genome.fa.s20.2.7.7.80.10.50.1000.2.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  2  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)
472291--472316	10	2.6	10	100	0	52	42	23	0	34	1.54
475504--475575	21	3.1	21	64	21	54	45	4	26	23	1.71
475492--475587	48	2.0	48	97	0	183	43	5	27	23	1.75
476229--476514	140	2.0	141	87	0	412	34	13	21	29	1.92
479710--479755	22	2.1	22	100	0	92	34	21	13	30	1.91
480484--480594	54	2.1	54	100	0	222	29	10	14	45	1.79
481664--481715	25	2.0	26	85	3	70	30	17	15	36	1.91
486577--486644	23	2.9	22	75	18	66	4	19	0	76	0.95
486589--486644	23	2.4	24	80	20	73	5	19	0	75	1.00
487008--487133	60	2.1	60	92	1	209	16	50	1	30	1.55
487094--487192	49	2.0	49	98	0	189	23	51	3	22	1.62
487397--487485	41	2.2	41	95	0	160	60	6	3	29	1.38
488354--488385	15	2.1	15	100	0	64	34	12	0	53	1.39
497318--497379	28	2.2	28	97	0	115	19	22	22	35	1.96
497655--497852	27	7.3	27	88	0	252	29	23	6	39	1.80
497655--497852	81	2.4	81	91	0	306	29	23	6	39	1.80
497844--498034	27	7.1	27	77	11	142	40	21	8	29	1.83
497884--498088	54	3.8	54	76	6	146	41	19	7	31	1.79
498137--498210	27	2.7	27	76	12	71	37	20	20	21	1.94
498150--498214	27	2.4	27	82	5	78	35	18	24	21	1.96
498540--498587	19	2.5	19	89	0	69	25	16	35	22	1.95
499042--499111	25	2.8	24	91	4	104	24	28	24	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
499041--499124	25	3.4	24	83	8	98	27	25	23	23	2.00
499259--499350	42	2.2	42	96	0	166	32	15	19	32	1.93
499381--499457	31	2.5	31	93	2	129	27	16	27	28	1.97
503307--503440	66	2.0	66	95	0	241	38	12	7	41	1.71
507266--507312	23	2.0	23	100	0	94	38	12	12	36	1.82
515913--515960	16	3.0	16	87	0	69	50	25	8	16	1.73
517061--517103	8	5.4	8	78	10	52	51	20	20	6	1.71
517061--517103	16	2.7	16	88	0	68	51	20	20	6	1.71
517313--517412	29	3.5	29	83	1	121	29	13	27	31	1.93
520978--521033	27	2.1	27	100	0	112	19	17	14	48	1.81
523835--524006	93	1.8	93	88	2	265	28	28	20	22	1.99
523827--524001	46	3.8	45	75	10	174	29	28	20	22	1.98
526406--526465	30	2.0	30	90	6	95	58	16	15	10	1.63
526406--526465	15	4.0	15	80	8	77	58	16	15	10	1.63
540493--540715	46	4.8	45	78	10	195	22	30	19	27	1.98
547239--547280	16	2.6	16	88	0	66	50	28	4	16	1.66
561315--561645	49	6.9	48	97	1	596	29	29	8	32	1.87
563483--563864	191	2.0	192	98	0	739	25	22	10	40	1.86
564625--564677	24	2.3	23	84	12	72	50	16	20	11	1.76
564886--565000	29	4.0	28	79	2	113	29	15	26	27	1.96
564901--565009	57	1.9	58	84	1	148	29	16	27	26	1.97
568658--568703	24	1.9	24	90	0	74	52	21	17	8	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
571659--571841	79	2.3	81	85	7	241	25	27	22	24	2.00
571638--571841	40	5.1	40	83	8	247	25	27	22	24	1.99
589932--590031	29	3.5	29	83	1	121	28	17	28	27	1.97
589932--590040	57	1.9	57	84	1	146	28	16	28	26	1.97
590578--590620	21	2.0	21	82	8	52	30	2	6	60	1.35
592952--593034	43	1.9	43	85	0	112	31	15	24	28	1.96
600240--600286	24	1.9	25	82	4	60	68	4	2	25	1.19
611376--611687	40	7.8	40	94	0	509	30	27	19	22	1.98
619512--619773	39	6.7	40	88	7	337	24	27	22	25	2.00
623559--624084	262	2.0	262	98	0	1016	34	15	13	36	1.88
633123--633228	40	2.6	42	78	3	117	36	17	16	28	1.93
636763--636831	27	2.6	27	90	0	102	27	14	28	28	1.95
636763--636844	27	3.0	27	85	3	94	30	13	25	30	1.94
636819--636966	44	3.3	44	63	19	106	29	16	23	30	1.97
636816--636996	91	2.0	91	98	0	353	29	17	24	28	1.97
638896--639471	50	11.6	49	68	5	296	34	20	19	25	1.96
638896--639453	99	5.6	99	88	2	685	34	20	19	25	1.96
639672--640047	129	2.9	127	83	3	448	30	19	21	27	1.98
639541--639967	44	9.8	44	71	8	214	30	20	21	26	1.98
639928--640011	44	1.9	44	82	4	107	36	16	17	28	1.92
640007--640142	68	2.0	68	98	0	263	25	15	22	37	1.93
640507--640655	75	2.0	77	95	2	275	26	23	20	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
641705--641743	16	2.4	16	91	0	60	35	12	2	48	1.55
641703--641767	34	1.9	34	83	0	85	33	15	4	46	1.66
644384--644567	40	4.7	40	81	11	195	25	27	21	25	2.00
644384--644567	79	2.3	80	81	11	211	25	27	21	25	2.00
652520--652703	40	4.7	40	81	11	195	25	26	22	26	2.00
652520--652703	79	2.3	82	81	11	215	25	26	22	26	2.00
654925--654975	26	2.0	26	96	0	93	31	7	21	39	1.82
662641--662691	26	2.0	26	96	0	93	29	9	25	35	1.88
665639--665768	47	2.7	49	86	5	176	22	32	19	26	1.97
670447--670543	50	1.9	50	85	0	131	24	22	23	28	1.99
680001--680128	54	2.4	55	89	7	196	49	8	26	15	1.73
681335--681550	40	5.4	40	90	2	312	24	22	27	25	2.00
689396--689530	40	3.4	40	100	0	270	22	20	28	28	1.99
689510--689550	20	2.0	20	100	0	82	26	24	24	24	2.00
689470--689590	60	2.0	60	100	0	242	23	21	26	28	1.99
689430--689630	100	2.0	100	100	0	402	23	20	26	28	1.99
689396--689670	140	2.0	140	100	0	550	22	20	27	28	1.99
689530--690325	40	19.9	40	98	0	1506	22	20	27	29	1.99
694825--694864	14	2.8	13	85	14	53	77	0	2	20	0.88
727509--727538	15	2.0	15	93	0	51	50	33	13	3	1.58
741347--741848	250	2.0	250	98	0	968	24	23	16	34	1.95
742902--743139	40	6.3	39	78	14	225	25	26	21	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
743877--744020	74	1.9	74	97	0	270	38	25	11	25	1.89
749948--750062	43	2.7	42	82	6	142	29	16	25	28	1.97
753093--753127	18	1.9	18	94	0	61	11	42	28	17	1.83
767355--768139	29	27.1	29	100	0	1570	34	13	10	41	1.79
775554--776338	29	27.1	29	100	0	1570	34	13	10	41	1.79
782245--782349	42	2.5	42	83	7	140	24	19	25	30	1.98
783532--783580	7	7.4	7	76	19	52	55	0	0	44	0.99
783532--783580	13	3.8	13	78	15	57	55	0	0	44	0.99
788004--788121	40	3.0	40	94	0	209	21	19	30	28	1.97
794369--794546	27	6.6	27	84	3	205	29	28	15	26	1.96
794390--794545	82	1.9	81	88	3	233	29	28	15	26	1.96
798675--798852	27	6.6	27	83	3	205	26	15	28	29	1.96
798676--798831	82	1.9	81	88	3	233	26	15	28	29	1.96
798672--798852	82	2.2	81	83	2	229	27	15	27	29	1.96
798757--798863	27	3.9	27	85	1	70	26	14	28	30	1.95
803105--803160	15	3.7	16	88	7	82	60	10	16	12	1.58
806091--806263	93	1.9	93	88	2	267	27	29	21	21	1.98
806084--806259	46	3.8	46	76	11	171	28	28	21	21	1.98
812824--812955	65	2.0	65	92	0	219	33	20	15	30	1.94
812927--813198	47	5.8	47	67	17	136	22	28	19	29	1.98
823651--823739	21	4.1	21	84	5	90	53	10	23	12	1.68
823651--823719	21	3.3	21	87	2	95	55	8	24	11	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
832676--832786	40	2.8	40	91	0	186	25	24	24	26	2.00
832758--832810	26	2.0	26	92	0	88	26	26	24	22	2.00
836209--836362	42	3.7	41	83	6	177	29	14	25	29	1.95
837621--837672	27	2.0	26	84	3	68	34	19	17	28	1.94
837666--838005	27	12.6	27	77	9	219	40	19	9	30	1.83
837682--837943	108	2.4	107	82	7	300	42	19	7	29	1.79
837871--838000	55	2.4	55	80	3	138	43	16	9	31	1.79
838013--838069	27	2.1	27	80	6	62	42	19	17	21	1.90
838254--838374	41	3.0	40	83	8	154	24	19	28	28	1.98
838518--838582	22	3.0	22	77	8	69	20	21	23	35	1.96

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