genome.fa.s20.2.7.7.80.10.50.1000.107.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  107  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)
35272427--35272488	32	1.9	32	93	0	106	40	20	9	29	1.84
35286107--35286150	22	2.0	21	82	4	52	54	9	2	34	1.44
35290540--35290621	39	2.1	39	93	0	137	21	24	30	23	1.99
35294079--35294144	34	1.9	34	84	0	87	24	24	22	28	1.99
35313489--35313611	47	2.6	47	79	16	132	27	20	28	23	1.99
35313523--35313755	46	5.0	46	71	12	145	28	20	28	22	1.98
35313717--35313944	97	2.4	97	96	2	417	28	19	27	24	1.99
35313534--35313942	49	8.6	47	72	10	216	28	19	27	23	1.98
35315856--35316005	67	2.2	66	81	8	169	32	17	29	21	1.96
35315880--35316063	67	2.8	64	78	8	203	29	17	30	22	1.97
35321100--35321132	13	2.6	13	90	4	50	39	6	12	42	1.67
35326296--35326334	14	2.7	14	84	4	51	15	5	0	79	0.90
35329018--35329050	13	2.6	13	90	4	50	39	0	12	48	1.40
35329369--35329486	42	2.8	42	85	5	166	27	18	23	29	1.98
35331709--35331796	43	2.1	42	91	2	140	22	14	31	30	1.94
35333781--35333844	18	3.6	17	75	8	56	40	25	14	20	1.89
35334409--35334472	24	2.7	24	80	2	67	26	14	31	28	1.95
35340150--35340412	40	6.6	40	88	3	325	26	27	20	24	1.99
35345511--35345773	40	6.6	39	86	4	278	25	27	21	25	1.99
35345511--35345773	120	2.2	119	82	4	307	25	27	21	25	1.99
35345705--35345782	40	1.9	41	82	10	97	26	28	20	24	1.99
35353461--35353723	40	6.6	39	86	4	278	25	27	21	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35353461--35353723	120	2.2	119	82	4	307	25	27	21	25	1.99
35353655--35353732	40	1.9	41	82	10	97	26	28	20	24	1.99
35355811--35355846	18	2.0	18	100	0	72	33	27	16	22	1.95
35362876--35362976	41	2.5	41	98	0	193	21	23	26	27	1.99
35372540--35372751	111	1.9	111	82	1	264	21	9	17	51	1.74
35378084--35378118	6	5.8	6	96	0	61	17	11	20	51	1.75
35378074--35378142	6	11.5	6	90	0	57	17	5	21	55	1.63
35378434--35378485	22	2.5	20	78	18	52	48	3	1	46	1.31
35378861--35378907	5	9.6	5	97	2	87	19	0	0	80	0.70
35383290--35383321	5	6.6	5	92	7	57	18	0	0	81	0.70
35383290--35383320	9	3.3	9	91	8	53	19	0	0	80	0.71
35384515--35384560	23	2.0	23	100	0	92	34	17	8	39	1.80
35388018--35388085	32	2.1	32	100	0	136	38	2	11	47	1.55
35388792--35388853	31	2.0	31	100	0	124	25	9	16	48	1.76
35394611--35394654	22	2.0	23	90	4	72	40	0	4	54	1.21
35394611--35394661	20	2.5	20	83	6	57	37	0	5	56	1.23
35398307--35398523	46	4.6	46	81	8	208	27	18	30	23	1.98
35398306--35398523	94	2.3	94	82	7	257	27	18	30	23	1.98
35409821--35409855	15	2.4	15	95	4	63	31	5	22	40	1.78
35410968--35411077	52	2.1	54	86	3	152	6	33	13	46	1.69
35415664--35415792	47	2.8	46	80	12	156	28	20	27	23	1.99
35415667--35415883	46	4.6	48	74	14	159	29	17	27	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35427640--35427808	27	6.3	26	74	11	128	34	23	13	28	1.92
35427640--35427779	54	2.6	53	88	3	208	34	23	13	28	1.93
35427825--35427876	27	1.9	27	92	0	86	42	19	13	25	1.87
35428013--35428082	27	2.6	25	75	16	61	25	17	20	37	1.94
35428256--35428318	33	1.9	33	93	0	108	26	20	26	25	1.99
35430751--35430794	13	3.3	13	83	3	52	31	25	22	20	1.98
35434710--35435342	333	1.9	333	96	0	1160	37	7	18	36	1.79
35437119--35437166	14	3.6	14	75	16	57	37	29	12	20	1.90
35437084--35437171	25	3.5	25	82	0	104	37	26	14	21	1.92
35439969--35440019	22	2.3	22	89	0	75	39	17	15	27	1.90
35439977--35440033	22	2.6	22	77	5	62	45	17	15	21	1.85
35440712--35440779	32	2.1	32	97	0	127	42	23	8	25	1.82
35442726--35442756	16	1.9	16	100	0	62	25	12	9	51	1.70
35448547--35448643	29	3.4	29	84	1	124	23	14	30	30	1.94
35455947--35455977	16	1.9	16	100	0	62	45	19	29	6	1.75
35456176--35456267	29	3.2	29	80	7	116	26	15	29	29	1.96
35457379--35457411	17	1.9	17	93	0	57	36	15	18	30	1.91
35458034--35458169	22	6.0	23	76	11	129	37	19	19	23	1.94
35458038--35458169	45	2.9	46	73	10	128	37	18	19	24	1.94
35458644--35458680	16	2.3	16	100	0	74	29	32	21	16	1.95
35462307--35462346	14	3.1	13	82	10	55	15	7	10	67	1.41
35478273--35478368	39	2.5	39	91	0	147	23	30	20	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35478273--35478394	39	3.1	39	85	1	118	24	28	20	26	1.99
35485948--35486084	39	3.5	39	89	2	186	26	30	21	21	1.98
35496154--35496291	39	3.5	39	86	2	159	24	26	22	26	2.00
35496188--35496304	40	3.0	40	87	1	155	26	25	20	27	1.99
35499122--35499159	20	1.9	20	88	0	58	18	13	31	36	1.89
35500478--35500542	30	2.2	30	97	0	121	18	29	35	16	1.93
35514357--35514457	43	2.4	42	83	3	114	34	24	16	23	1.95
35514303--35514467	43	3.9	43	74	7	106	34	25	15	24	1.95
35517965--35518016	24	2.0	27	85	14	74	34	5	13	46	1.67
35521240--35521319	29	2.8	29	86	5	110	33	8	25	32	1.86
35527933--35528000	28	2.4	28	95	0	118	23	16	35	25	1.95
35527933--35528023	28	3.2	28	85	3	94	27	16	31	24	1.96
35528338--35528729	27	14.7	27	80	5	363	40	19	9	30	1.84
35528338--35528702	80	4.6	79	81	6	353	39	19	9	30	1.84
35528338--35528729	53	7.3	54	83	4	406	40	19	9	30	1.84
35529228--35529255	11	2.5	11	100	0	56	28	0	17	53	1.44
35531590--35531650	28	2.2	28	90	0	95	19	18	37	24	1.94
35531975--35532330	27	13.3	27	84	5	422	39	18	10	32	1.84
35537960--35538020	30	2.0	30	83	0	77	31	22	8	37	1.84
35541058--35541120	16	3.9	16	82	0	72	41	4	26	26	1.76
35545109--35545448	119	2.9	119	82	3	405	35	15	22	25	1.94
35545216--35545426	61	3.5	61	71	15	179	36	15	23	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35545378--35545446	29	2.4	29	78	9	70	33	17	26	23	1.96
35547745--35547922	27	6.6	27	83	3	205	26	15	28	29	1.96
35547746--35547901	82	1.9	81	88	3	233	26	15	28	29	1.96
35547742--35547922	82	2.2	81	83	2	229	27	15	27	29	1.96
35554043--35554621	43	13.5	43	82	8	696	24	16	27	31	1.96
35554589--35554698	56	2.0	56	87	0	157	29	15	20	35	1.93
35559117--35559441	43	7.6	43	91	0	472	34	19	14	32	1.91
35559117--35559494	129	2.9	129	83	3	352	33	20	13	32	1.91
35570892--35571141	27	9.3	27	88	2	342	26	21	18	32	1.97
35577066--35577171	27	4.0	27	95	1	178	26	21	17	33	1.96
35581831--35581862	16	2.0	16	100	0	64	6	37	31	25	1.81
35582189--35582251	27	2.3	27	100	0	126	38	20	20	20	1.94
35582253--35582349	27	3.6	27	87	5	142	28	22	14	34	1.94
35584338--35584433	44	2.2	43	85	3	122	20	18	30	30	1.97
35587380--35587483	41	2.5	41	82	3	129	28	24	25	22	1.99
35590161--35590281	45	2.7	44	85	5	170	19	19	21	38	1.93
35590152--35590281	23	5.7	23	78	11	126	19	20	20	40	1.92
35592484--35592544	30	2.0	30	83	0	77	31	22	8	37	1.84
35604226--35604315	7	12.7	7	97	2	171	44	41	0	14	1.45
35604828--35604897	27	2.6	26	95	2	95	31	28	12	27	1.93
35604828--35604922	28	3.4	28	89	2	129	32	28	12	26	1.93
35610905--35610984	39	2.1	39	97	0	151	25	22	17	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35617266--35617309	19	2.4	19	84	3	63	36	6	13	43	1.71
35617517--35617624	22	4.8	22	81	10	112	25	24	18	32	1.97
35617513--35617629	45	2.6	44	89	5	162	23	23	17	34	1.96
35618626--35618808	65	2.8	66	81	7	187	21	25	27	25	2.00
35618692--35618848	66	2.4	65	82	10	169	21	26	26	25	2.00
35621170--35621851	342	2.0	343	92	0	1132	37	18	18	25	1.94
35621810--35621875	33	2.0	34	84	3	89	24	25	24	25	2.00
35626407--35626528	40	2.9	44	83	9	114	34	0	1	63	1.10
35626420--35626623	10	19.8	10	68	16	96	34	1	0	62	1.13
35626544--35626626	11	7.9	11	76	7	75	37	2	0	60	1.10

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