genome.fa.s20.2.7.7.80.10.50.1000.95.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  95  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)
31176091--31176133	20	2.2	20	91	0	68	16	20	6	55	1.64
31195028--31195261	116	2.0	116	92	1	389	28	22	20	28	1.99
31198896--31199157	39	6.7	40	87	7	337	25	22	27	24	2.00
31201194--31201309	39	3.0	39	90	0	196	32	28	23	15	1.95
31214785--31215066	49	5.7	50	86	1	325	31	26	14	27	1.95
31214764--31215066	101	3.0	101	80	5	364	31	27	15	26	1.96
31217401--31217440	21	1.9	21	89	0	62	20	45	22	12	1.84
31219242--31219521	48	5.9	48	78	7	291	26	20	30	22	1.98
31219242--31219521	96	2.9	96	82	1	330	26	20	30	22	1.98
31225933--31225989	28	2.0	28	100	0	114	35	10	21	33	1.87
31226980--31227310	48	6.9	48	77	5	292	28	20	27	23	1.99
31226978--31227310	96	3.5	96	83	0	380	28	20	27	23	1.99
31232033--31232237	3	68.0	3	83	10	240	65	2	3	28	1.22
31235153--31235224	36	2.0	36	94	0	126	25	19	29	26	1.99
31237236--31237344	26	4.2	26	91	0	182	36	23	6	33	1.81
31239509--31239539	15	2.1	15	100	0	62	12	41	6	38	1.69
31242231--31242261	12	2.6	12	94	0	53	16	51	22	9	1.73
31256498--31256550	26	2.0	27	85	7	74	24	15	22	37	1.92
31257917--31258000	42	2.0	42	100	0	168	35	14	19	30	1.91
31258079--31258237	26	6.2	26	87	1	239	35	23	7	33	1.83
31258079--31258237	51	3.1	52	92	1	266	35	23	7	33	1.83
31260284--31260394	27	4.1	27	92	1	170	36	22	24	16	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31284166--31284287	57	2.1	58	90	4	194	48	5	20	25	1.71
31285204--31285243	19	2.2	19	86	4	55	65	0	0	35	0.93
31292702--31292735	16	2.0	17	88	11	52	67	0	0	32	0.91
31292702--31292736	17	2.0	18	88	5	54	68	0	0	31	0.90
31294114--31294151	18	2.1	18	100	0	76	31	10	5	52	1.58
31298424--31298454	16	1.9	16	93	0	53	77	0	9	12	0.99
31309903--31309941	21	1.9	21	89	5	62	0	30	7	61	1.24
31311355--31311400	23	2.0	23	100	0	92	56	13	8	21	1.63
31323548--31323583	10	3.6	10	92	7	56	69	0	8	22	1.15
31324877--31324918	18	2.3	19	87	4	59	45	2	23	28	1.66
31328360--31328409	23	2.2	22	82	7	55	24	10	16	50	1.75
31329155--31329194	22	1.9	21	85	10	55	27	25	0	47	1.52
31329839--31329864	7	3.7	7	100	0	52	42	26	0	30	1.56
31334749--31334787	17	2.3	17	100	0	78	23	15	23	38	1.92
31336746--31336902	43	3.7	42	84	6	201	27	15	24	33	1.95
31338365--31341477	555	5.6	555	87	3	4306	42	10	21	25	1.84
31341643--31345216	554	6.4	554	80	7	3858	41	10	22	26	1.85
31346696--31346744	24	2.0	24	100	0	98	28	4	12	55	1.55
31347391--31347816	40	10.8	40	72	5	303	30	19	20	29	1.97
31347391--31347551	79	2.0	80	84	1	207	30	21	21	26	1.98
31347597--31347816	120	1.8	120	89	1	343	28	19	21	30	1.98
31348152--31348230	14	5.5	13	77	14	59	46	30	1	21	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31348152--31348229	21	3.6	21	73	11	68	47	30	1	20	1.58
31348181--31348295	59	1.9	59	83	13	148	46	26	1	25	1.62
31348137--31348418	152	1.8	153	89	3	442	47	26	2	23	1.66
31348124--31348332	109	1.9	109	80	5	244	47	26	2	23	1.64
31348311--31348381	22	3.3	21	71	13	63	47	29	2	19	1.64
31348726--31348751	3	8.7	3	100	0	52	69	0	0	30	0.89
31348920--31349186	114	2.3	114	82	6	301	35	17	17	29	1.93
31349978--31350020	22	2.0	22	95	0	77	48	16	4	30	1.66
31351242--31351431	94	2.0	94	98	0	371	40	14	12	33	1.82
31351647--31351698	15	3.5	15	80	15	72	48	0	1	50	1.12
31351846--31352009	9	18.7	9	73	12	92	46	18	0	33	1.54
31351854--31352003	43	3.4	43	87	3	194	47	19	0	32	1.54
31351906--31351995	36	2.5	35	87	7	128	45	20	1	33	1.58
31351852--31351998	79	1.9	76	83	7	186	48	18	0	32	1.53
31357903--31358181	43	6.6	42	79	6	296	24	19	25	29	1.98
31357915--31358178	125	2.1	127	85	4	345	24	19	25	30	1.98
31357903--31358180	86	3.3	85	84	5	348	24	19	25	29	1.99
31359853--31359912	23	2.7	23	80	7	63	48	0	1	50	1.11
31364177--31364245	32	2.2	32	84	7	88	28	14	14	42	1.85
31367174--31367225	10	5.1	10	83	2	59	23	5	1	69	1.20
31368921--31368981	30	2.0	30	90	0	95	18	24	34	22	1.96
31372978--31373050	16	4.2	17	69	17	60	65	1	32	0	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31372980--31373020	21	1.9	22	90	5	66	60	2	36	0	1.10
31372992--31373083	31	2.9	31	81	12	82	66	1	31	1	1.06
31373022--31373087	34	1.9	34	85	11	91	66	0	31	1	1.01
31373668--31373741	30	2.5	30	93	2	123	12	33	31	22	1.91
31381835--31381900	33	2.0	33	100	0	132	60	9	9	21	1.54
31387669--31387733	10	6.8	10	69	20	50	26	1	1	70	1.04
31387641--31387725	35	2.5	35	83	7	95	21	3	1	74	1.04
31387679--31387742	20	3.2	20	80	13	69	23	3	1	71	1.08
31387672--31387740	28	2.5	27	83	6	93	24	2	1	71	1.09
31387672--31387732	12	5.2	11	71	21	52	24	1	1	72	1.03
31389594--31389645	10	5.1	10	83	2	59	23	5	1	69	1.20
31391005--31391211	70	3.0	70	87	3	310	34	26	14	25	1.94
31398186--31398263	3	26.0	3	89	0	120	0	28	0	71	0.86
31402911--31403030	59	2.0	59	80	7	136	26	18	22	32	1.97
31404949--31404986	19	2.0	19	90	10	60	21	7	0	71	1.11
31410058--31410106	23	2.1	23	85	7	64	20	4	4	71	1.19
31418569--31418621	26	2.0	26	100	0	106	15	22	18	43	1.87
31418933--31418981	15	3.1	15	83	11	71	28	12	10	48	1.73
31421549--31421588	20	2.0	20	95	0	71	20	32	32	15	1.93
31422737--31422766	11	2.6	11	94	5	51	43	0	20	36	1.52
31429143--31429218	40	1.9	40	86	0	107	21	13	27	38	1.90
31438894--31438937	6	7.5	6	89	5	72	84	0	15	0	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31442666--31442817	43	3.5	42	80	4	153	32	26	15	25	1.95
31442722--31442817	44	2.2	42	87	7	131	33	28	16	21	1.95
31448939--31448979	20	2.0	20	95	0	73	26	14	17	41	1.88
31451892--31451968	39	2.0	39	94	0	136	41	18	5	35	1.73
31462751--31462966	47	4.6	49	87	4	286	28	30	8	32	1.87
31462751--31462967	96	2.3	94	86	1	299	28	30	8	32	1.87
31466304--31466686	40	9.6	40	88	4	558	25	27	22	24	2.00
31473862--31473921	18	3.4	17	73	13	59	50	1	25	23	1.59
31477817--31478618	2	401.0	2	100	0	1604	0	0	50	50	1.00
31479244--31479469	66	3.4	66	100	0	452	46	15	10	27	1.78
31479244--31479469	33	6.8	34	66	25	137	46	15	10	27	1.78
31480117--31480173	24	2.4	24	87	0	78	17	31	29	21	1.96
31481121--31481159	20	2.0	20	84	0	51	48	23	23	5	1.70
31484049--31484098	23	2.2	23	100	0	100	28	24	8	40	1.83
31485940--31486011	37	1.9	37	97	0	135	26	16	13	43	1.86
31487594--31487763	46	3.7	46	77	10	202	31	28	18	21	1.97
31487601--31487772	93	1.8	93	93	0	299	29	28	19	22	1.98
31495461--31495604	57	2.5	58	71	3	139	30	18	23	27	1.97
31506082--31506130	21	2.4	21	80	12	57	67	10	0	22	1.20
31506744--31506784	20	2.2	20	86	8	59	43	2	4	48	1.37
31507008--31507065	28	2.3	24	75	25	66	50	0	10	39	1.37
31507232--31507286	27	2.0	28	85	3	76	25	3	21	49	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31507583--31507627	15	2.9	16	81	12	58	51	2	0	46	1.13
31515349--31515393	23	1.9	23	86	4	63	57	15	22	4	1.56
31515496--31515528	2	16.5	2	100	0	66	0	51	0	48	1.00
31518056--31518206	76	2.0	75	94	0	257	39	13	25	20	1.89
31519471--31519515	23	2.0	23	82	8	56	37	8	13	40	1.76
31523451--31523614	42	3.9	42	83	2	195	28	13	25	32	1.93
31530001--31530035	16	2.2	16	100	0	70	28	5	11	54	1.59
31530121--31530186	29	2.2	30	86	2	89	46	4	4	43	1.44
31535184--31535234	26	2.0	26	84	0	66	58	7	0	33	1.27
31537118--31537142	3	8.3	3	100	0	50	32	0	36	32	1.58

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