	9	3	48	1.52
6516974--6517033	5	12.0	5	100	0	120	60	0	0	40	0.97
6518473--6518618	72	2.0	72	95	0	265	32	5	21	41	1.76
6535544--6535576	12	2.5	13	90	9	50	39	0	9	51	1.34
6539063--6539213	33	4.6	34	69	15	113	19	23	11	44	1.84
6543158--6543217	26	2.5	23	85	15	93	40	0	3	56	1.16
6543165--6543217	26	2.0	26	100	0	106	41	0	3	54	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6544711--6544789	38	2.1	38	88	4	115	34	8	16	40	1.80
6547871--6547990	43	2.8	43	78	6	109	32	30	18	19	1.95
6556126--6556261	66	2.1	66	91	0	218	41	18	26	13	1.88
6556611--6556786	43	4.1	43	94	4	302	25	18	27	28	1.98
6572535--6572566	16	2.0	16	100	0	64	12	6	0	81	0.87
6573779--6573835	28	2.0	29	82	6	71	33	8	7	50	1.60
6574820--6574994	3	57.3	3	71	13	83	62	2	7	27	1.34
6579580--6579644	29	2.1	31	81	13	73	32	6	3	58	1.38
6585833--6585891	25	2.4	25	97	2	111	40	3	0	55	1.16
6592686--6592717	15	2.1	15	94	0	55	15	6	9	68	1.36
6596724--6596793	18	3.8	18	75	11	61	41	7	17	34	1.76
6597067--6597135	37	1.9	35	85	11	95	37	1	4	56	1.28
6600838--6600893	20	2.8	20	83	0	58	16	33	21	28	1.95
6600863--6600931	20	3.5	20	87	0	84	20	34	17	27	1.95
6600924--6600988	20	3.2	20	76	8	78	9	33	20	36	1.84
6601672--6601729	20	2.9	19	80	9	71	39	5	22	32	1.76
6608965--6609010	23	2.0	23	82	0	56	52	15	13	19	1.75
6611603--6611654	22	2.3	23	80	9	63	26	7	5	59	1.48
6612038--6612065	13	2.2	13	100	0	56	42	0	7	50	1.30
6613056--6613105	24	2.1	25	85	7	68	52	6	2	40	1.38
6618259--6618539	68	4.2	68	84	5	338	35	17	23	23	1.95
6618270--6618522	132	1.9	133	85	8	352	35	16	23	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6618826--6618890	30	2.2	30	91	5	105	23	4	13	58	1.54
6620010--6620050	11	3.7	11	80	0	55	56	7	14	21	1.63
6625459--6625484	5	5.2	5	100	0	52	80	0	0	19	0.71
6632756--6632848	46	2.0	46	97	0	177	36	17	16	30	1.91
6634227--6634257	16	1.9	16	93	0	53	0	9	6	83	0.79
6634228--6634272	22	2.0	22	82	8	54	0	15	4	80	0.87
6635211--6635250	21	1.9	21	84	0	53	30	45	0	25	1.54
6638527--6638610	42	1.9	42	83	11	107	40	2	3	53	1.31
6638572--6638620	12	4.1	11	76	19	53	44	0	0	55	0.99
6638573--6638620	11	3.9	12	78	21	55	43	0	0	56	0.99
6643524--6643563	21	1.9	21	100	0	80	5	22	30	42	1.75
6645353--6645397	21	2.1	22	84	8	58	44	4	2	48	1.35
6648180--6648251	29	2.4	31	75	11	78	33	12	11	43	1.78
6652595--6652687	26	3.7	26	76	9	102	20	20	22	36	1.95
6657248--6657299	20	2.5	20	82	14	70	46	7	1	44	1.43
6660048--6660125	21	3.7	21	74	6	77	19	10	32	38	1.85
6660039--6660127	42	2.1	42	91	0	142	19	10	34	35	1.85
6660039--6660140	42	2.4	42	86	3	125	20	11	33	34	1.89
6662227--6662258	15	2.1	15	94	0	55	40	28	6	25	1.79
6662417--6662575	76	2.1	76	91	2	257	39	21	8	30	1.84
6662493--6662610	46	2.6	44	81	4	146	40	20	7	31	1.80
6662720--6662754	11	3.2	11	87	0	52	34	11	5	48	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6662989--6663024	11	3.1	11	85	14	54	33	8	11	47	1.69
6662989--6663026	13	3.1	13	92	7	62	31	7	13	47	1.71
6663525--6663580	27	2.1	27	86	6	78	17	30	1	50	1.57
6668829--6668854	12	2.2	12	100	0	52	7	0	42	50	1.31
6679048--6679100	26	2.1	25	89	3	79	49	1	3	45	1.31
6679674--6679717	22	2.0	22	90	0	70	18	13	31	36	1.90
6691860--6691908	9	5.4	9	85	0	71	42	24	8	24	1.81
6691860--6691908	18	2.7	18	93	0	89	42	24	8	24	1.81
6692011--6692054	18	2.4	18	88	0	61	13	2	43	40	1.57
6695383--6695407	5	5.0	5	100	0	50	80	0	0	20	0.72
6698229--6698394	24	6.7	26	72	13	107	38	22	24	15	1.92
6702246--6702286	20	2.0	20	90	0	64	2	0	17	80	0.82
6707145--6707194	20	2.5	20	78	15	50	32	6	6	56	1.48
6709063--6709097	18	1.9	18	88	0	52	48	5	5	40	1.51
6710482--6710522	9	4.7	9	87	6	57	39	26	9	24	1.86
6710483--6710517	17	2.1	17	88	0	52	37	28	11	22	1.89
6711576--6711629	5	10.8	5	97	0	72	81	0	11	7	0.87
6711637--6711733	47	2.1	47	84	3	124	12	61	8	17	1.54
6722421--6722457	18	2.1	19	90	10	60	37	2	0	59	1.12
6722687--6722726	21	2.0	20	85	5	53	37	12	2	47	1.55
6722949--6722973	7	3.6	7	100	0	50	44	0	12	44	1.41
6723825--6723932	56	1.9	55	96	1	198	37	8	12	40	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6730922--6731029	56	1.9	55	92	1	180	37	8	13	40	1.75
6734526--6734827	124	2.5	122	86	4	430	44	7	18	29	1.77
6735698--6735746	16	3.1	16	87	0	71	57	0	34	8	1.29
6745966--6746015	25	2.0	25	96	0	91	46	4	0	50	1.20
6750967--6751031	25	2.7	24	78	4	76	15	26	18	40	1.90
6750967--6751044	24	3.2	24	74	13	70	15	26	20	37	1.92
6751108--6751176	27	2.6	25	80	10	75	17	24	20	37	1.93
6751208--6751274	24	2.7	24	80	11	73	14	28	23	32	1.95
6751216--6751301	25	3.5	24	80	12	86	18	27	19	33	1.96
6754097--6754177	42	2.0	40	87	4	117	35	22	9	32	1.87
6754116--6754245	67	1.9	67	89	4	199	32	24	10	33	1.88
6755339--6755385	3	15.7	3	100	0	94	68	0	0	31	0.90
6759025--6759175	43	3.5	43	73	9	121	33	25	14	26	1.94
6776515--6776576	31	2.0	30	84	3	79	32	3	1	62	1.20
6781169--6781203	16	2.2	16	100	0	70	34	31	0	34	1.58
6783245--6783382	42	3.3	42	81	6	154	18	22	15	43	1.88
6783231--6783384	21	7.3	21	70	2	85	18	23	16	42	1.89
6785050--6785081	15	2.1	15	100	0	64	43	18	18	18	1.88
6790624--6790651	6	4.7	6	100	0	56	17	0	0	82	0.68
6791415--6791452	13	2.8	14	80	19	53	65	5	7	21	1.38
6795981--6796019	19	2.0	20	90	5	62	28	10	12	48	1.74
6796026--6796185	80	2.0	80	98	0	311	31	13	12	43	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6800599--6800666	32	2.1	33	81	8	86	26	7	16	50	1.71
6812496--6812528	15	2.2	15	100	0	66	60	12	0	27	1.32
6812928--6812961	18	2.0	16	88	11	50	55	5	8	29	1.54
6814729--6815319	89	6.9	83	73	14	339	26	22	20	30	1.98
6814724--6814973	133	1.9	128	81	10	301	26	22	20	30	1.98
6814649--6815189	84	6.4	84	74	11	384	27	21	20	29	1.98
6814946--6815232	128	2.3	126	92	1	475	27	20	20	31	1.98
6814649--6815321	44	15.7	42	71	14	357	27	22	20	30	1.98
6826721--6826753	15	2.2	15	94	0	57	63	12	0	24	1.28
6827111--6827183	27	2.7	25	73	24	60	54	6	2	35	1.41

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