genome.fa.s12.2.7.7.80.10.50.1000.292.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: A12
Parameters: 2 7 7 80 10 50 1000
Length:  103038859

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   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   

This is table  292  of  320  ( 38372 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)
93416419--93417983	781	2.0	780	99	0	3121	33	19	9	38	1.84
93418015--93418385	46	8.0	46	86	2	424	22	23	13	40	1.90
93420563--93420612	21	2.5	20	84	9	75	46	4	0	50	1.20
93422472--93422622	3	49.3	3	71	6	90	58	3	5	31	1.40
93422472--93422619	12	12.3	12	76	13	117	58	4	6	31	1.41
93422501--93422619	37	3.3	37	79	15	167	57	4	5	31	1.41
93422482--93422619	71	2.0	70	94	1	240	58	4	5	31	1.41
93422504--93422632	34	3.7	34	69	17	102	58	3	5	32	1.39
93423383--93423447	19	3.4	19	75	12	60	69	6	3	21	1.25
93425017--93425059	19	2.3	19	84	8	52	37	9	9	44	1.69
93426039--93426113	31	2.5	31	75	14	75	45	2	4	48	1.35
93427315--93427406	44	2.1	44	82	8	107	20	22	22	33	1.97
93428087--93428147	29	2.1	29	96	0	113	31	0	22	45	1.53
93428087--93428135	16	3.2	16	69	16	50	32	0	20	46	1.51
93428449--93428503	21	2.6	21	88	0	74	23	23	29	23	1.99
93431401--93431600	52	3.9	52	79	12	195	25	16	28	30	1.97
93431411--93431580	53	3.4	48	76	16	116	26	17	26	29	1.98
93432352--93432406	20	2.8	20	94	0	101	18	34	32	14	1.91
93432758--93432805	3	16.0	3	82	8	62	66	2	29	2	1.14
93436571--93437049	48	10.0	48	94	0	796	36	6	25	31	1.82
93437183--93437292	37	3.0	37	91	0	175	24	18	30	26	1.98
93438738--93438832	3	31.3	3	95	2	172	0	34	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93441406--93441437	16	2.0	16	100	0	64	43	12	18	25	1.85
93444201--93444245	17	2.7	17	83	16	67	80	4	0	15	0.87
93455610--93455643	17	2.0	17	94	0	59	44	50	0	5	1.26
93460249--93460282	17	2.0	17	94	0	59	44	50	0	5	1.26
93471537--93471623	44	2.0	44	81	0	102	48	4	6	40	1.51
93472405--93472433	13	2.2	13	100	0	58	31	6	10	51	1.62
93487277--93487370	31	3.0	32	73	6	95	39	11	5	43	1.64
93490377--93490435	28	2.1	28	81	6	66	45	44	3	6	1.47
93490376--93490423	21	2.3	21	82	3	62	45	43	4	6	1.48
93499197--93499231	14	2.5	14	85	0	52	54	8	0	37	1.31
93499216--93499254	20	2.0	20	85	10	53	53	12	0	33	1.39
93499257--93499324	3	23.3	3	75	11	52	69	1	2	26	1.12
93499277--93499324	21	2.2	22	85	3	62	72	2	2	22	1.05
93499340--93499404	23	2.7	25	70	20	66	53	9	3	33	1.48
93499545--93499583	13	2.9	13	88	3	51	69	0	2	28	1.02
93499721--93499785	20	3.1	21	79	14	64	56	6	1	35	1.33
93499733--93499795	26	2.5	24	80	16	74	58	4	1	34	1.29
93499868--93499924	3	18.7	3	75	10	53	61	0	3	35	1.13
93502770--93502922	52	2.9	53	90	3	231	28	28	18	24	1.98
93507955--93507986	16	2.0	16	100	0	64	12	12	25	50	1.75
93508100--93508318	45	4.9	45	94	0	339	38	15	20	25	1.92
93511744--93511775	16	2.0	16	93	0	55	15	12	21	50	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93511889--93512151	45	5.9	45	92	0	402	39	15	19	25	1.91
93512971--93513189	45	4.9	45	91	0	330	25	19	15	39	1.91
93512971--93513189	90	2.4	90	92	0	375	25	19	15	39	1.91
93513303--93513334	16	2.0	16	100	0	64	50	25	12	12	1.75
93525362--93525431	26	2.7	24	73	18	61	50	1	7	41	1.39
93537527--93537613	43	2.0	43	100	0	174	44	6	6	41	1.58
93539312--93539351	19	2.1	19	86	9	55	30	0	0	70	0.88
93543382--93543416	17	2.1	16	89	5	52	74	5	5	14	1.19
93544964--93545598	131	4.8	130	83	4	647	28	18	17	35	1.94
93544980--93545598	261	2.4	262	80	6	693	28	18	17	35	1.94
93549849--93549905	9	6.2	9	89	2	69	75	0	24	0	0.80
93549862--93549909	3	16.0	3	95	0	87	68	0	31	0	0.90
93551320--93551784	44	10.6	44	91	0	680	28	15	31	24	1.95
93551320--93552115	132	6.2	132	84	4	908	29	14	30	25	1.95
93551706--93551856	73	2.1	74	89	1	232	29	11	33	25	1.92
93551755--93551814	30	2.0	29	93	3	102	38	11	31	18	1.87
93551662--93552031	117	3.0	116	81	9	418	28	13	31	26	1.94
93551618--93551946	161	2.0	162	91	0	525	28	13	31	26	1.94
93551779--93552084	88	3.5	88	84	3	377	27	13	31	27	1.94
93551584--93551988	205	2.0	206	90	0	632	28	13	31	26	1.94
93551289--93552031	249	2.9	248	86	4	853	28	14	31	25	1.95
93551793--93552115	174	1.8	176	84	3	438	29	13	29	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93551779--93552115	44	7.7	44	81	2	338	29	13	30	27	1.94
93551786--93552120	130	2.6	132	84	3	372	29	13	30	27	1.94
93552327--93552361	17	2.1	16	89	5	52	74	2	5	17	1.14
93553930--93553965	7	5.1	7	100	0	72	27	0	13	58	1.36
93554976--93555475	131	3.8	130	78	8	485	28	18	17	35	1.93
93561238--93561367	35	3.7	35	81	4	129	33	12	22	32	1.91
93564745--93564771	14	1.9	14	100	0	54	25	7	29	37	1.83
93565552--93565722	93	1.8	93	93	0	297	21	21	29	28	1.98
93565556--93565727	46	3.7	46	77	13	199	21	21	28	28	1.99
93566594--93566636	20	2.2	20	82	0	50	53	2	4	39	1.34
93569651--93569778	35	3.6	36	78	3	127	32	22	10	33	1.89
93571992--93572028	16	2.2	17	90	4	58	54	0	0	45	1.00
93571995--93572035	16	2.6	16	84	3	57	56	0	0	43	0.99
93572074--93572107	17	2.0	17	88	11	52	70	2	0	26	1.01
93574404--93574469	21	3.2	21	80	2	71	33	3	4	59	1.33
93574445--93574495	24	2.0	25	85	11	68	47	0	3	49	1.20
93580309--93580354	23	2.0	24	84	16	62	58	2	4	34	1.30
93585901--93585958	29	2.0	29	100	0	116	55	3	31	10	1.50
93589339--93589378	17	2.4	17	86	0	62	62	5	2	30	1.29
93592325--93592380	30	1.9	30	88	3	87	53	3	12	30	1.55
93592512--93592565	18	2.9	18	91	2	81	59	0	7	33	1.25
93594201--93594377	44	4.1	44	71	10	141	28	22	19	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93594519--93594617	44	2.2	44	78	7	103	28	23	18	30	1.97
93594649--93594958	44	7.1	45	67	13	162	25	24	23	27	2.00
93594616--93595123	174	2.9	173	86	3	673	24	23	24	28	2.00
93594616--93595123	88	5.8	87	86	3	625	24	23	24	28	2.00
93596162--93596208	21	2.2	21	84	0	58	25	36	10	27	1.89
93599845--93599893	19	2.5	20	80	6	57	42	12	18	26	1.85
93601818--93601873	30	1.9	30	88	3	87	53	3	12	30	1.55
93602005--93602058	18	2.9	18	91	2	81	59	0	7	33	1.25
93610179--93610301	33	3.8	33	80	4	135	34	14	20	30	1.93
93611911--93611943	9	3.7	9	91	0	57	39	12	18	30	1.87
93611911--93611945	18	1.9	18	100	0	70	40	11	17	31	1.85
93612300--93612332	12	2.8	12	90	0	57	24	18	0	57	1.40
93612629--93612676	22	2.0	24	84	11	64	58	0	0	41	0.98
93612627--93612694	32	2.1	34	91	5	113	57	0	0	42	0.98
93612751--93612785	17	2.1	17	89	5	54	40	0	0	60	0.97
93612737--93612790	28	1.9	28	81	7	65	46	0	0	53	1.00
93615794--93615862	35	2.0	35	97	0	129	17	49	11	21	1.78
93616522--93616580	3	19.7	3	79	6	66	32	0	1	66	1.02
93616679--93616727	3	16.3	3	100	0	98	32	0	0	67	0.91
93616917--93616971	22	2.5	23	77	13	62	43	0	3	52	1.18
93619496--93619525	14	2.1	14	93	0	51	6	20	3	70	1.25
93621897--93621940	3	14.7	3	100	0	88	34	0	31	34	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93623907--93623936	14	2.1	14	93	0	51	30	0	0	70	0.88
93625227--93625379	81	1.9	77	90	5	243	32	12	9	45	1.74
93633970--93633995	13	2.0	13	100	0	52	84	0	0	15	0.62
93634207--93634231	5	5.0	5	100	0	50	80	0	0	20	0.72
93640432--93640478	18	2.7	17	83	9	60	40	0	0	59	0.97
93643517--93643613	3	32.7	3	76	13	85	28	4	1	65	1.17
93643917--93643947	5	6.4	5	92	7	55	19	0	0	80	0.71
93643917--93643957	15	2.7	14	85	14	55	19	0	2	78	0.87
93643997--93644040	3	14.7	3	80	0	52	36	4	0	59	1.18
93645578--93645633	23	2.5	22	81	16	62	39	14	8	37	1.77

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   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320