genome.fa.s8.2.7.7.80.10.50.1000.47.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  47  of  190  ( 22705 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)
13255518--13255570	24	2.3	22	83	6	61	26	3	5	64	1.33
13260229--13260256	13	2.2	13	100	0	56	32	14	17	35	1.90
13262900--13263075	40	4.4	40	86	2	228	13	15	27	43	1.83
13273200--13273259	27	2.2	28	88	5	88	41	21	20	16	1.90
13273400--13273564	27	6.1	27	85	4	199	26	15	18	40	1.90
13273400--13273564	81	2.0	81	86	4	226	26	15	18	40	1.90
13280679--13280770	19	4.8	19	91	0	157	39	9	14	36	1.79
13280679--13280793	19	5.7	22	80	15	94	38	8	14	38	1.77
13281368--13281473	21	4.9	22	71	22	73	31	3	5	59	1.38
13281396--13281479	23	3.8	22	75	21	61	32	1	5	60	1.28
13287844--13288603	132	5.8	132	94	0	1317	28	18	24	28	1.98
13288929--13289039	19	5.8	19	89	0	177	39	9	13	37	1.76
13288936--13289039	38	2.7	38	98	0	199	40	8	12	38	1.74
13288929--13289065	19	6.9	21	85	4	114	38	8	14	38	1.76
13289698--13289741	23	1.9	23	86	9	63	29	2	4	63	1.26
13291908--13291937	13	2.3	13	100	0	60	36	13	0	50	1.42
13292365--13292446	24	3.4	24	86	5	85	17	25	9	47	1.78
13294840--13294883	16	2.8	16	83	10	54	79	0	6	13	0.92
13294850--13294896	21	2.1	21	84	7	58	72	0	4	23	1.02
13300803--13300855	16	3.3	16	86	0	79	41	3	30	24	1.72
13301089--13301141	18	3.0	17	91	5	79	56	1	1	39	1.21
13301123--13301307	59	3.0	62	70	20	181	51	4	2	42	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13318622--13318999	124	3.0	124	89	1	567	29	16	22	31	1.96
13322027--13322266	116	2.1	116	97	0	453	43	9	8	38	1.68
13322271--13322566	23	12.3	23	72	22	195	27	0	27	44	1.57
13322271--13322354	21	3.9	21	83	10	100	29	0	26	44	1.55
13322291--13322349	22	2.7	23	87	10	88	27	0	32	40	1.56
13322334--13322568	29	8.2	29	71	16	186	27	0	28	44	1.58
13322334--13322455	52	2.2	56	85	12	164	25	0	30	43	1.60
13322464--13322519	21	2.6	22	94	5	105	25	0	26	48	1.52
13322440--13322516	21	3.9	21	80	16	92	23	0	31	45	1.53
13322798--13322832	18	1.9	18	94	0	61	34	8	31	25	1.86
13323748--13323785	20	1.9	20	84	10	51	55	7	2	34	1.43
13324720--13324761	11	3.8	11	81	12	59	52	7	19	21	1.69
13330822--13330898	39	2.0	39	89	0	118	29	2	57	10	1.46
13331992--13332040	25	2.0	25	92	8	82	12	8	20	59	1.58
13332004--13332045	12	3.4	13	78	21	54	11	9	19	59	1.59
13336104--13336513	133	3.1	134	80	7	474	33	14	21	30	1.93
13336855--13336907	21	2.6	20	79	5	61	20	3	37	37	1.71
13340995--13341044	17	3.2	17	78	21	72	36	6	6	52	1.51
13341013--13341040	13	2.2	13	100	0	56	39	7	7	46	1.59
13341036--13341074	16	2.5	15	88	8	60	41	0	5	53	1.23
13341006--13341154	62	2.4	61	80	4	165	36	5	10	46	1.61
13341293--13341371	21	3.8	21	83	5	97	40	13	6	39	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13341198--13341428	116	2.0	116	96	1	428	42	12	5	38	1.66
13341532--13341917	9	43.8	9	75	7	330	47	17	1	33	1.58
13341805--13341854	25	2.0	26	92	4	84	50	18	0	32	1.47
13341888--13341924	7	5.0	7	87	12	56	54	16	0	29	1.43
13346390--13346440	21	2.4	21	86	0	66	31	19	47	1	1.61
13349008--13349079	36	2.0	36	100	0	144	36	13	13	36	1.85
13357196--13357316	47	2.5	47	82	6	152	46	19	24	9	1.79
13357196--13357330	52	2.8	48	82	5	164	45	20	24	9	1.80
13358598--13358914	143	2.2	141	89	2	474	29	22	22	24	1.99
13358693--13358956	45	5.8	45	73	11	169	29	22	22	24	1.99
13360854--13360890	9	4.1	9	100	0	74	45	10	10	32	1.74
13361016--13361074	30	2.0	29	86	3	82	20	37	0	42	1.52
13366411--13366437	5	5.4	5	100	0	54	62	18	0	18	1.32
13380211--13380240	15	2.0	15	93	0	51	30	26	33	10	1.89
13381174--13381199	9	2.9	9	100	0	52	46	0	0	53	1.00
13383274--13383298	12	2.1	12	100	0	50	40	0	0	60	0.97
13384755--13384789	16	2.1	17	89	5	54	42	11	0	45	1.40
13388625--13388754	49	2.7	49	90	0	197	23	16	30	30	1.96
13393677--13393713	18	2.1	18	89	0	56	54	16	5	24	1.63
13393724--13393749	7	3.7	7	100	0	52	42	0	0	57	0.98
13398201--13398238	12	3.2	12	85	3	51	73	0	2	23	0.95
13401753--13401930	51	3.5	50	77	9	200	30	26	17	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13405751--13405822	31	2.4	30	79	4	81	40	12	12	34	1.81
13407439--13407489	23	2.3	22	83	10	59	56	0	0	43	0.99
13414050--13414164	57	2.0	56	93	1	194	38	9	13	39	1.77
13416511--13416555	22	2.0	22	83	8	56	40	4	0	55	1.20
13420385--13420418	4	8.5	4	93	0	59	50	23	2	23	1.63
13422435--13422603	57	3.0	56	85	3	230	39	10	11	39	1.76
13433937--13434125	104	1.9	100	87	4	279	26	22	15	34	1.94
13434017--13434107	33	2.8	32	73	11	76	27	20	15	36	1.93
13437903--13438022	59	2.0	59	98	0	231	35	26	10	28	1.89
13441799--13441872	33	2.2	35	81	13	84	27	24	12	36	1.91
13442999--13443023	12	2.1	12	100	0	50	60	0	0	40	0.97
13447647--13447683	19	1.9	19	100	0	74	5	29	10	54	1.57
13454452--13454492	17	2.4	17	95	0	73	48	0	14	36	1.44
13454780--13454812	6	5.5	6	100	0	66	48	0	51	0	1.00
13457563--13457616	25	2.2	25	82	0	63	18	18	18	44	1.87
13457643--13457706	31	2.1	31	88	5	94	45	10	18	25	1.82
13472871--13472944	29	2.5	29	82	4	85	25	13	13	47	1.79
13474887--13474916	15	1.9	16	93	6	53	46	46	0	6	1.29
13476440--13476473	8	4.2	8	88	11	52	26	8	2	61	1.40
13476523--13476573	17	3.0	16	80	11	57	15	1	5	76	1.07
13476700--13477001	108	2.8	109	94	1	525	30	15	19	34	1.93
13479575--13479686	26	4.3	26	90	2	163	37	13	8	41	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13479831--13479864	18	1.9	18	88	5	52	17	20	0	61	1.34
13487838--13487895	28	2.1	28	93	0	98	34	6	24	34	1.82
13492799--13492827	15	1.9	15	100	0	58	13	0	10	75	1.04
13513693--13513746	27	2.0	27	82	7	65	22	22	31	24	1.98
13517014--13517121	20	5.3	20	65	12	67	34	16	32	16	1.92
13517011--13517301	41	7.1	41	84	0	377	33	16	31	19	1.94
13517011--13517301	122	2.4	123	86	0	422	33	16	31	19	1.94
13520319--13520344	5	5.2	5	100	0	52	38	0	0	61	0.96
13523540--13523588	25	2.0	25	95	0	89	46	8	18	26	1.76
13524052--13524138	43	2.0	43	90	0	138	27	20	16	35	1.94
13525053--13525089	15	2.5	15	95	0	65	24	29	13	32	1.93
13545273--13545446	27	6.4	26	74	9	109	32	24	15	28	1.95
13546822--13546852	16	1.9	16	93	0	53	25	0	9	64	1.24
13547353--13547381	12	2.4	12	100	0	58	17	20	24	37	1.93
13547349--13547461	55	2.0	56	93	3	192	32	11	21	34	1.89
13555399--13555469	36	2.0	36	94	0	124	50	2	14	32	1.57
13564715--13564841	62	2.0	61	89	5	193	61	6	1	30	1.30
13564864--13564920	18	3.2	17	75	7	60	50	1	3	43	1.29
13569683--13569709	4	6.8	4	100	0	54	77	0	22	0	0.76
13576210--13576303	25	3.8	25	86	0	125	18	32	17	31	1.93
13582030--13582072	17	2.5	17	81	7	52	58	2	0	39	1.11
13582209--13582239	2	15.5	2	100	0	62	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13586123--13586175	20	2.6	19	77	11	52	45	5	1	47	1.37
13586120--13586168	20	2.4	20	82	3	53	44	6	2	46	1.39
13588104--13588229	46	2.8	46	84	5	161	32	6	15	46	1.71
13598571--13598784	46	4.5	46	81	9	243	30	16	22	30	1.96
13598537--13598740	98	2.1	96	86	4	286	28	16	23	31	1.96
13602728--13602779	25	2.1	25	88	0	77	40	9	21	28	1.84
13603425--13603482	20	2.9	19	82	7	53	36	22	32	8	1.85
13607148--13607204	30	1.9	30	92	0	96	38	29	1	29	1.67
13611760--13611813	12	4.3	13	75	15	60	64	1	0	33	1.04
13615796--13615870	34	2.2	34	86	9	100	46	17	9	26	1.78

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