genome.fa.s7.2.7.7.80.10.50.1000.133.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  133  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)
40572163--40572194	15	2.1	15	100	0	64	43	0	18	37	1.51
40574186--40574346	58	2.8	58	98	0	313	45	14	6	34	1.70
40594588--40594638	5	10.2	5	100	0	102	39	0	0	60	0.97
40596653--40596679	2	13.5	2	100	0	54	51	0	0	48	1.00
40597764--40597791	2	14.0	2	100	0	56	50	0	0	50	1.00
40601079--40601362	143	2.0	142	92	0	478	16	13	21	48	1.81
40605714--40605758	16	3.0	16	75	12	51	55	0	2	42	1.12
40606192--40606248	25	2.3	25	75	6	62	28	7	10	54	1.60
40606887--40607244	82	4.4	81	84	3	375	29	13	11	45	1.78
40606887--40607281	163	2.4	159	81	4	407	28	12	12	47	1.77
40607260--40607327	6	11.5	6	98	1	129	16	0	14	69	1.20
40607305--40607525	76	2.8	75	81	12	230	30	9	11	48	1.71
40607109--40607482	202	1.9	201	85	5	522	28	9	11	50	1.70
40607303--40607562	82	3.2	80	72	12	221	29	10	11	48	1.72
40613059--40614112	523	2.0	528	86	4	1466	32	18	15	33	1.92
40619602--40619646	21	2.1	21	100	0	90	17	15	24	42	1.88
40625254--40625303	22	2.5	20	81	12	57	28	0	4	68	1.08
40629448--40629509	30	2.1	31	81	6	74	45	4	6	43	1.51
40632679--40632778	24	4.2	24	79	5	105	39	14	13	34	1.84
40632854--40632956	54	1.9	54	88	4	154	36	16	22	24	1.94
40632937--40633136	39	5.1	39	75	1	175	39	19	23	18	1.92
40632937--40633135	78	2.5	79	81	2	213	39	19	22	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40632949--40633135	79	2.4	78	80	2	196	40	20	21	17	1.92
40633171--40633375	54	3.8	54	88	3	270	37	13	20	27	1.91
40633363--40633486	39	3.2	38	80	4	140	41	16	24	17	1.89
40634137--40634163	14	1.9	14	100	0	54	11	7	7	74	1.23
40637921--40637978	30	1.9	30	89	0	89	46	13	8	31	1.74
40638225--40638280	25	2.2	25	100	0	112	32	0	23	44	1.53
40643483--40643733	42	6.0	42	88	0	340	32	21	19	25	1.97
40644135--40644220	21	4.1	20	80	8	91	4	40	18	36	1.72
40646193--40646612	9	48.2	9	72	14	346	31	1	21	46	1.59
40646296--40646334	19	2.1	19	85	9	53	30	0	17	51	1.46
40646239--40646601	88	4.1	88	92	3	547	31	1	21	46	1.59
40646722--40646765	23	1.9	23	95	0	79	38	0	18	43	1.50
40648555--40649269	366	2.0	366	89	1	1110	35	19	14	30	1.91
40649316--40649396	24	3.2	23	74	19	81	45	9	1	43	1.45
40649908--40649940	7	5.0	7	85	14	52	30	54	0	15	1.41
40649908--40649932	12	2.1	12	100	0	50	32	52	0	16	1.44
40649939--40650006	14	4.6	14	75	10	55	39	30	1	27	1.66
40650570--40650648	41	1.9	41	84	0	104	32	26	20	20	1.97
40650592--40651065	115	4.1	114	85	2	581	29	24	22	24	1.99
40650864--40651256	187	2.1	188	89	2	596	27	24	21	25	1.99
40650978--40651138	73	2.2	73	89	0	241	28	22	21	27	1.99
40651050--40651359	114	2.7	113	86	3	417	27	25	22	23	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40651335--40651423	39	2.3	40	84	7	112	20	23	23	32	1.98
40652187--40652242	16	3.4	16	76	11	51	69	1	3	25	1.14
40653502--40653542	21	2.0	21	90	0	64	70	7	2	19	1.22
40653922--40653952	3	10.7	3	93	6	55	70	0	29	0	0.87
40654902--40654936	14	2.4	15	90	4	54	0	5	14	80	0.89
40674316--40674569	135	1.9	137	85	3	352	54	11	8	25	1.64
40674635--40674675	15	2.9	14	89	7	57	60	2	4	31	1.30
40674787--40674826	21	1.9	21	84	0	53	55	5	5	35	1.44
40675021--40675527	172	3.0	170	83	2	633	47	16	10	25	1.78
40677066--40677096	16	2.0	15	93	6	53	45	12	12	29	1.80
40677844--40678092	135	1.8	135	90	1	401	54	10	8	26	1.63
40680204--40680244	13	3.1	14	82	10	50	48	19	17	14	1.81
40680665--40680711	18	2.6	17	80	9	58	19	36	25	19	1.95
40686241--40686269	14	2.0	15	93	6	51	6	24	0	68	1.13
40687729--40687858	45	2.9	45	65	16	106	27	25	13	33	1.94
40687725--40687967	91	2.7	91	84	0	317	25	23	14	36	1.93
40690723--40690925	113	1.8	111	82	4	264	25	21	25	27	2.00
40691366--40691417	20	2.6	20	85	8	70	13	0	38	48	1.43
40691554--40691612	7	8.8	6	87	9	64	16	5	32	45	1.70
40691551--40691599	14	3.6	14	89	8	75	18	4	32	44	1.68
40691554--40691641	21	4.3	19	78	13	70	20	3	30	45	1.67
40692098--40692333	115	2.1	115	94	0	409	29	18	19	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40693621--40693672	21	2.5	21	90	0	77	30	17	46	5	1.71
40694037--40694248	42	5.0	42	77	1	190	28	20	19	31	1.97
40695849--40695891	20	2.1	21	87	8	63	32	6	0	60	1.23
40695849--40695966	9	12.6	9	67	17	53	34	3	0	61	1.19
40695888--40695972	18	4.4	19	73	12	75	35	1	1	62	1.11
40701508--40701747	114	2.1	113	80	6	261	30	20	23	26	1.98
40701547--40702205	114	5.8	113	80	7	498	30	18	23	28	1.97
40701812--40702190	114	3.3	113	89	2	519	30	17	24	27	1.97
40702307--40702342	18	2.0	18	89	10	56	25	0	5	69	1.10
40702448--40702486	20	2.0	20	90	10	62	48	2	0	48	1.15
40703256--40703331	7	10.9	7	79	10	75	10	0	44	44	1.38
40705765--40705800	16	2.2	16	95	0	63	27	11	8	52	1.65
40705860--40705998	67	2.1	67	94	2	244	35	4	14	45	1.65
40706123--40706359	76	3.2	76	95	3	435	40	7	5	46	1.55
40706300--40706418	57	2.1	57	96	1	222	38	9	5	47	1.58
40706227--40706492	130	2.0	130	100	0	532	39	8	4	47	1.55
40706357--40706569	77	2.8	76	96	2	387	39	7	5	47	1.55
40706151--40706689	207	2.6	203	96	2	979	39	8	5	47	1.56
40706507--40706625	57	2.1	57	96	1	222	38	9	5	47	1.58
40706557--40706689	34	3.8	36	76	14	134	39	8	4	48	1.54
40706350--40706559	34	5.8	34	73	17	172	39	8	4	47	1.54
40706432--40706689	130	2.0	132	94	3	360	39	8	4	46	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40706777--40706819	16	2.7	16	92	0	68	48	16	2	32	1.58
40706861--40707068	9	23.8	9	69	13	130	45	21	1	31	1.62
40706906--40707027	62	2.0	61	80	6	138	48	21	0	29	1.56
40706928--40707068	25	5.4	25	71	13	88	46	21	1	31	1.60
40711347--40711412	21	3.1	21	84	4	80	40	19	36	3	1.67
40711777--40712023	42	5.9	41	87	6	325	22	22	21	33	1.98
40717299--40717425	35	3.6	35	80	5	139	12	12	33	40	1.81
40727632--40727796	43	3.8	43	77	12	153	25	16	27	30	1.96
40727627--40727796	86	2.0	85	81	15	199	25	16	26	31	1.97
40735480--40735521	22	1.9	22	90	0	66	66	7	14	11	1.43
40739247--40739294	21	2.3	20	85	3	60	58	2	6	33	1.35
40739429--40739474	24	1.9	24	82	8	58	58	0	8	32	1.28
40739436--40739498	27	2.3	27	84	10	76	55	0	9	34	1.32
40745277--40745647	105	3.6	103	93	2	600	30	30	19	19	1.97
40750532--40750579	23	2.1	23	92	7	80	54	14	20	10	1.70
40753332--40753395	30	2.1	30	82	0	74	31	21	3	43	1.68
40753339--40753408	30	2.4	29	80	4	86	32	20	4	42	1.71
40753998--40754046	13	3.8	13	86	5	64	79	0	20	0	0.73
40753997--40754044	24	2.1	23	88	7	71	79	0	20	0	0.74
40754792--40755113	17	17.5	17	71	19	204	33	12	10	42	1.77
40754791--40755075	37	7.8	36	81	11	289	34	11	10	43	1.77
40754791--40755114	54	5.8	56	72	17	187	33	12	10	42	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40754796--40755075	38	7.6	37	81	10	292	34	11	11	42	1.77
40763063--40763690	76	8.3	76	88	4	830	27	16	20	35	1.94
40763063--40763690	151	4.1	150	87	5	865	27	16	20	35	1.94
40764039--40764096	30	1.9	30	82	0	71	36	22	1	39	1.64
40764904--40764949	21	2.2	21	84	3	58	86	6	6	0	0.69
40765408--40765786	38	10.2	37	79	9	339	34	11	10	43	1.76
40765408--40765786	37	10.2	38	80	10	358	34	11	10	43	1.76
40765408--40765786	75	5.1	75	79	10	338	34	11	10	43	1.76
40766819--40766869	19	2.7	18	76	8	57	47	0	0	52	1.00
40766841--40766876	12	2.9	12	91	4	54	44	0	0	55	0.99

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