genome.fa.s4.2.7.7.80.10.50.1000.149.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   

This is table  149  of  235  ( 28198 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)
50029692--50029836	21	6.8	22	72	19	87	60	1	12	25	1.40
50029816--50029890	34	2.3	31	82	11	80	61	0	12	26	1.31
50029554--50029890	5	66.0	5	68	20	114	62	1	12	24	1.39
50029672--50029891	59	3.7	58	76	17	170	60	1	12	25	1.40
50030485--50030524	20	2.0	20	95	0	71	50	10	2	37	1.50
50034829--50034876	6	7.7	6	88	2	60	77	4	0	18	0.93
50036480--50036533	3	18.3	3	85	14	69	70	0	0	29	0.88
50036480--50036531	14	3.8	14	80	19	65	71	0	0	28	0.87
50040815--50040874	14	4.4	14	78	4	59	45	33	0	21	1.52
50040815--50040873	7	8.6	7	70	10	50	45	33	0	20	1.51
50041085--50041179	50	1.9	50	84	0	127	48	24	2	25	1.62
50041634--50041745	7	16.1	7	74	8	95	42	39	0	16	1.55
50041761--50041849	40	2.2	40	82	4	108	28	24	21	25	1.99
50041782--50042079	115	2.6	114	86	2	418	30	21	18	29	1.97
50042015--50042100	40	2.2	40	80	0	100	27	20	17	33	1.95
50043489--50043538	19	2.6	19	93	3	82	36	8	22	34	1.83
50044637--50044682	21	2.2	21	100	0	92	56	0	4	39	1.19
50049642--50049679	18	2.1	19	90	5	60	21	21	5	52	1.66
50056084--50056153	34	2.1	34	97	0	131	28	24	21	25	1.99
50063778--50063847	34	2.1	34	83	0	86	32	21	17	28	1.96
50063981--50064027	21	2.2	21	92	0	76	31	21	25	21	1.98
50067561--50067663	43	2.4	43	76	0	107	29	26	16	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50067946--50067994	19	2.6	19	80	0	53	69	2	2	26	1.10
50070703--50070855	79	1.9	80	82	10	195	37	7	33	21	1.82
50071013--50071046	18	1.9	18	88	5	52	44	2	2	50	1.32
50071455--50071490	15	2.5	15	90	4	56	72	22	0	5	1.05
50071457--50071490	7	4.7	7	89	7	50	73	23	0	2	0.97
50071457--50071503	22	2.1	22	84	7	60	68	25	0	6	1.13
50072087--50072127	14	2.9	15	86	10	52	41	43	0	14	1.45
50072095--50072189	21	4.5	21	77	9	77	45	35	1	17	1.56
50072085--50072134	14	3.6	14	79	10	50	40	48	0	12	1.40
50072133--50072159	14	1.9	14	100	0	54	44	29	3	22	1.70
50072115--50072190	35	2.2	35	83	4	91	46	32	1	19	1.59
50072214--50072292	40	2.0	40	90	5	124	26	22	24	26	2.00
50072226--50072523	115	2.6	115	88	1	445	31	20	18	29	1.96
50073933--50073983	19	2.6	19	93	3	84	33	13	23	29	1.93
50075089--50075134	21	2.2	21	92	0	74	58	2	2	36	1.22
50082210--50082256	21	2.2	21	88	0	67	31	19	23	25	1.98
50082522--50082558	18	2.1	19	85	10	51	18	43	27	10	1.83
50088741--50088933	91	2.1	91	98	0	368	35	18	17	29	1.93
50097375--50097462	44	2.0	42	91	4	140	59	5	0	35	1.21
50113394--50113441	22	2.2	22	84	0	60	27	14	10	47	1.76
50113401--50113444	22	2.0	22	95	0	79	25	13	11	50	1.75
50116111--50116156	23	2.0	23	95	0	83	34	32	8	23	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50116185--50116209	12	2.1	12	100	0	50	64	16	0	20	1.30
50117361--50117393	16	2.0	17	88	5	50	51	18	9	21	1.73
50120590--50120621	16	2.0	16	93	0	55	59	9	0	31	1.29
50130041--50130419	193	2.0	191	87	4	548	34	25	8	31	1.85
50133398--50133469	36	2.0	37	94	2	128	23	30	18	27	1.97
50135953--50136039	43	2.0	43	90	0	138	21	19	32	26	1.97
50146760--50146784	13	1.9	13	100	0	50	32	20	16	32	1.94
50147334--50147511	27	6.6	26	82	6	178	26	15	28	29	1.96
50147335--50147490	82	1.9	81	86	3	224	26	16	28	28	1.97
50147331--50147511	82	2.2	81	82	2	220	27	16	27	29	1.97
50147416--50147522	27	3.9	27	85	1	70	26	14	28	30	1.95
50155417--50155594	27	6.6	27	83	3	205	26	15	28	29	1.96
50155418--50155573	82	1.9	81	88	3	233	26	15	28	29	1.96
50155414--50155594	82	2.2	81	83	2	229	27	15	27	29	1.96
50157519--50157557	17	2.3	17	86	0	60	38	28	10	23	1.87
50165679--50165773	20	4.8	20	73	7	86	33	8	16	41	1.79
50165686--50165807	59	2.1	58	80	6	138	33	9	17	40	1.81
50166457--50166538	29	2.7	30	78	12	80	54	10	9	24	1.65
50169574--50169622	23	2.1	23	96	0	89	32	6	16	44	1.72
50179433--50179483	20	2.5	20	100	0	102	27	0	0	72	0.85
50183098--50183153	23	2.4	23	93	0	94	57	8	8	25	1.58
50183190--50183245	24	2.2	25	84	6	69	71	19	3	5	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50183615--50183662	22	2.2	20	80	20	60	0	10	14	75	1.06
50187881--50188185	151	2.0	151	98	0	592	37	14	26	21	1.92
50189631--50189892	40	6.6	40	91	2	377	24	20	27	26	1.99
50191615--50191677	29	2.2	29	97	0	117	41	9	17	31	1.82
50201515--50201551	19	2.0	18	89	5	56	59	2	0	37	1.12
50208435--50208484	12	4.1	12	72	23	50	46	4	0	50	1.20
50210692--50210736	20	2.2	20	88	0	63	48	2	13	35	1.54
50212749--50212976	92	2.5	92	87	0	321	31	17	22	28	1.97
50215563--50215687	27	4.9	27	70	15	102	21	12	29	36	1.91
50215540--50215727	75	2.5	75	88	2	281	21	13	28	36	1.92
50217402--50217459	30	1.9	30	96	0	107	24	10	18	46	1.80
50218066--50218237	46	3.7	46	80	11	174	22	29	19	29	1.98
50221175--50221256	40	2.0	40	97	0	155	29	12	19	39	1.88
50222433--50222494	31	2.0	31	100	0	124	19	12	19	48	1.81
50233443--50233704	39	6.7	40	87	7	337	25	22	27	24	2.00
50241456--50241719	40	6.7	40	89	5	360	25	21	27	25	1.99
50241456--50241752	119	2.5	118	81	9	338	26	21	27	25	1.99
50244130--50244343	46	4.6	46	78	11	190	21	28	20	29	1.98
50255896--50256035	40	3.5	39	75	13	133	26	27	21	25	1.99
50263305--50263485	40	4.6	40	81	6	181	26	27	20	25	1.99
50269099--50269178	40	2.0	40	100	0	160	40	5	17	37	1.72
50271289--50271328	21	2.0	21	85	5	55	20	25	40	15	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50272501--50272624	49	2.5	49	83	7	162	20	24	22	32	1.98
50272644--50272858	46	4.6	47	78	6	213	21	28	19	31	1.97
50272644--50272855	48	4.5	48	78	7	166	21	28	18	31	1.97
50272644--50272869	94	2.4	94	79	0	245	22	28	18	30	1.97
50276962--50277013	20	2.5	21	75	18	54	32	3	5	57	1.40
50283655--50283700	22	2.1	22	83	0	56	28	2	2	67	1.14
50283666--50283706	11	3.7	11	86	0	55	36	0	2	60	1.10
50283710--50283769	27	2.2	27	85	11	79	36	0	3	60	1.14
50283851--50283889	9	4.3	9	83	0	51	33	2	12	51	1.54
50283851--50283889	18	2.2	18	90	0	60	33	2	12	51	1.54
50288013--50288051	21	1.9	21	94	5	71	20	30	17	30	1.96
50299697--50299721	5	5.0	5	100	0	50	20	0	0	80	0.72
50306259--50306306	17	2.8	17	84	9	62	54	14	0	31	1.41
50309428--50309511	26	3.2	26	96	0	150	35	23	5	34	1.80
50310094--50310135	22	1.9	22	85	9	59	66	11	7	14	1.43
50316921--50317131	112	1.9	116	82	6	270	52	12	4	30	1.58
50317293--50317341	14	3.3	15	82	8	64	75	6	0	18	1.00
50317291--50317360	30	2.2	30	80	14	79	71	5	4	18	1.23
50317613--50317721	19	5.8	19	76	14	84	62	0	4	33	1.16
50317670--50317732	23	2.7	24	78	14	69	66	1	1	30	1.10
50317615--50317749	11	12.5	11	71	17	88	62	0	3	32	1.18
50317630--50317749	12	8.6	14	71	24	78	63	0	3	32	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50317615--50317749	34	4.2	33	76	15	122	62	0	3	32	1.18
50317612--50317749	68	2.0	67	82	6	163	63	0	3	32	1.17
50317736--50317774	21	2.0	21	85	10	55	46	2	2	48	1.29
50317780--50317832	25	2.2	24	86	10	72	69	0	0	30	0.88
50320141--50320250	26	4.2	26	94	2	168	37	22	5	34	1.78
50321753--50322013	45	5.8	46	68	19	167	27	27	14	30	1.96
50321768--50322267	90	5.6	90	89	0	768	27	26	14	31	1.95
50321820--50322238	45	9.3	44	67	14	248	27	25	14	32	1.95
50333334--50333381	14	3.4	14	85	0	60	43	6	31	18	1.75
50335578--50335626	14	3.3	15	82	8	64	75	4	0	20	0.96

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235