genome.fa.s19.2.7.7.80.10.50.1000.199.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: D06
Parameters: 2 7 7 80 10 50 1000
Length:  68668488

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   

This is table  199  of  230  ( 27491 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)
59818276--59818315	14	2.8	15	85	11	57	72	5	5	17	1.21
59821185--59821295	55	2.0	55	87	3	161	24	7	16	52	1.68
59822521--59822566	22	2.0	22	83	12	56	43	13	0	43	1.43
59826759--59826784	5	5.2	5	100	0	52	19	0	0	80	0.71
59827460--59827519	20	3.0	20	68	7	59	31	5	5	58	1.41
59830480--59830524	23	2.0	23	91	4	74	37	6	13	42	1.70
59831496--59831562	29	2.2	31	84	5	84	46	16	4	32	1.67
59831553--59831598	19	2.4	19	96	0	83	30	6	8	54	1.56
59839610--59839826	62	3.9	52	79	18	171	34	6	11	48	1.64
59839616--59839797	62	2.9	62	96	0	337	36	6	9	47	1.63
59839721--59839749	14	2.1	14	100	0	58	51	6	0	41	1.28
59839813--59839848	8	4.5	8	100	0	72	27	0	22	50	1.50
59841649--59841685	4	9.2	4	93	0	65	54	0	21	24	1.45
59841711--59841754	23	1.9	23	81	9	54	61	9	0	29	1.27
59845222--59845246	12	2.1	12	100	0	50	72	0	0	28	0.86
59845322--59845378	27	2.3	24	76	23	64	31	28	7	33	1.84
59846739--59846872	40	3.3	40	90	1	196	31	16	30	21	1.95
59846819--59847525	112	6.3	112	91	1	1153	28	19	27	24	1.98
59846819--59847525	227	3.1	225	92	1	1166	28	19	27	24	1.98
59849246--59849442	84	2.3	84	95	0	349	32	21	19	26	1.97
59851064--59851092	11	2.7	11	94	5	51	37	10	24	27	1.88
59851840--59851941	17	5.6	17	79	13	96	48	11	0	39	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59851832--59851964	57	2.3	57	96	1	239	45	9	1	42	1.46
59851946--59851990	13	3.5	13	81	0	63	42	6	2	48	1.41
59852140--59852285	72	2.0	72	95	0	265	47	2	7	42	1.43
59852322--59852454	25	5.2	25	90	4	203	47	19	0	33	1.50
59857915--59857989	21	3.6	21	85	1	80	33	17	46	2	1.62
59858282--59858419	42	3.2	42	83	6	179	24	19	22	33	1.97
59859009--59859078	20	3.5	20	72	16	65	67	1	1	30	1.08
59861010--59861069	3	20.0	3	100	0	120	66	0	0	33	0.92
59862611--59862705	50	1.9	50	82	4	120	22	26	20	31	1.98
59874094--59874195	30	3.4	31	83	5	122	29	22	3	44	1.71
59874756--59874814	12	4.7	13	81	12	70	76	0	23	0	0.79
59874760--59874811	10	5.1	10	82	15	54	76	0	23	0	0.78
59874809--59874835	11	2.5	11	100	0	54	70	0	7	22	1.12
59875422--59875749	36	9.1	37	71	14	206	34	11	10	42	1.76
59875416--59875898	17	27.6	18	70	14	239	33	10	11	44	1.75
59875434--59875631	74	2.7	74	79	9	210	35	12	8	42	1.74
59875459--59875899	35	12.7	34	71	14	219	34	10	11	43	1.75
59877251--59877288	20	1.9	20	84	10	51	71	2	0	26	1.00
59877594--59877625	16	2.0	16	100	0	64	75	0	0	25	0.81
59878644--59878710	28	2.3	30	82	5	84	16	8	38	35	1.80
59878641--59878710	15	4.8	15	82	7	90	15	8	40	35	1.78
59886834--59886871	15	2.5	15	86	0	58	36	34	7	21	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59889628--59889751	46	2.8	46	91	3	200	27	22	16	33	1.96
59889628--59889862	37	5.8	45	87	8	207	26	21	15	36	1.93
59889713--59889889	37	4.8	37	95	0	300	26	20	13	38	1.90
59895236--59895276	19	2.2	19	95	0	73	43	12	4	39	1.63
59901280--59901379	11	8.7	11	66	8	56	29	5	4	62	1.35
59902214--59902281	24	3.1	22	68	24	54	47	1	5	45	1.36
59902214--59902302	42	2.1	42	83	8	110	47	3	4	44	1.40
59903847--59903926	25	3.2	25	80	3	90	38	17	13	30	1.88
59908064--59908089	5	5.2	5	100	0	52	42	19	19	19	1.90
59909082--59909118	9	4.1	9	92	0	65	29	10	13	45	1.77
59909170--59909204	18	1.9	18	100	0	70	37	17	11	34	1.85
59910620--59910671	21	2.5	21	84	3	70	36	1	40	21	1.64
59914541--59914693	45	3.4	44	78	7	155	36	24	13	25	1.92
59914517--59914693	90	2.0	88	86	4	248	35	25	14	23	1.93
59921452--59921488	9	4.1	9	85	0	56	29	8	13	48	1.71
59921541--59921571	9	3.4	9	90	0	53	38	22	12	25	1.90
59926319--59926348	15	1.9	16	93	6	53	43	0	23	33	1.54
59926711--59926764	9	5.9	9	82	4	63	57	3	0	38	1.17
59926724--59926758	17	2.1	17	89	10	54	60	0	0	40	0.97
59927009--59927067	22	2.7	22	81	0	73	10	18	15	55	1.67
59935136--59935186	26	2.0	26	88	0	75	19	23	21	35	1.96
59935245--59935297	24	2.2	24	83	6	63	16	28	24	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59936037--59936074	18	2.1	18	85	9	51	65	7	15	10	1.45
59936937--59936970	7	4.9	7	85	0	50	29	0	0	70	0.87
59937238--59937283	4	12.0	4	79	9	51	23	2	2	71	1.08
59937239--59937289	26	2.0	25	92	3	84	21	1	3	72	1.11
59937411--59937825	109	3.8	109	89	3	604	29	16	19	34	1.93
59937412--59937825	219	1.9	217	89	2	641	29	16	19	34	1.94
59941341--59941534	51	3.9	50	71	8	153	25	16	27	30	1.97
59941542--59941799	42	6.1	42	80	6	306	21	18	24	35	1.96
59941541--59941799	84	3.1	84	89	2	376	21	18	24	35	1.96
59941606--59941798	44	4.5	44	79	10	127	20	19	25	34	1.96
59949025--59949075	26	2.0	26	88	0	75	19	23	21	35	1.96
59949112--59949176	24	2.7	25	83	7	80	15	27	23	33	1.95
59949204--59949270	25	2.7	25	81	9	82	25	25	16	32	1.96
59949134--59949276	24	5.8	25	72	8	71	20	25	20	33	1.97
59951512--59951555	20	2.2	20	100	0	88	43	9	25	22	1.82
59954289--59954414	30	4.2	30	84	0	135	26	31	25	16	1.96
59954315--59954434	60	2.0	60	82	9	147	28	29	24	18	1.98
59955209--59955257	17	3.0	17	82	5	66	14	4	4	77	1.06
59955979--59956004	13	2.0	13	100	0	52	30	15	23	30	1.95
59956927--59956975	23	2.1	23	85	14	66	12	0	10	77	0.99
59956939--59956972	18	1.9	17	88	5	50	17	0	8	73	1.08
59961453--59961537	30	2.9	30	80	1	82	31	20	14	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59964188--59964399	18	11.8	18	81	3	203	3	15	28	52	1.59
59964188--59964396	54	3.9	54	82	2	231	3	14	28	52	1.59
59968745--59968805	28	2.1	29	82	8	72	34	0	4	60	1.18
59968755--59968790	18	1.9	19	88	5	56	38	0	5	55	1.23
59968875--59968904	9	3.3	9	90	0	51	30	10	13	46	1.75
59970571--59970622	3	17.3	3	83	0	59	26	5	3	63	1.34
59970885--59970982	43	2.3	43	96	0	178	32	25	17	24	1.97
59976793--59976825	18	1.9	17	88	11	50	48	0	15	36	1.45
59977829--59978255	46	9.3	45	76	19	188	36	14	21	27	1.93
59977839--59978181	46	7.0	50	83	10	406	35	14	21	28	1.92
59977829--59978185	151	2.4	145	91	4	565	35	14	21	28	1.93
59978156--59978338	37	5.0	37	96	1	334	37	16	21	24	1.94
59980778--59981232	110	4.1	110	83	5	596	30	17	17	34	1.93
59982030--59982054	3	8.3	3	100	0	50	32	68	0	0	0.90
59982573--59982608	6	6.0	6	100	0	72	16	16	0	66	1.25
59983014--59983077	16	3.7	17	76	15	60	45	15	1	37	1.56
59984123--59984159	18	2.1	18	90	10	58	59	0	5	35	1.20
59992609--59992926	152	2.1	148	84	5	399	43	5	9	41	1.61
59993171--59993249	27	3.1	25	80	8	88	16	25	21	36	1.94
59993278--59993332	24	2.2	25	78	12	60	23	27	16	32	1.96
60000618--60000676	24	2.5	24	83	8	84	22	30	18	28	1.97
60000849--60000907	24	2.4	24	81	16	68	20	27	23	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60001369--60001471	28	3.8	28	73	21	103	33	1	0	64	1.05
60001387--60001456	11	6.8	11	73	26	73	32	1	0	65	1.01
60001390--60001423	17	2.0	17	100	0	68	35	0	0	64	0.94
60001357--60001461	50	2.1	47	79	17	122	30	1	0	67	1.01
60001372--60001495	39	3.1	39	82	13	130	34	2	0	62	1.08
60001396--60001460	9	6.7	9	77	16	51	32	1	0	66	1.01
60001429--60001492	30	2.2	30	86	10	89	35	3	0	60	1.12
60001450--60001516	32	2.2	30	83	5	80	37	1	0	61	1.05
60003178--60003224	24	2.0	24	84	16	62	51	17	0	31	1.46
60003923--60003952	15	2.1	14	93	6	51	6	20	0	73	1.05

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