genome.fa.s7.2.7.7.80.10.50.1000.74.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  74  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)
23261382--23261427	21	2.2	21	88	7	67	28	36	23	10	1.89
23261395--23261436	21	2.0	21	90	0	66	23	38	28	9	1.86
23263502--23263582	5	16.6	5	74	21	66	38	1	2	58	1.20
23285454--23285522	27	2.6	27	83	0	75	36	14	26	23	1.93
23287970--23288098	40	3.2	40	75	9	136	36	18	23	21	1.95
23287987--23288123	40	3.4	39	74	5	130	39	19	21	19	1.93
23287971--23288130	81	2.0	81	83	2	205	37	20	21	20	1.94
23288184--23288571	41	9.4	41	87	0	506	21	22	25	30	1.98
23288789--23288830	22	1.9	22	85	0	57	33	0	26	40	1.56
23288854--23288909	15	3.8	15	76	9	53	25	0	41	33	1.56
23288854--23288917	22	3.0	22	84	6	78	25	0	42	32	1.55
23290590--23290700	46	2.4	46	93	1	188	31	21	16	30	1.95
23290577--23290700	46	2.8	44	90	3	187	29	22	15	32	1.95
23290662--23290875	37	5.8	37	91	0	329	28	20	13	38	1.90
23292635--23292682	19	2.5	19	86	0	69	75	2	2	20	1.02
23294275--23294319	16	2.8	16	83	6	56	37	4	0	57	1.19
23296880--23296997	43	2.7	43	81	10	127	27	22	25	24	1.99
23296993--23297168	43	4.1	43	93	0	298	18	17	33	30	1.94
23298477--23298502	9	2.9	9	100	0	52	76	0	0	23	0.78
23301168--23301223	7	7.9	7	94	4	94	16	0	41	42	1.48
23301174--23301223	22	2.3	22	96	3	77	14	0	42	44	1.44
23307247--23307412	43	3.9	43	88	0	233	31	26	19	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23310946--23310988	20	2.2	20	100	0	86	39	9	25	25	1.85
23312284--23312521	41	5.8	40	84	2	192	28	31	19	20	1.97
23312328--23312607	41	6.8	41	83	2	328	30	31	17	20	1.95
23313202--23313320	49	2.4	49	84	0	148	31	15	31	21	1.95
23313258--23313387	48	2.7	48	80	2	125	30	15	25	29	1.96
23315083--23315115	16	2.1	16	94	0	57	81	0	3	15	0.80
23315284--23315324	19	2.1	20	90	4	66	58	4	9	26	1.50
23318145--23318192	14	3.4	14	77	11	53	35	6	0	58	1.23
23318137--23318191	29	1.9	28	85	10	76	34	5	0	60	1.20
23323324--23323357	18	2.0	16	88	11	50	61	20	5	11	1.50
23323777--23323814	20	2.0	20	84	5	51	47	2	0	50	1.15
23342049--23342092	22	2.0	23	82	13	56	43	4	2	50	1.35
23342776--23342831	22	2.6	22	80	5	53	48	1	0	50	1.11
23342839--23342880	13	2.9	14	80	13	50	52	0	2	45	1.13
23343426--23343466	14	3.0	13	85	7	55	34	17	9	39	1.82
23346391--23346415	12	2.1	12	100	0	50	24	16	16	44	1.86
23347476--23347500	13	1.9	13	100	0	50	40	24	4	32	1.73
23370861--23370962	27	3.8	27	81	0	123	19	23	30	26	1.98
23371018--23371046	14	2.0	15	93	6	51	75	0	24	0	0.80
23374356--23374418	33	1.9	33	87	12	94	26	14	38	20	1.91
23374355--23374433	33	2.4	32	82	14	90	26	13	36	22	1.92
23377058--23377144	43	2.0	45	82	8	108	62	8	1	28	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23377252--23377294	22	2.0	22	90	9	70	0	23	0	76	0.78
23380897--23381050	40	3.8	40	82	5	170	35	24	21	19	1.96
23381088--23381281	41	4.7	41	89	1	273	20	20	26	32	1.97
23381378--23381428	26	2.0	26	84	0	66	56	5	11	25	1.57
23381670--23381702	14	2.3	15	94	5	59	30	0	33	36	1.58
23381729--23381762	7	4.9	7	85	0	50	20	0	50	29	1.49
23381770--23381820	22	2.3	22	83	6	68	23	0	33	43	1.54
23381764--23381820	15	3.9	14	82	8	69	24	0	31	43	1.54
23381770--23381820	7	7.0	7	86	8	66	23	0	33	43	1.54
23381815--23381939	63	2.0	63	88	3	189	29	0	22	47	1.57
23382738--23383039	145	2.1	145	79	11	339	41	14	12	30	1.84
23384941--23385182	43	5.7	43	87	2	285	21	20	30	26	1.98
23384941--23385182	86	2.8	86	87	0	324	21	20	30	26	1.98
23385498--23385527	5	5.8	5	96	4	51	0	36	60	3	1.14
23388683--23388913	115	2.0	115	100	0	462	48	3	3	45	1.36
23389060--23389112	21	2.6	21	87	3	81	30	37	7	24	1.83
23389629--23389691	33	1.9	33	83	6	83	50	3	0	46	1.17
23390125--23390228	54	1.9	54	90	0	163	29	6	10	52	1.61
23391407--23391452	17	2.6	17	89	3	65	58	4	0	36	1.18
23392306--23392376	36	2.0	35	83	10	90	35	0	1	63	1.03
23402461--23402665	113	1.8	113	87	2	304	30	18	23	27	1.98
23402447--23402682	113	2.1	113	83	1	303	30	20	24	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23403267--23403470	90	2.3	90	96	1	383	26	2	27	42	1.70
23403449--23403500	27	1.9	27	100	0	104	19	0	38	42	1.51
23404682--23404728	22	2.1	22	92	0	76	29	8	21	40	1.83
23405066--23405181	36	3.2	36	68	16	114	28	6	18	45	1.75
23405033--23405233	71	2.8	71	96	1	368	25	5	18	50	1.68
23405369--23405398	14	2.1	14	100	0	60	26	13	6	53	1.64
23405936--23406019	45	1.9	43	80	4	96	38	13	2	46	1.56
23417401--23417469	21	3.3	21	79	0	75	34	21	40	2	1.68
23417454--23417481	12	2.3	12	100	0	56	39	17	42	0	1.50
23417914--23418244	85	3.9	84	86	6	431	25	22	21	30	1.99
23417897--23418266	169	2.2	169	85	6	489	26	21	22	30	1.98
23417913--23418266	42	8.4	42	87	4	430	26	21	21	30	1.98
23418338--23418380	22	2.0	22	85	0	59	53	25	9	11	1.67
23418860--23418936	33	2.6	28	76	15	73	38	22	12	25	1.90
23418869--23418932	33	2.0	32	84	6	85	39	26	9	25	1.86
23422880--23422945	32	2.0	34	85	8	91	40	13	7	37	1.73
23422896--23422961	35	1.9	34	84	9	89	40	13	9	36	1.76
23423174--23423313	41	3.4	41	82	3	140	29	22	17	30	1.96
23427396--23427448	25	2.1	25	96	0	97	47	11	9	32	1.71
23432752--23432866	58	2.0	59	89	1	178	49	8	2	39	1.48
23433536--23433573	20	1.9	20	88	0	58	44	2	2	50	1.30
23433536--23433580	20	2.3	20	84	3	56	51	2	2	44	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23433581--23433631	26	2.0	26	84	7	68	54	1	0	43	1.11
23433578--23433631	24	2.2	26	86	6	76	55	1	0	42	1.10
23434275--23434321	24	1.9	25	83	12	62	72	6	21	0	1.07
23434290--23434323	12	2.8	13	86	13	54	73	0	26	0	0.83
23434727--23434767	19	2.1	20	86	4	57	56	2	9	31	1.45
23441118--23441151	17	1.9	18	88	5	52	55	0	11	32	1.36
23451080--23451126	2	23.5	2	91	0	67	48	6	0	44	1.28
23451575--23451599	7	3.6	7	100	0	50	72	0	0	28	0.86
23455405--23455472	31	2.2	31	86	5	93	33	13	7	45	1.71
23456200--23456255	23	2.5	21	72	18	51	67	1	5	25	1.21
23462857--23463163	88	3.5	87	86	5	429	36	23	10	30	1.88
23462857--23463163	89	3.5	88	86	5	433	36	23	10	30	1.88
23463166--23463285	47	2.5	46	76	9	118	57	2	2	37	1.26
23463495--23463555	29	2.1	30	90	3	97	34	6	3	55	1.42
23463447--23463533	39	2.2	38	75	15	88	32	5	3	58	1.38
23463532--23463572	18	2.2	18	87	12	57	31	4	2	60	1.30
23463495--23463563	29	2.4	29	87	4	95	31	7	2	57	1.40
23463512--23463637	29	4.4	27	73	14	69	31	3	0	64	1.15
23463566--23463611	10	4.7	11	84	15	50	21	4	0	73	1.00
23463689--23463871	88	2.0	89	84	3	233	32	9	21	36	1.85
23464987--23465059	20	3.7	20	69	7	58	23	21	19	35	1.96
23466208--23466237	12	2.5	12	94	0	51	66	13	0	20	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23467821--23468460	44	14.3	44	72	6	356	28	19	21	30	1.98
23467800--23468517	179	4.0	179	92	0	1139	27	18	21	31	1.97
23472200--23472248	9	5.4	9	82	0	62	44	20	6	28	1.75
23472283--23472376	20	4.3	20	64	25	57	27	2	6	63	1.30
23472393--23472446	18	2.9	18	80	2	63	11	3	46	38	1.57
23483348--23483612	89	3.0	87	88	3	406	34	23	10	31	1.89
23483640--23483688	19	2.6	19	78	9	57	63	2	2	32	1.17
23483621--23483712	47	2.0	47	84	4	123	64	1	2	32	1.13
23483658--23483729	27	2.7	26	82	6	81	62	1	1	34	1.13
23483667--23483735	27	2.6	27	83	4	86	62	1	1	34	1.13

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