genome.fa.s9.2.7.7.80.10.50.1000.126.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: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

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   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  126  of  226  ( 27023 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)
42435364--42435389	11	2.4	11	100	0	52	30	19	26	23	1.98
42442320--42442592	43	6.3	43	88	3	395	30	29	18	21	1.97
42443544--42443568	2	12.5	2	100	0	50	48	0	0	52	1.00
42446130--42446624	148	3.3	148	94	1	814	31	15	13	40	1.85
42447074--42447137	14	4.5	14	71	11	58	37	40	0	21	1.54
42447378--42447430	7	7.4	7	81	12	63	45	37	0	16	1.48
42447381--42447430	15	3.5	15	78	13	52	48	36	0	16	1.46
42447380--42447509	21	6.0	21	72	9	84	43	32	0	23	1.59
42447731--42447812	41	2.0	41	92	0	137	26	31	20	20	1.98
42447748--42448341	113	5.2	114	91	1	953	25	26	23	25	2.00
42447748--42448323	227	2.5	226	92	1	958	25	26	23	25	2.00
42448730--42448783	22	2.5	22	87	6	74	66	1	24	7	1.27
42448741--42448780	11	3.6	11	79	0	53	67	0	22	10	1.20
42448741--42448785	22	2.0	22	95	0	81	66	0	24	8	1.20
42451132--42451174	18	2.4	19	84	11	63	44	2	0	53	1.13
42459155--42459432	27	10.4	27	78	8	239	41	18	16	23	1.90
42459268--42459314	24	2.0	24	91	0	76	31	23	21	23	1.98
42459193--42459386	105	1.8	105	86	2	282	41	20	15	22	1.90
42459610--42459684	26	2.9	25	74	5	78	22	22	17	37	1.94
42459792--42459892	30	3.5	27	76	12	78	21	23	21	32	1.98
42459819--42459891	30	2.4	30	81	0	83	23	26	20	30	1.99
42466903--42467177	27	10.2	27	84	2	311	41	19	18	20	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42467359--42467427	26	2.7	26	71	8	68	20	23	23	33	1.97
42467574--42467680	30	3.8	28	77	3	90	19	25	24	30	1.98
42467595--42467666	29	2.4	29	79	2	81	22	25	20	31	1.98
42475214--42475252	11	3.5	11	89	0	60	23	7	46	23	1.78
42485906--42485947	11	3.8	11	93	0	66	23	4	45	26	1.73
42493747--42493778	12	2.6	13	85	14	50	56	6	0	37	1.25
42497145--42497169	13	1.9	13	100	0	50	16	24	44	16	1.86
42499067--42499153	23	3.9	22	83	7	104	12	14	24	48	1.79
42504403--42504602	83	2.4	82	84	4	258	39	9	19	33	1.83
42504671--42504845	82	2.1	83	86	3	237	40	8	20	31	1.82
42504755--42504961	115	1.8	115	82	4	274	43	7	17	31	1.77
42506571--42506617	16	2.8	16	81	12	51	65	2	0	31	1.04
42515702--42515751	26	1.9	26	88	8	75	42	4	16	38	1.66
42517667--42517796	33	3.9	33	69	7	111	46	13	21	18	1.84
42517761--42517819	28	2.1	28	93	3	102	42	13	23	20	1.88
42519628--42519807	57	3.1	58	84	8	242	47	6	16	30	1.72
42526555--42526677	27	4.6	27	88	0	192	43	21	18	16	1.87
42526613--42526742	65	2.0	65	92	0	215	40	23	21	14	1.90
42526586--42526816	92	2.5	92	83	2	266	42	21	19	16	1.89
42526678--42526762	27	3.1	27	79	3	109	42	21	20	16	1.89
42526994--42527070	26	3.0	26	86	0	109	15	24	24	35	1.94
42527175--42527234	28	2.1	28	90	0	93	26	26	20	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42534067--42534096	13	2.3	13	94	0	51	33	3	13	50	1.58
42534183--42534368	50	3.7	50	84	7	252	26	22	31	19	1.98
42536515--42536768	81	3.1	81	89	0	391	42	16	20	19	1.89
42536515--42536769	27	9.4	27	88	4	345	42	17	20	19	1.89
42537031--42537126	28	3.4	28	87	7	140	25	26	21	27	2.00
42537031--42537119	30	3.0	30	91	3	137	25	26	21	25	1.99
42537401--42537463	32	2.0	32	100	0	126	36	6	22	34	1.80
42542117--42542151	16	2.3	15	95	5	61	62	14	0	22	1.31
42551123--42551152	15	2.0	15	93	0	51	20	10	0	70	1.16
42559416--42559462	18	2.7	18	74	6	53	42	4	36	17	1.68
42560882--42560938	26	2.2	26	87	6	80	36	14	5	43	1.67
42560896--42560957	26	2.4	26	91	0	97	33	11	11	43	1.76
42560920--42560980	26	2.3	26	83	5	70	27	11	14	45	1.80
42565920--42566059	50	2.8	49	90	4	217	30	27	17	25	1.97
42569507--42570075	59	9.6	59	90	2	883	25	26	13	34	1.93
42569507--42570075	177	3.2	177	95	1	989	25	26	13	34	1.93
42573461--42573486	12	2.2	12	100	0	52	34	15	7	42	1.75
42574065--42574103	21	1.9	21	89	5	62	20	10	2	66	1.33
42574975--42575026	23	2.3	23	89	0	77	42	21	9	26	1.83
42580414--42580479	31	2.1	31	100	0	132	34	6	21	37	1.78
42590513--42590581	26	2.7	26	82	6	88	21	11	26	40	1.87
42591727--42591768	21	2.0	21	85	4	57	19	16	45	19	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42592267--42592304	10	4.0	10	86	10	53	44	7	0	47	1.32
42592839--42592872	17	2.0	17	88	0	50	35	0	0	64	0.94
42592983--42593063	33	2.6	31	84	9	94	48	14	7	29	1.71
42594628--42594679	2	26.5	2	92	3	88	50	1	0	48	1.12
42606759--42606811	26	2.1	26	82	10	65	26	1	3	67	1.17
42614497--42614523	14	1.9	14	100	0	54	14	29	18	37	1.91
42618010--42618160	42	3.6	42	92	0	248	21	25	34	18	1.96
42639285--42639424	27	5.3	27	78	5	133	40	22	17	19	1.91
42639305--42639424	27	4.5	27	80	2	134	40	23	17	18	1.91
42639285--42639424	53	2.6	54	81	3	158	40	22	17	19	1.91
42639358--42639435	27	2.9	27	82	3	95	38	21	17	21	1.93
42639808--42639877	28	2.5	28	90	2	106	27	22	17	32	1.96
42649349--42649386	19	2.0	20	84	5	51	28	5	2	63	1.30
42649426--42649461	18	2.1	18	89	5	56	36	2	0	61	1.11
42653933--42653989	27	2.1	27	87	12	82	73	5	5	15	1.19
42654937--42654973	15	2.4	16	95	4	67	75	0	8	16	1.02
42656324--42656548	44	5.2	44	66	14	133	25	23	26	25	2.00
42656368--42656509	43	3.3	42	67	14	117	27	26	21	23	1.99
42656237--42656664	87	4.9	86	88	2	599	25	23	25	25	2.00
42656237--42656664	175	2.5	173	87	3	610	25	23	25	25	2.00
42656530--42656668	45	3.1	44	67	15	124	28	23	25	23	2.00
42656895--42657077	44	4.2	44	65	13	106	28	19	22	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42657307--42657633	44	7.4	44	67	13	116	30	16	23	29	1.96
42656890--42657695	132	6.1	132	89	1	1114	29	18	22	29	1.97
42658119--42658158	14	2.8	14	85	14	55	80	0	0	20	0.72
42658119--42658161	19	2.3	19	88	11	63	79	0	0	20	0.74
42658119--42658158	5	8.4	5	86	13	50	80	0	0	20	0.72
42659326--42659361	18	2.1	18	89	5	56	33	2	0	63	1.08
42659754--42659780	9	3.0	9	100	0	54	22	0	0	77	0.76
42659743--42659792	19	2.4	21	80	12	59	24	6	0	70	1.10
42659754--42659788	18	1.9	18	88	0	52	22	2	0	74	0.95
42662129--42662187	25	2.4	25	82	0	64	30	16	25	27	1.97
42673561--42673589	6	4.8	6	100	0	58	51	0	31	17	1.45
42678195--42678341	31	4.8	31	76	6	122	44	21	11	22	1.84
42680789--42681021	116	2.0	116	94	0	403	37	17	22	23	1.94
42684590--42684640	16	3.1	16	83	8	57	27	3	3	64	1.28
42693773--42693871	50	2.0	50	87	0	144	25	24	27	23	2.00
42698457--42698634	27	6.6	27	81	3	171	25	13	19	42	1.87
42708356--42708438	26	3.2	26	84	3	105	42	18	6	33	1.74
42713159--42713274	60	1.9	59	81	8	137	42	5	24	28	1.76
42713802--42713842	21	2.0	21	85	9	57	36	19	26	17	1.94
42724223--42724469	50	4.8	50	77	4	192	27	22	27	23	1.99
42731782--42732028	50	4.8	50	77	4	192	27	20	27	23	1.99
42731793--42731979	100	1.8	103	83	6	254	26	20	28	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42742533--42742626	31	3.1	31	73	4	102	45	4	23	26	1.71
42745711--42745899	93	2.0	93	90	0	297	10	20	11	58	1.61
42749982--42750021	22	1.9	22	85	10	57	55	7	7	30	1.56
42761356--42761488	50	2.5	54	84	10	177	24	16	31	27	1.96
42761357--42761538	50	3.5	50	78	7	132	26	17	29	26	1.97
42761792--42761830	20	2.0	20	90	10	62	56	5	23	15	1.59
42772927--42772989	24	2.5	25	89	10	101	42	12	22	22	1.87
42777798--42777830	15	2.1	16	88	5	50	36	0	12	51	1.39
42784370--42784396	14	1.9	14	100	0	54	0	40	0	59	0.98
42785274--42785538	27	9.8	27	86	4	302	41	19	19	19	1.90

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   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226