genome.fa.s20.2.7.7.80.10.50.1000.42.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_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   

This is table  42  of  186  ( 22216 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)
12428798--12428828	16	1.9	16	93	0	53	61	0	6	32	1.21
12434528--12434593	10	7.0	10	69	19	52	34	4	1	59	1.27
12434528--12434573	19	2.5	18	86	10	58	32	4	0	63	1.14
12437846--12437932	42	2.1	42	93	0	147	28	12	21	36	1.90
12439997--12440046	22	2.4	20	78	18	57	34	0	4	62	1.14
12441857--12441909	26	2.0	26	100	0	106	30	33	7	28	1.85
12446481--12446544	22	3.0	22	72	19	57	31	0	3	65	1.08
12448804--12448893	19	4.8	19	76	9	78	34	4	1	60	1.24
12448805--12448975	28	6.1	28	68	16	106	38	2	1	58	1.18
12448804--12448910	56	1.9	56	81	7	128	34	3	0	60	1.21
12448915--12448947	9	3.7	9	100	0	66	54	0	0	45	0.99
12449137--12449332	90	2.2	91	75	14	201	33	10	13	41	1.79
12449463--12449503	3	13.7	3	94	0	73	31	0	2	65	1.05
12450858--12450905	21	2.2	22	92	7	89	20	20	29	29	1.98
12453785--12453921	53	2.6	53	81	3	150	40	11	21	27	1.87
12455159--12455262	35	3.0	35	98	0	199	25	8	9	56	1.59
12455594--12455641	23	2.2	23	85	14	66	50	2	0	47	1.12
12456357--12456418	30	2.1	30	90	0	97	29	1	9	59	1.38
12463035--12463085	5	10.4	5	76	19	54	78	1	1	17	0.94
12482883--12482923	16	2.8	15	82	14	50	63	0	0	36	0.95
12485822--12485851	12	2.5	12	94	0	51	46	0	6	46	1.29
12486044--12486094	21	2.5	21	84	9	61	68	25	0	5	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12486021--12486122	23	4.4	23	74	13	84	59	26	0	12	1.40
12486015--12486141	22	5.6	22	72	15	80	57	29	1	11	1.44
12487746--12487789	12	3.7	12	87	6	63	0	40	0	59	0.98
12488669--12488698	14	2.1	14	93	0	51	70	0	20	10	1.16
12491487--12491551	30	2.2	31	83	10	82	40	0	6	53	1.26
12491484--12491552	29	2.3	29	76	14	70	40	0	5	53	1.25
12494465--12494520	20	2.8	20	72	2	60	64	3	1	30	1.21
12510968--12511015	21	2.3	22	82	10	64	39	22	4	33	1.74
12516117--12516186	31	2.2	32	82	7	90	45	4	5	44	1.47
12528102--12528185	29	3.0	29	69	16	70	50	7	16	26	1.71
12529023--12529116	30	3.1	30	93	1	152	25	25	6	42	1.78
12529033--12529110	15	5.2	15	70	11	70	25	23	7	43	1.80
12533686--12533749	30	2.1	31	94	2	112	26	28	6	39	1.80
12533696--12533742	15	3.1	15	70	11	51	27	23	8	40	1.83
12534334--12534407	36	2.3	31	76	19	78	43	9	14	32	1.78
12536803--12536871	32	2.2	32	97	2	131	30	14	0	55	1.40
12543552--12543581	8	3.6	8	95	4	51	26	0	0	73	0.84
12543903--12543946	20	2.2	20	100	0	88	59	11	4	25	1.51
12544704--12544732	2	14.5	2	100	0	58	0	48	0	51	1.00
12552724--12552748	3	8.3	3	100	0	50	68	0	32	0	0.90
12563145--12563193	20	2.4	21	80	13	57	46	0	0	53	1.00
12567633--12567682	19	2.6	19	76	17	59	38	0	2	60	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12570690--12570920	115	2.0	115	97	0	435	38	19	8	33	1.82
12577493--12577685	35	5.5	35	86	4	266	31	11	24	32	1.91
12577493--12577685	105	1.8	104	89	5	300	31	11	24	32	1.91
12578913--12578967	27	2.0	27	92	0	92	27	45	21	5	1.74
12593848--12593877	8	3.8	8	95	0	51	46	23	0	30	1.52
12612084--12612168	39	2.3	38	82	8	95	35	2	1	61	1.17
12612084--12612128	18	2.5	18	77	0	54	37	0	0	62	0.96
12612914--12612963	18	2.8	18	80	14	68	30	14	6	50	1.66
12614108--12614880	397	1.9	396	82	5	954	33	12	17	35	1.88
12615613--12615787	52	3.1	58	77	16	208	43	6	20	30	1.76
12615770--12615820	13	4.0	13	97	2	95	68	0	15	15	1.21
12615770--12615833	18	3.4	19	87	8	87	65	3	15	15	1.39
12615649--12615808	52	3.0	51	73	16	139	46	6	19	27	1.73
12615770--12615820	6	8.2	6	91	8	84	68	0	15	15	1.21
12618354--12618425	21	3.4	21	77	11	83	23	29	31	15	1.95
12618341--12618425	43	2.0	44	88	2	127	24	27	34	14	1.94
12621528--12621556	9	3.2	9	100	0	58	24	13	0	62	1.32
12622471--12622696	46	4.8	47	75	10	169	30	19	28	22	1.98
12629042--12629217	46	3.8	46	84	10	216	27	19	29	22	1.98
12629042--12629215	47	3.7	45	86	8	215	28	19	29	22	1.98
12628996--12629217	93	2.4	92	82	8	258	28	18	28	24	1.98
12635638--12635668	16	1.9	16	93	0	53	35	22	0	41	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12635635--12635674	20	2.0	20	85	0	53	37	22	0	40	1.54
12635909--12636111	55	3.8	53	78	5	201	22	23	17	36	1.95
12640629--12641041	46	8.6	46	84	9	520	28	21	14	35	1.93
12640629--12641041	98	4.3	98	94	1	667	28	21	14	35	1.93
12645586--12645616	16	1.9	16	93	0	53	35	22	0	41	1.54
12645583--12645622	20	2.0	20	85	0	53	37	22	0	40	1.54
12645873--12646062	55	3.5	53	80	8	197	22	26	16	34	1.95
12657639--12657670	14	2.4	13	90	10	55	21	6	9	62	1.47
12659484--12659511	13	2.2	13	100	0	56	50	21	0	28	1.49
12666160--12666283	23	5.4	23	76	3	117	24	22	20	32	1.98
12666152--12666269	46	2.6	45	90	1	182	22	23	20	33	1.97
12666152--12666284	45	2.9	45	88	3	187	23	22	20	33	1.97
12677194--12677320	59	2.2	57	78	9	132	34	11	7	46	1.68
12677585--12677613	2	14.5	2	100	0	58	51	0	0	48	1.00
12678425--12678534	41	2.7	41	98	0	211	42	1	10	45	1.48
12679975--12680563	150	3.9	149	89	2	844	22	25	19	32	1.97
12682791--12682864	36	2.1	36	97	0	139	48	13	10	27	1.75
12685164--12685197	3	11.3	3	87	0	50	29	29	0	41	1.57
12685170--12685200	15	2.1	15	100	0	62	32	25	0	41	1.56
12688448--12688515	16	4.2	16	92	0	109	29	0	35	35	1.58
12688751--12688785	18	2.0	17	88	5	52	54	0	0	45	0.99
12688645--12688951	157	2.0	157	97	0	578	44	2	4	47	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12688888--12688929	15	2.7	16	82	14	52	52	2	0	45	1.13
12688897--12688938	15	2.9	15	82	10	52	52	0	0	47	1.00
12689366--12689390	13	1.9	13	100	0	50	32	32	24	12	1.91
12696552--12696610	14	4.3	14	75	10	59	35	0	3	61	1.13
12699845--12699917	38	1.9	38	91	0	119	20	28	21	28	1.98
12701270--12701299	15	2.0	15	100	0	60	20	6	20	53	1.67
12704650--12704691	17	2.5	17	85	11	59	33	0	9	57	1.31
12705981--12706034	27	2.0	27	100	0	108	48	22	3	25	1.67
12708548--12708596	26	2.0	24	84	8	62	63	8	0	28	1.23
12708587--12708671	41	2.1	40	82	2	98	65	10	3	20	1.37
12714220--12714277	31	1.9	30	82	10	73	41	0	3	55	1.17
12714232--12714293	27	2.3	26	76	10	63	45	0	1	53	1.10
12714818--12714901	42	2.0	42	90	0	132	59	2	4	33	1.31
12714994--12715038	14	3.0	15	83	9	65	46	8	6	37	1.61
12716240--12716296	26	2.0	28	83	12	73	35	7	5	52	1.51
12716963--12716989	7	3.9	7	100	0	54	44	11	0	44	1.39
12720376--12720413	20	1.9	20	88	0	58	57	5	5	31	1.43
12728195--12728244	24	2.1	24	88	0	73	56	8	4	32	1.47
12738718--12738755	18	2.1	19	90	5	60	42	5	7	44	1.56
12740845--12740889	17	2.6	18	83	13	58	4	8	8	77	1.10
12741552--12741753	92	2.2	92	90	0	314	25	19	19	35	1.96
12741814--12742070	89	2.9	89	81	5	270	31	22	14	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12741814--12742031	45	4.9	45	79	8	203	30	22	14	32	1.94
12741813--12742078	44	6.0	44	76	9	236	30	21	15	32	1.94
12745395--12745643	50	4.8	50	85	4	284	20	29	24	26	1.99
12745394--12745643	100	2.4	104	88	6	357	20	29	24	26	1.99
12745738--12745769	13	2.5	13	94	0	55	56	12	0	31	1.37
12745981--12746038	30	1.9	30	89	0	89	31	24	3	41	1.71
12757230--12757288	29	2.0	29	93	0	100	30	20	15	33	1.93
12767416--12767450	10	3.6	10	88	7	54	37	0	0	62	0.95
12767409--12767457	18	2.5	19	83	12	64	38	0	0	61	0.96
12790096--12790210	58	2.0	59	92	1	196	27	11	14	46	1.79

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