genome.fa.s9.2.7.7.80.10.50.1000.35.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: A09
Parameters: 2 7 7 80 10 50 1000
Length:  81831061

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   

This is table  35  of  259  ( 31025 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)
10333830--10333870	7	6.1	7	77	11	50	29	0	2	68	1.03
10333812--10333863	19	2.8	20	88	8	74	26	1	1	69	1.10
10333909--10333961	21	2.4	21	87	6	70	24	1	3	69	1.15
10333906--10333972	20	3.4	19	80	11	73	23	1	2	71	1.08
10339604--10339670	31	2.1	32	83	2	82	29	10	13	46	1.76
10344330--10344399	34	2.0	35	88	2	106	50	11	1	37	1.48
10347640--10347694	27	2.0	27	96	0	101	27	21	9	41	1.83
10353257--10353380	47	2.6	47	79	14	148	23	28	19	29	1.98
10353211--10353380	94	1.8	91	84	10	229	24	28	18	28	1.98
10353118--10353377	139	1.9	141	80	8	309	23	28	17	29	1.97
10357461--10357533	33	2.2	33	92	0	119	42	31	2	23	1.68
10359770--10360048	149	1.9	150	92	0	470	35	19	12	32	1.89
10360573--10360634	21	3.0	20	86	9	81	51	1	6	40	1.37
10360867--10360905	20	1.9	21	94	5	71	38	0	25	35	1.56
10368011--10368055	19	2.4	19	96	0	81	37	17	0	44	1.49
10373367--10373530	43	3.8	42	76	9	127	25	18	24	31	1.98
10377523--10377551	14	2.1	14	100	0	58	37	0	0	62	0.96
10379256--10379309	28	1.9	28	85	14	76	61	1	9	27	1.37
10379256--10379328	28	2.8	26	80	17	73	60	1	6	31	1.31
10379330--10379389	28	2.1	30	81	6	70	41	1	11	45	1.50
10382455--10382511	25	2.3	25	84	0	69	42	28	8	21	1.82
10382480--10382612	50	2.8	48	85	6	155	34	27	17	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10382519--10382619	50	2.0	50	92	0	166	32	25	19	21	1.97
10382526--10382635	50	2.2	50	88	0	157	32	26	20	20	1.97
10382523--10382623	25	4.0	25	80	0	130	30	26	20	21	1.98
10384764--10384930	43	3.9	43	77	3	158	34	24	13	26	1.93
10386156--10386252	51	1.9	51	91	0	158	36	17	9	37	1.82
10390121--10390163	22	2.0	20	86	8	59	16	9	2	72	1.21
10394484--10394591	54	2.0	54	92	0	180	32	25	15	26	1.96
10394828--10394877	25	2.0	25	96	0	91	30	12	26	32	1.92
10398681--10398721	17	2.4	17	84	8	57	7	14	4	73	1.22
10400784--10400998	109	2.0	109	97	0	403	28	32	20	18	1.97
10416585--10416756	46	3.7	45	79	10	195	21	19	29	29	1.98
10416577--10416748	93	1.8	93	92	0	290	21	20	29	27	1.98
10420204--10420383	92	2.0	92	87	2	263	30	12	22	35	1.90
10423941--10423989	20	2.5	20	100	0	98	44	4	4	46	1.41
10424200--10424225	13	2.0	13	100	0	52	30	46	23	0	1.53
10425411--10425458	23	2.1	23	88	0	69	33	20	29	16	1.95
10425451--10425510	26	2.3	26	82	5	77	41	21	18	18	1.90
10433208--10433242	18	1.9	18	94	0	61	28	11	25	34	1.91
10433217--10433259	18	2.4	18	84	7	52	37	18	11	32	1.87
10435949--10436001	21	2.6	21	85	8	65	50	18	1	28	1.57
10441281--10441331	17	3.0	17	88	0	66	17	19	15	47	1.83
10441523--10441582	31	1.9	31	89	0	93	30	1	16	51	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10446102--10446257	43	3.7	43	76	6	131	27	19	25	27	1.99
10447017--10447041	13	1.9	13	100	0	50	16	40	36	8	1.77
10453386--10453506	43	2.8	43	81	5	147	27	20	24	27	1.99
10456680--10456887	55	3.8	53	77	6	186	22	25	17	35	1.95
10460886--10460958	36	2.0	36	86	5	103	27	31	19	21	1.97
10461078--10461507	46	9.4	46	89	4	613	29	28	8	33	1.87
10464700--10464748	24	2.0	25	84	7	66	30	30	8	30	1.86
10464920--10465095	38	4.6	39	84	10	195	25	25	22	26	2.00
10464921--10465095	77	2.3	76	81	9	196	25	25	22	26	2.00
10465397--10465475	29	2.7	29	86	5	106	27	32	15	24	1.95
10465457--10465559	43	2.4	43	100	0	206	26	35	15	22	1.94
10467744--10468062	47	6.9	47	90	8	496	30	30	7	31	1.86
10467744--10468062	137	2.3	140	88	7	494	30	30	7	31	1.86
10481686--10481732	3	15.7	3	100	0	94	65	0	0	34	0.93
10490463--10490499	18	2.1	18	94	0	65	21	5	13	59	1.54
10490466--10490509	18	2.4	18	85	7	54	22	4	11	61	1.48
10495509--10495744	101	2.3	101	77	7	239	38	11	19	30	1.87
10496734--10496777	19	2.4	19	84	3	54	68	0	2	29	1.02
10497226--10497262	16	2.4	16	82	8	51	43	0	0	56	0.99
10497649--10497686	5	7.6	5	85	8	51	81	0	15	2	0.80
10497649--10497686	14	2.5	15	83	12	51	81	0	15	2	0.80
10498588--10498649	30	2.1	30	82	11	74	40	3	9	46	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10500866--10500927	31	2.0	31	84	6	81	53	9	9	27	1.65
10506235--10506368	9	15.0	9	74	14	66	32	11	0	55	1.42
10506298--10506367	3	23.7	3	91	2	88	34	7	0	58	1.25
10506280--10506368	9	10.0	9	82	9	69	33	10	1	55	1.41
10506429--10506511	22	3.7	23	74	18	75	32	0	7	60	1.24
10513193--10513235	20	2.2	20	87	8	61	46	6	13	32	1.71
10514617--10514644	13	2.2	13	100	0	56	21	0	21	57	1.41
10515751--10515795	22	2.0	22	100	0	90	42	13	13	31	1.82
10517627--10517801	60	2.9	58	80	10	181	45	10	6	37	1.66
10519576--10519628	20	2.7	20	78	0	61	32	9	22	35	1.86
10523682--10523738	29	2.0	29	85	0	78	50	14	1	33	1.52
10523731--10523783	26	2.0	26	88	3	79	24	18	5	50	1.68
10528844--10528889	23	2.0	23	95	0	83	39	6	13	41	1.70
10533855--10534004	44	3.4	42	75	14	151	32	24	17	26	1.97
10533794--10534049	87	2.9	87	86	1	323	28	25	19	27	1.98
10533892--10534027	44	3.1	43	77	11	159	30	26	16	27	1.97
10533901--10534048	44	3.4	42	73	15	129	31	22	18	28	1.97
10534130--10534288	44	3.6	45	71	12	139	28	20	20	31	1.97
10541699--10541743	19	2.3	20	88	7	67	44	6	22	26	1.77
10549517--10549555	15	2.6	15	91	0	60	20	0	41	38	1.53
10549512--10549556	22	2.0	22	82	0	54	22	0	35	42	1.54
10549593--10549662	14	4.9	14	75	1	59	22	2	28	45	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10549867--10549913	21	2.2	21	92	0	76	17	4	31	46	1.67
10550167--10550208	21	2.0	20	90	4	66	23	4	26	45	1.73
10550879--10550910	7	4.7	7	96	3	57	87	0	0	12	0.54
10551223--10551258	13	2.8	13	95	0	63	33	36	0	30	1.58
10552072--10552101	3	10.0	3	92	0	51	36	0	0	63	0.95
10553448--10553527	40	2.0	40	100	0	160	27	10	27	35	1.89
10554765--10555310	23	23.8	23	78	8	470	32	6	23	38	1.79
10554768--10555509	46	16.4	46	75	12	459	32	6	23	38	1.79
10554765--10555310	115	4.8	115	90	2	782	32	6	23	38	1.79
10555298--10555322	12	2.1	12	100	0	50	28	0	24	48	1.52
10555354--10555504	23	6.5	22	79	11	133	34	5	23	36	1.79
10555387--10555507	23	5.2	23	85	1	152	35	7	21	35	1.82
10556180--10556274	42	2.2	41	85	10	129	28	15	26	29	1.96
10556264--10556379	43	2.7	44	78	9	139	27	25	18	28	1.98
10559284--10559447	47	3.5	48	82	4	217	27	12	26	33	1.93
10562601--10562625	12	2.1	12	100	0	50	32	8	24	36	1.84
10565166--10565194	2	14.5	2	100	0	58	48	0	51	0	1.00
10576437--10576473	3	12.3	3	100	0	74	32	0	0	67	0.91
10578733--10578771	20	2.0	20	85	10	53	23	5	7	64	1.40
10597611--10597635	12	2.1	12	100	0	50	76	0	24	0	0.80
10598921--10599068	79	1.9	80	91	4	246	25	22	27	24	2.00
10598921--10599101	79	2.3	79	86	5	242	26	22	27	23	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10598921--10599068	40	3.7	40	90	5	246	25	22	27	24	2.00
10606442--10606482	12	3.5	12	90	3	66	58	0	0	41	0.98
10608419--10608479	31	2.0	30	93	3	104	31	3	18	47	1.64
10611690--10611718	11	2.6	11	100	0	58	0	58	0	41	0.98
10612188--10612313	3	41.0	3	69	19	64	31	4	3	60	1.33
10612253--10612311	16	3.8	15	81	14	75	32	5	3	59	1.36
10612286--10612324	18	2.2	18	90	0	60	38	2	0	58	1.12
10612721--10612767	17	2.7	19	78	18	57	31	0	6	61	1.21
10612810--10612864	20	2.7	21	79	17	62	30	3	3	61	1.30
10612908--10612955	25	1.9	25	83	8	62	39	4	8	47	1.53

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