genome.fa.s20.2.7.7.80.10.50.1000.169.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  169  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)
56099967--56100033	30	2.2	30	97	2	125	26	23	16	32	1.96
56100301--56100325	13	1.9	13	100	0	50	40	24	4	32	1.73
56104542--56104579	19	2.0	20	85	15	53	44	21	0	34	1.52
56107162--56107190	13	2.3	13	94	5	51	31	0	20	48	1.50
56112382--56112450	31	2.2	31	89	0	111	44	13	10	31	1.76
56115779--56115830	27	1.9	27	88	0	77	28	34	19	17	1.94
56128853--56128955	43	2.4	42	85	9	138	33	28	18	20	1.96
56129899--56129957	29	2.0	29	96	0	109	35	28	3	32	1.74
56132457--56132513	21	2.8	21	89	2	80	63	14	3	19	1.44
56132473--56132519	21	2.2	21	96	0	85	57	14	4	23	1.55
56135218--56135493	91	3.0	90	78	5	293	26	14	22	36	1.93
56135466--56135545	38	2.1	38	83	0	97	26	16	22	35	1.95
56137043--56137088	11	4.3	10	83	10	56	17	2	4	76	1.06
56137043--56137088	5	8.6	5	88	7	56	17	2	4	76	1.06
56137043--56137088	16	2.9	15	83	9	56	17	2	4	76	1.06
56144180--56145097	100	9.2	100	85	2	882	32	22	20	25	1.98
56144180--56145097	299	3.1	299	82	2	1052	32	22	20	25	1.98
56144180--56145097	200	4.6	199	84	2	996	32	22	20	25	1.98
56144193--56145053	50	17.2	50	70	3	381	32	22	20	24	1.98
56145152--56145477	44	7.6	42	77	6	296	30	21	20	27	1.98
56145122--56145529	85	4.8	85	74	9	319	31	19	21	27	1.97
56145124--56145535	129	3.2	129	94	0	673	32	20	20	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56148793--56148823	9	3.4	9	90	0	53	25	12	22	38	1.90
56151510--56151580	35	2.1	34	82	12	83	49	4	0	46	1.21
56157963--56157991	13	2.2	13	100	0	58	13	10	31	44	1.78
56162725--56162774	17	3.0	17	75	19	52	16	2	8	74	1.15
56162727--56162781	18	3.2	18	77	15	62	16	1	9	72	1.18
56162883--56162917	3	11.7	3	100	0	70	34	0	0	65	0.93
56174381--56174429	27	1.9	24	88	12	71	48	18	18	14	1.80
56175587--56175620	13	2.6	13	90	0	50	41	35	0	23	1.55
56175736--56175776	9	4.6	9	84	0	55	26	9	21	41	1.84
56175728--56175794	18	3.7	18	88	4	82	28	5	20	44	1.75
56175728--56175794	27	2.5	27	78	9	73	28	5	20	44	1.75
56179570--56179629	21	2.8	21	85	12	77	65	0	5	30	1.14
56179570--56179621	22	2.3	22	90	9	79	67	0	3	28	1.08
56180090--56180256	92	1.8	91	83	8	223	35	9	15	39	1.80
56180365--56180490	62	2.0	63	93	1	218	45	18	7	28	1.77
56182633--56182666	3	11.7	3	93	6	61	29	0	0	70	0.87
56185862--56185924	31	2.0	31	96	0	117	36	11	22	30	1.89
56190362--56190415	23	2.4	23	81	3	65	33	18	24	24	1.97
56190386--56190477	48	2.0	47	86	4	132	35	16	21	26	1.94
56190349--56190476	24	5.4	24	71	8	84	35	15	22	25	1.94
56190646--56191005	67	5.4	67	90	0	549	42	19	1	35	1.63
56192946--56193004	30	2.0	30	86	3	84	22	15	20	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56193301--56193466	51	3.3	51	95	0	287	27	28	0	43	1.55
56193467--56193533	30	2.2	31	94	2	118	32	0	0	67	0.91
56193481--56193523	20	2.2	19	87	4	59	30	0	0	69	0.88
56193609--56193671	18	3.5	18	68	20	51	34	0	3	61	1.12
56195345--56195526	55	3.3	55	93	3	305	37	10	5	46	1.63
56195510--56195534	10	2.5	10	100	0	50	44	8	0	48	1.32
56196080--56196423	124	2.8	123	90	2	530	34	19	16	29	1.94
56201476--56201530	27	2.0	27	100	0	110	36	25	7	30	1.83
56202297--56202335	15	2.7	15	92	4	62	46	30	12	10	1.75
56206283--56206324	21	2.0	21	90	0	66	23	21	16	38	1.93
56206915--56207106	94	2.0	94	86	2	269	35	8	22	33	1.84
56208078--56208140	30	2.1	30	83	16	78	53	3	7	34	1.46
56218768--56218806	20	2.0	20	85	5	53	41	5	41	12	1.65
56228749--56228790	16	2.6	16	85	7	59	28	2	4	64	1.26
56239954--56240174	23	9.5	24	75	6	222	27	19	15	37	1.92
56239940--56240174	46	5.1	46	95	0	425	27	19	14	37	1.91
56252441--56252548	54	2.0	54	100	0	216	27	27	22	22	1.99
56253171--56253210	6	6.7	6	97	0	53	42	7	50	0	1.30
56253170--56253210	12	3.4	12	89	0	64	41	9	48	0	1.36
56254421--56254453	3	11.0	3	100	0	66	66	0	0	33	0.92
56261639--56261676	18	2.1	19	85	14	53	60	2	2	34	1.24
56272169--56272220	24	2.1	25	96	3	97	46	17	19	17	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56275604--56275631	13	2.2	13	100	0	56	25	14	14	46	1.82
56288225--56288265	21	2.0	21	90	0	64	29	21	29	19	1.98
56295373--56295403	3	10.3	3	100	0	62	64	0	0	35	0.94
56305421--56305453	16	2.1	16	94	0	57	48	0	18	33	1.48
56305565--56305609	20	2.1	22	84	8	58	33	2	4	60	1.29
56305818--56305876	31	1.9	31	89	6	93	42	16	6	33	1.75
56307657--56307690	6	5.7	6	96	0	59	17	2	32	47	1.63
56307657--56307696	18	2.2	18	86	0	53	20	5	30	45	1.72
56314100--56314148	24	2.0	24	84	7	64	6	2	28	63	1.30
56314392--56314433	19	2.2	19	83	8	50	38	16	2	42	1.61
56315675--56315715	14	3.0	14	86	10	50	56	7	4	31	1.48
56316779--56316814	17	2.1	17	100	0	72	41	16	5	36	1.72
56320897--56320955	22	2.7	21	81	5	55	40	0	16	42	1.49
56321048--56321083	6	6.0	6	100	0	72	66	0	16	16	1.25
56322976--56323072	48	2.0	48	95	0	176	35	17	12	35	1.87
56324140--56324236	48	2.0	48	95	0	176	35	17	12	35	1.87
56325549--56325574	5	5.2	5	100	0	52	80	0	0	19	0.71
56328026--56328066	19	2.2	19	90	0	64	58	2	0	39	1.11
56328288--56328325	16	2.4	16	82	4	51	31	0	5	63	1.17
56329939--56329991	22	2.4	22	78	9	54	32	5	0	62	1.19
56334038--56334140	42	2.5	42	80	0	125	17	26	16	39	1.90
56335452--56335615	44	3.6	44	81	11	211	31	21	14	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56335502--56335599	51	1.9	51	93	0	169	32	21	14	31	1.93
56351881--56351945	33	2.0	33	100	0	130	24	29	21	24	1.99
56358915--56358947	16	1.9	17	88	11	50	42	0	30	27	1.56
56365950--56365980	16	1.9	16	100	0	62	6	29	0	64	1.18
56373938--56374073	21	6.5	21	73	14	102	58	0	2	38	1.15
56373953--56374082	11	12.4	11	71	20	100	59	0	2	38	1.10
56374021--56374092	31	2.4	30	90	6	119	56	0	1	41	1.07
56395362--56395467	52	2.0	52	100	0	212	40	15	1	42	1.57
56395370--56395453	26	3.2	26	64	12	73	40	13	1	45	1.51
56397045--56397113	29	2.3	29	87	5	93	49	13	15	21	1.79
56430387--56430477	45	2.0	45	97	0	173	17	13	17	51	1.76
56430851--56430894	19	2.3	19	92	0	70	52	11	9	27	1.67
56435984--56436008	11	2.3	11	100	0	50	84	0	0	16	0.63
56436625--56436665	7	5.9	7	97	0	64	34	0	7	58	1.26
56444461--56444680	40	5.6	40	84	4	268	25	26	23	24	2.00
56455547--56455695	39	3.7	39	75	11	138	44	6	8	40	1.60
56459916--56460159	60	4.1	60	99	0	479	44	8	25	20	1.80
56463093--56463278	92	2.0	92	97	0	354	39	17	4	38	1.70
56467215--56467274	30	2.0	30	90	0	93	30	25	8	36	1.85
56473597--56473865	46	5.7	46	71	10	161	29	17	28	24	1.97
56482375--56482591	40	5.5	40	93	2	350	24	23	27	24	2.00
56492872--56492902	16	1.9	16	93	0	53	45	6	0	48	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56502357--56502537	100	1.8	101	86	3	267	32	13	17	37	1.89
56506201--56506287	27	3.2	27	82	6	88	35	21	24	18	1.95
56519867--56519979	41	2.8	41	90	0	181	33	25	23	17	1.96
56520108--56520157	25	2.0	25	100	0	100	44	4	8	44	1.52
56521407--56521809	201	2.0	201	99	0	788	33	11	23	31	1.90
56524020--56524053	17	1.9	18	94	5	61	35	11	29	23	1.90
56524376--56524603	43	5.3	43	80	2	244	26	18	24	30	1.98
56524376--56524603	84	2.7	85	82	1	278	26	18	24	30	1.98
56530263--56530316	19	2.8	20	83	10	60	25	3	3	66	1.25
56530886--56530937	20	2.6	19	80	14	61	28	5	0	65	1.16

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