genome.fa.s23.2.7.7.80.10.50.1000.121.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: At_chr5
Parameters: 2 7 7 80 10 50 1000
Length:  55438857

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   

This is table  121  of  167  ( 19959 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)
40480006--40480043	10	3.9	10	89	6	60	44	0	5	50	1.24
40480006--40480045	19	2.1	19	95	0	71	42	0	5	52	1.23
40481109--40481405	120	2.5	118	81	6	302	30	14	21	34	1.93
40481208--40481431	120	1.9	120	87	1	333	30	14	21	33	1.93
40498133--40498168	18	2.0	18	88	0	54	19	36	25	19	1.95
40506537--40506604	16	4.2	16	94	0	118	27	0	36	35	1.58
40506585--40506694	45	2.6	41	78	9	116	32	5	29	32	1.80
40506820--40506861	15	2.7	16	82	14	52	52	2	0	45	1.13
40506829--40506870	15	2.9	15	82	10	52	52	0	0	47	1.00
40514955--40514994	20	2.0	20	85	4	55	70	2	0	27	1.01
40517631--40517714	21	4.0	21	84	0	105	11	35	34	17	1.87
40517651--40517727	21	3.7	21	79	6	84	12	31	35	20	1.91
40525849--40525899	25	2.0	26	96	3	95	39	11	19	29	1.87
40526560--40526597	20	1.9	19	89	5	58	34	7	7	50	1.61
40536051--40536483	215	2.0	215	95	0	785	28	18	17	35	1.93
40538245--40538282	19	2.0	19	85	10	51	68	0	10	21	1.19
40540714--40540878	82	2.0	82	95	0	294	35	18	15	30	1.92
40543783--40543893	9	12.4	9	85	1	116	41	17	14	27	1.88
40543893--40543981	17	4.8	20	68	13	73	47	15	5	31	1.69
40543892--40544041	72	2.1	72	93	5	266	46	15	6	32	1.70
40543892--40544038	37	4.0	37	92	3	262	46	15	5	32	1.69
40546461--40546519	21	2.8	20	85	15	75	54	5	0	40	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40546567--40546600	11	3.0	11	83	8	50	64	0	0	35	0.94
40547138--40547167	14	2.1	14	93	0	51	23	3	6	66	1.30
40554398--40554445	15	3.1	16	82	14	57	45	0	2	52	1.12
40554398--40554427	16	1.9	15	93	6	51	43	0	0	56	0.99
40554571--40554680	45	2.6	43	79	11	120	32	29	5	32	1.80
40554661--40554728	16	4.2	16	90	0	109	35	35	0	29	1.58
40555495--40555553	29	2.0	29	100	0	118	30	32	6	30	1.83
40557033--40557274	94	2.6	96	74	6	221	28	8	14	48	1.72
40557207--40557357	58	2.6	58	93	0	257	26	7	12	53	1.64
40557662--40557688	14	1.9	14	100	0	54	62	0	0	37	0.95
40558267--40558318	26	2.0	26	88	3	79	50	3	0	46	1.20
40564321--40564387	22	3.1	21	79	14	82	38	19	25	16	1.92
40564365--40564475	25	4.5	24	87	8	143	35	19	24	20	1.96
40564363--40564475	50	2.3	50	87	6	167	35	19	23	21	1.96
40566338--40566435	49	2.0	49	97	0	187	31	22	9	36	1.86
40572005--40572075	32	2.2	33	92	2	117	43	9	12	33	1.76
40572859--40572948	43	2.1	43	85	0	117	26	23	31	18	1.98
40572878--40572968	43	2.1	43	91	0	146	23	23	34	19	1.97
40573963--40574192	48	4.9	48	76	12	217	28	17	27	26	1.98
40573972--40574239	46	5.7	45	74	14	186	28	18	27	25	1.98
40573972--40574275	140	2.2	139	86	2	414	27	18	27	25	1.98
40585126--40585151	6	4.3	6	100	0	52	19	19	15	46	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40586866--40586953	46	1.9	46	88	0	122	27	30	22	19	1.98
40601962--40601987	12	2.2	12	100	0	52	7	7	0	84	0.77
40608864--40608893	11	2.7	11	94	0	51	60	3	6	30	1.39
40612933--40612977	23	2.0	22	82	4	54	55	0	2	42	1.12
40623060--40623089	16	1.9	16	93	6	53	43	0	16	40	1.48
40626108--40626142	3	11.7	3	100	0	70	34	0	0	65	0.93
40629018--40630636	807	2.0	807	96	0	2986	31	18	22	27	1.97
40631801--40631825	12	2.1	12	100	0	50	48	8	0	44	1.32
40631927--40632232	157	1.9	157	87	0	441	33	16	20	30	1.94
40633754--40633861	54	2.0	54	92	0	180	22	21	17	38	1.93
40635128--40635169	20	2.1	20	100	0	84	42	30	9	16	1.80
40643289--40643322	17	2.0	17	94	0	59	44	50	0	5	1.26
40647928--40647961	17	2.0	17	94	0	59	44	50	0	5	1.26
40650317--40650342	4	6.5	4	100	0	52	73	0	0	26	0.84
40657248--40657282	17	2.1	17	89	5	54	31	8	2	57	1.44
40660905--40661025	52	2.3	52	90	4	181	23	26	14	35	1.93
40663469--40663529	25	2.4	25	83	0	77	29	19	29	21	1.98
40663482--40663536	25	2.2	25	80	0	65	32	21	27	18	1.96
40666350--40666430	41	2.0	41	90	4	128	27	22	18	32	1.97
40677564--40677752	55	3.5	53	84	5	236	21	24	19	35	1.96
40677564--40677766	109	1.9	108	88	3	309	21	24	17	36	1.95
40677739--40677860	47	2.6	47	94	0	208	25	24	13	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40687593--40687640	26	1.9	25	84	16	64	56	0	0	43	0.99
40690072--40690151	11	7.7	11	70	26	52	57	6	3	32	1.41
40690318--40690359	3	14.3	3	80	5	50	64	0	2	33	1.07
40690633--40690749	60	2.0	60	83	10	150	23	29	29	17	1.97
40691078--40691127	14	3.8	13	82	12	57	76	0	4	20	0.95
40691078--40691109	6	5.2	6	96	3	55	81	0	3	15	0.82
40692414--40692711	88	3.4	87	90	1	443	34	19	16	28	1.94
40692501--40692939	226	1.9	230	84	6	597	35	18	17	28	1.94
40692732--40692951	89	2.6	85	84	8	277	36	18	17	27	1.93
40695391--40695434	15	2.9	15	80	12	54	29	4	9	56	1.50
40695459--40695514	24	2.3	25	78	9	62	35	5	3	55	1.40
40707002--40707176	55	3.2	55	95	0	305	20	17	9	52	1.72
40707693--40707837	44	3.3	43	72	13	134	35	19	22	22	1.96
40708222--40708327	43	2.5	42	84	1	122	38	23	17	19	1.93
40710375--40710418	15	2.9	15	80	12	54	29	4	9	56	1.50
40710443--40710498	24	2.3	25	78	9	62	35	5	3	55	1.40
40711835--40711913	38	2.1	38	87	0	113	21	32	16	29	1.95
40724366--40724447	26	3.2	26	94	0	146	36	25	6	31	1.81
40730161--40730261	26	3.9	26	96	0	184	38	26	3	30	1.75
40731342--40731380	16	2.4	16	87	8	53	38	0	2	58	1.12
40732556--40732584	12	2.5	12	94	5	51	79	0	0	20	0.74
40743409--40743487	37	2.1	37	88	4	115	25	30	18	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40743606--40744595	47	21.1	47	97	0	1829	29	28	8	33	1.87
40750596--40750707	44	2.5	44	83	8	138	27	25	25	21	1.99
40750991--40751095	43	2.4	43	82	7	124	36	18	21	23	1.95
40750671--40751324	262	2.5	261	75	11	754	33	21	21	22	1.97
40755341--40755428	44	2.0	44	97	0	167	22	17	6	53	1.67
40755613--40755690	31	2.5	31	80	0	93	44	7	11	35	1.69
40761631--40761662	12	2.7	12	100	0	64	31	15	0	53	1.43
40764330--40764425	42	2.2	41	79	13	104	22	18	27	31	1.97
40764330--40764464	43	3.1	43	76	12	118	25	17	25	32	1.96
40765069--40765120	26	2.0	26	100	0	104	23	11	19	46	1.82
40766730--40766888	63	2.5	63	76	6	169	25	7	33	33	1.84
40768575--40768620	7	6.6	7	79	0	56	39	0	30	30	1.57
40768575--40768630	14	4.0	14	83	0	67	39	0	30	30	1.57
40768577--40768616	21	1.9	21	89	0	62	35	0	35	30	1.58
40773440--40773469	16	1.9	16	93	6	53	26	26	0	46	1.53
40779292--40779323	13	2.5	13	100	0	64	81	0	0	18	0.70
40789934--40790002	19	3.5	18	78	13	66	37	7	17	37	1.77
40790453--40790590	45	3.1	44	88	2	204	18	20	21	40	1.91
40790593--40790703	51	2.1	53	81	6	138	18	14	20	45	1.84
40795734--40796662	43	21.6	43	99	0	1806	30	32	25	11	1.91
40796660--40796762	38	2.7	38	79	8	120	29	23	22	25	1.99
40806327--40806433	56	1.9	57	90	5	173	40	15	23	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40808768--40808797	14	2.1	14	93	0	51	30	13	16	40	1.87
40810914--40810949	17	2.0	18	89	10	56	0	27	0	72	0.85
40810923--40810970	25	1.9	25	86	0	69	2	27	2	68	1.11
40810923--40810970	21	2.3	21	82	13	55	2	27	2	68	1.11
40810980--40811026	25	1.9	24	83	12	60	12	10	2	74	1.16
40811029--40811187	5	31.8	5	100	0	318	59	0	0	40	0.97
40812513--40812661	39	3.9	39	88	4	205	28	17	4	48	1.67
40812513--40812661	77	1.9	77	87	5	221	28	17	4	48	1.67
40816721--40816761	20	2.0	20	86	9	57	36	0	12	51	1.40
40821677--40821776	52	1.9	52	95	0	182	25	21	26	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