genome.fa.s9.2.7.7.80.10.50.1000.190.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  190  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)
60498561--60498844	148	1.9	144	88	5	419	45	9	4	40	1.56
60499605--60499947	42	8.2	42	89	1	463	37	23	18	20	1.94
60508672--60508739	34	2.0	34	94	0	118	66	0	5	27	1.15
60508677--60508730	12	4.7	12	73	17	51	62	0	7	29	1.22
60509684--60509765	25	3.3	25	82	3	103	29	25	21	23	1.99
60512915--60513200	151	1.9	150	87	6	427	44	10	3	41	1.55
60516304--60516330	14	1.9	14	100	0	54	51	0	11	37	1.37
60519148--60519288	24	5.9	23	73	13	97	0	33	0	66	0.92
60519170--60519225	18	3.1	18	76	5	60	0	30	0	69	0.89
60519151--60519258	28	3.7	32	72	14	83	0	31	0	68	0.90
60519202--60519257	14	3.9	14	80	17	62	0	26	0	73	0.84
60519203--60519278	4	19.0	4	76	20	52	0	30	0	69	0.88
60519185--60519279	38	2.4	39	79	13	97	0	32	0	67	0.91
60519321--60519386	27	2.4	27	84	0	87	18	33	24	24	1.97
60524562--60524597	8	4.4	8	93	6	63	72	0	2	25	0.98
60526135--60526289	44	3.6	43	77	9	138	30	20	21	27	1.98
60526094--60526655	225	2.5	225	87	0	820	29	19	19	31	1.97
60526484--60526797	143	2.2	140	83	5	380	28	21	19	30	1.98
60526736--60526894	44	3.4	44	75	17	158	28	21	22	27	1.99
60526719--60526894	97	1.8	97	88	2	273	26	22	22	28	1.99
60526574--60527037	240	1.9	240	87	0	678	27	23	19	29	1.98
60526814--60527241	143	3.0	143	87	0	595	28	21	19	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60528100--60528151	11	5.0	10	80	11	52	1	17	0	80	0.80
60528101--60528151	10	5.2	10	79	9	52	1	15	0	82	0.76
60528101--60528151	9	5.3	9	79	11	57	1	15	0	82	0.76
60532752--60532789	14	2.7	15	84	12	53	68	0	0	31	0.90
60540325--60540366	17	2.3	19	84	8	52	47	19	7	26	1.74
60563307--60563345	20	1.9	21	89	5	62	43	0	23	33	1.54
60571168--60571216	25	1.9	26	87	4	73	42	10	10	36	1.73
60571067--60571231	82	2.0	82	97	0	312	43	12	9	34	1.74
60571261--60571318	29	2.0	29	96	0	107	41	8	6	43	1.62
60575860--60576116	139	1.9	134	89	5	399	43	12	16	27	1.84
60581618--60581651	17	2.0	17	100	0	68	47	5	23	23	1.73
60593597--60593812	39	5.5	39	89	1	326	45	21	2	29	1.66
60593661--60593725	22	3.2	22	66	28	61	49	18	1	30	1.57
60607394--60607616	27	8.3	26	87	4	284	42	19	17	20	1.90
60607394--60607616	54	4.2	53	89	2	313	42	19	17	20	1.90
60615869--60615898	14	2.1	14	100	0	60	6	13	20	60	1.55
60616226--60616260	18	1.9	18	88	0	52	45	8	20	25	1.79
60645902--60645935	11	3.0	11	86	4	50	52	11	2	32	1.53
60651687--60651728	21	2.0	20	82	13	50	57	7	2	33	1.39
60652607--60653103	50	9.8	50	85	2	586	22	29	21	27	1.99
60655788--60655821	16	2.1	17	94	5	61	38	11	17	32	1.86
60658610--60658641	12	2.6	13	85	14	50	37	0	6	56	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60663444--60663481	14	2.7	15	84	12	53	36	18	26	18	1.94
60670817--60670876	31	2.0	31	86	3	86	33	10	13	43	1.77
60686223--60686261	13	3.0	13	100	0	78	30	7	15	46	1.74
60688125--60688282	83	1.9	83	84	0	208	34	22	16	26	1.95
60688091--60688526	43	10.2	43	79	4	355	41	20	15	22	1.89
60688091--60688576	43	11.4	43	79	4	331	41	20	14	23	1.89
60693665--60693745	39	2.2	38	86	8	114	34	19	23	22	1.96
60697842--60697990	37	4.0	37	80	5	158	34	18	16	30	1.93
60697842--60697990	74	2.0	74	86	0	208	34	18	16	30	1.93
60697870--60698027	37	4.2	37	85	4	183	34	19	16	29	1.94
60699443--60699711	39	6.9	39	84	2	362	15	32	19	32	1.93
60699508--60699677	20	8.8	20	67	12	86	15	34	20	30	1.93
60711036--60711088	27	2.0	27	92	0	88	24	30	13	32	1.93
60711358--60711443	45	1.9	45	95	0	154	23	22	13	40	1.89
60711932--60712003	36	2.0	36	94	0	126	30	18	13	37	1.89
60721646--60721706	30	2.0	31	90	3	97	52	3	18	26	1.60
60721643--60721700	15	3.9	15	80	8	73	55	5	15	24	1.61
60723308--60723344	9	4.1	9	92	0	65	29	10	13	45	1.77
60725506--60725530	13	1.9	13	100	0	50	40	0	8	52	1.31
60726655--60726708	15	3.3	15	74	18	54	44	0	1	53	1.11
60726799--60726857	17	3.1	18	72	27	59	44	0	0	55	0.99
60726809--60726852	22	2.0	22	90	0	70	40	0	0	59	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60736059--60736090	16	2.0	16	100	0	64	37	25	12	25	1.91
60743223--60743268	22	2.1	21	84	11	58	26	0	15	58	1.37
60743528--60743554	12	2.2	12	100	0	54	22	33	29	14	1.94
60743700--60743803	9	11.4	9	86	6	138	40	27	9	22	1.85
60749035--60749134	28	3.6	28	91	0	155	31	27	11	31	1.91
60755588--60755678	22	4.2	23	72	13	77	49	1	0	49	1.08
60758023--60758056	15	2.3	15	94	0	59	64	0	2	32	1.08
60771596--60771865	40	6.8	39	79	2	243	17	27	18	37	1.93
60771729--60771786	20	2.9	20	71	5	55	12	27	20	39	1.88
60771609--60771865	120	2.1	119	82	5	304	16	27	18	37	1.92
60772633--60772662	12	2.5	12	94	0	51	30	30	23	16	1.96
60777640--60777825	38	4.9	37	82	6	194	37	30	19	12	1.89
60777678--60777823	76	1.9	76	90	2	231	37	30	18	13	1.89
60781493--60781770	40	7.0	40	82	0	315	17	28	16	36	1.93
60781493--60781582	20	4.5	21	69	14	64	17	31	17	33	1.94
60781499--60781771	119	2.3	119	81	0	312	17	29	16	36	1.92
60781501--60781801	159	1.9	159	83	1	388	19	28	15	36	1.92
60793310--60793360	16	3.2	16	82	0	66	27	27	3	41	1.73
60793435--60793472	17	2.3	17	86	4	51	65	0	5	28	1.14
60794310--60794425	34	3.4	33	78	13	128	38	0	17	43	1.55
60794525--60794793	126	2.1	126	86	3	371	38	15	15	30	1.89
60811655--60811732	41	1.9	41	89	0	120	37	14	17	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60811654--60811742	41	2.1	41	81	2	106	40	13	15	30	1.86
60813260--60813298	17	2.3	17	86	0	51	2	20	7	69	1.26
60813650--60813703	18	3.0	16	86	13	54	38	1	1	57	1.20
60813665--60813703	18	2.2	17	95	4	69	41	0	0	58	0.98
60813867--60813921	21	2.6	21	85	8	76	29	38	5	27	1.79
60815540--60815634	51	1.9	48	93	6	163	25	11	20	43	1.85
60830022--60830053	11	2.9	11	100	0	64	18	18	9	53	1.71
60838500--60838609	45	2.4	45	87	3	159	40	20	19	20	1.91
60838590--60838621	6	5.3	6	96	0	55	50	12	15	21	1.77
60838544--60838723	57	3.1	57	85	6	245	42	18	19	19	1.90
60838646--60838684	6	6.5	6	87	0	60	48	10	17	23	1.78
60838544--60838723	63	3.0	62	87	4	262	42	18	19	19	1.90
60838646--60838684	18	2.2	18	100	0	78	48	10	17	23	1.78
60838668--60838750	39	2.2	39	86	2	114	39	20	19	20	1.92
60844104--60844142	7	5.6	7	87	0	51	30	0	48	20	1.50
60847940--60848062	57	2.1	58	86	1	167	44	7	18	29	1.77
60854088--60854122	17	2.1	17	100	0	70	22	5	11	60	1.52
60856039--60856096	13	4.5	13	78	6	55	46	6	0	46	1.29
60856077--60856109	17	1.9	17	88	11	50	42	15	0	42	1.46
60858850--60859082	42	5.6	42	83	3	283	31	21	18	29	1.97
60858850--60859082	84	2.8	83	88	1	333	31	21	18	29	1.97
60858850--60859081	126	1.8	125	87	2	349	31	21	18	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60868010--60868054	23	1.9	23	86	4	63	13	4	55	26	1.57
60870032--60870080	16	3.1	16	93	0	89	36	18	12	32	1.88
60873498--60873559	16	3.9	16	95	0	88	32	0	35	32	1.58
60873785--60873831	15	3.3	15	82	11	55	55	0	0	44	0.99
60873900--60873951	15	3.6	15	80	12	56	53	1	0	44	1.11
60874017--60874062	16	2.9	16	78	12	51	52	2	0	45	1.13
60874017--60874071	15	3.7	15	79	13	53	52	1	0	45	1.11
60873787--60874196	120	3.4	120	96	1	743	49	4	2	43	1.37
60883086--60883228	54	2.7	54	86	4	204	25	22	23	27	1.99
60883052--60883228	27	6.7	27	76	6	166	26	20	24	28	1.99

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