genome.fa.s24.2.7.7.80.10.50.1000.181.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: D11
Parameters: 2 7 7 80 10 50 1000
Length:  73211361

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   

This is table  181  of  240  ( 28759 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)
55821529--55821610	30	3.0	27	81	14	98	41	18	39	1	1.58
55823317--55823541	111	2.0	111	99	0	441	32	12	16	39	1.85
55824425--55824461	9	4.1	9	92	0	65	29	10	13	45	1.77
55824515--55824545	9	3.4	9	90	0	53	38	22	12	25	1.90
55832375--55832480	45	2.4	44	80	4	115	27	16	22	33	1.96
55849421--55850030	44	13.9	44	84	0	700	24	26	20	29	1.99
55855747--55855771	6	4.2	6	100	0	50	48	0	0	52	1.00
55855763--55855802	21	1.9	21	84	0	53	42	0	0	57	0.98
55855761--55855808	21	2.3	21	74	0	51	45	0	0	54	0.99
55862935--55862968	17	2.0	17	88	0	50	52	2	0	44	1.16
55870196--55870263	30	2.3	30	100	0	136	44	8	20	26	1.81
55871683--55871710	6	4.7	6	100	0	56	17	14	50	17	1.79
55871970--55872266	120	2.5	120	98	0	576	44	3	4	47	1.39
55872215--55872249	18	2.0	17	88	5	52	45	0	0	54	0.99
55872414--55872504	45	2.0	45	85	2	121	37	28	6	27	1.82
55872485--55872553	16	4.2	16	92	3	120	36	37	1	24	1.65
55872485--55872553	33	2.1	32	94	2	120	36	37	1	24	1.65
55873116--55873558	219	2.0	219	94	0	780	42	19	13	24	1.87
55875917--55875959	21	2.0	21	95	0	77	25	9	25	39	1.85
55877869--55877896	7	4.0	7	100	0	56	14	14	28	42	1.84
55880292--55880332	18	2.3	18	82	0	55	60	0	0	39	0.96
55880318--55880372	28	2.0	27	82	6	67	49	3	0	47	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55880376--55880415	21	1.9	21	89	0	62	67	7	2	22	1.28
55880414--55880438	11	2.3	11	100	0	50	40	0	0	60	0.97
55881565--55881594	16	1.9	16	93	6	53	66	0	0	33	0.92
55884130--55884197	28	2.5	28	80	4	86	39	7	5	47	1.56
55892565--55892596	10	3.2	10	100	0	64	53	9	28	9	1.64
55897036--55897078	17	2.5	18	81	11	54	67	0	2	30	1.03
55897329--55897362	16	2.2	15	89	5	50	32	5	0	61	1.20
55900621--55900676	29	1.9	29	85	0	76	26	8	21	42	1.82
55904213--55904255	20	2.2	20	83	8	52	16	2	11	69	1.28
55908506--55908536	14	2.2	14	94	0	53	32	6	16	45	1.72
55913461--55913490	15	2.0	15	93	0	51	36	6	6	50	1.55
55913859--55913905	10	4.4	10	82	12	58	53	0	0	46	1.00
55917400--55917449	20	2.5	21	83	6	59	30	14	12	44	1.81
55918635--55918881	50	4.8	51	78	6	189	27	21	27	23	1.99
55919081--55919132	12	4.7	12	75	22	51	57	1	25	15	1.48
55919082--55919124	20	2.2	20	91	8	70	55	2	27	13	1.51
55922217--55922279	31	2.0	32	87	3	92	36	4	23	34	1.76
55924099--55924180	25	3.3	25	72	14	62	31	24	21	21	1.98
55931832--55931911	25	3.2	24	72	10	72	33	21	21	23	1.97
55933159--55933913	373	2.0	373	97	0	1420	20	14	19	45	1.85
55937849--55937888	20	2.0	20	90	0	62	50	12	10	27	1.72
55937837--55937903	34	1.9	35	87	3	100	49	11	5	32	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55945021--55945365	40	8.6	40	91	1	548	27	20	28	24	1.99
55954479--55954640	45	3.6	45	88	0	243	44	16	17	20	1.87
55954479--55954680	45	4.5	44	84	2	226	45	15	19	19	1.85
55954474--55954680	90	2.3	90	82	3	256	46	15	18	18	1.84
55955515--55955549	16	2.1	17	94	5	63	22	0	37	40	1.55
55959249--55959301	19	2.9	18	75	10	54	67	7	9	15	1.39
55963615--55963784	41	4.2	40	82	5	168	20	21	7	50	1.73
55964784--55964826	21	2.0	21	95	0	77	34	11	4	48	1.60
55967864--55967900	15	2.5	15	95	0	65	51	10	13	24	1.73
55968076--55968158	23	3.6	23	80	3	87	33	16	25	24	1.96
55969468--55969541	29	2.6	29	87	6	80	37	0	2	59	1.12
55969486--55969518	11	2.8	12	86	9	50	33	0	0	66	0.92
55969490--55969537	11	4.7	11	75	15	50	33	0	2	64	1.05
55987672--55987760	44	2.0	44	86	4	126	49	15	7	26	1.72
55992727--55992796	34	2.1	34	100	0	140	37	8	27	27	1.86
55998405--55998488	42	2.0	42	100	0	168	47	2	14	35	1.57
56002523--56002622	43	2.3	43	86	3	121	25	26	20	29	1.99
56002956--56003004	21	2.3	21	86	6	64	4	40	18	36	1.70
56003311--56003414	29	3.4	29	72	20	97	27	3	21	47	1.68
56003363--56003436	9	8.2	9	70	16	55	28	4	18	48	1.66
56003347--56003436	25	3.4	25	69	20	67	27	3	21	47	1.66
56003318--56003436	63	1.9	63	83	10	154	27	4	21	47	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56003510--56003543	16	2.1	17	88	5	52	29	0	17	52	1.45
56003589--56003630	19	2.2	19	83	8	50	52	0	4	42	1.22
56007540--56008037	114	4.4	114	85	3	590	28	25	21	25	1.99
56009806--56009916	42	2.6	44	75	12	115	30	27	16	25	1.96
56009846--56009933	42	2.1	42	89	0	131	28	31	15	23	1.96
56012692--56012733	21	2.0	22	85	4	59	59	4	23	11	1.51
56014146--56014170	10	2.5	10	100	0	50	92	0	8	0	0.40
56014411--56014440	3	10.0	3	100	0	60	0	33	0	66	0.92
56054640--56054789	28	5.6	27	90	4	214	30	28	13	28	1.94
56054640--56054814	55	3.2	53	86	4	224	31	28	13	26	1.94
56054639--56054814	83	2.1	81	82	8	214	31	28	13	26	1.93
56062641--56062792	27	5.6	27	91	3	232	30	28	12	28	1.93
56062641--56062817	55	3.2	55	90	0	246	31	28	12	27	1.93
56072665--56072906	50	4.7	52	76	10	198	28	21	27	23	1.99
56088017--56088246	20	11.5	20	90	1	336	54	1	24	19	1.51
56088176--56088246	10	7.1	10	70	17	58	47	0	26	25	1.52
56093283--56093375	48	1.9	48	93	0	159	41	21	16	20	1.90
56093585--56093645	17	3.5	17	72	16	61	47	13	13	26	1.79
56097210--56097379	40	4.3	40	83	0	198	24	30	21	24	1.99
56101460--56101553	48	2.0	48	89	0	143	40	21	18	20	1.92
56101775--56101828	17	2.9	19	71	20	60	46	16	12	24	1.82
56101760--56101828	36	1.9	36	96	0	129	46	14	13	26	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56101760--56101820	17	3.5	17	72	16	61	47	13	13	26	1.79
56106307--56106340	5	6.8	5	100	0	68	38	20	0	41	1.53
56107688--56107735	18	2.7	18	78	9	53	37	12	4	45	1.61
56109937--56109978	18	2.3	18	80	8	50	45	21	2	30	1.65
56122442--56122486	21	2.1	21	87	0	63	33	26	15	24	1.95
56125555--56125687	50	2.7	50	81	4	160	21	27	23	27	1.99
56127079--56127118	21	1.9	21	94	0	71	22	20	12	45	1.84
56132375--56132413	13	3.0	13	88	0	60	2	15	0	82	0.79
56134542--56134802	45	5.8	45	82	2	283	44	18	18	19	1.87
56134540--56134799	135	1.9	135	85	3	353	45	17	17	19	1.86
56134903--56134994	40	2.3	40	78	10	98	44	2	13	40	1.55
56138091--56138120	15	2.0	15	100	0	60	40	6	26	26	1.81
56140491--56140524	5	6.8	5	100	0	68	38	20	0	41	1.53
56151218--56151268	24	2.1	24	92	7	86	47	15	3	33	1.64
56156937--56156978	19	2.2	19	83	8	50	38	4	0	57	1.20
56159414--56159507	45	2.1	45	87	0	134	21	32	23	22	1.98
56160243--56160472	43	5.3	43	86	0	298	29	33	17	19	1.95
56165184--56165242	7	8.4	7	86	0	82	32	47	0	20	1.50
56165176--56165248	21	3.5	21	84	3	94	31	45	0	23	1.53
56165232--56165366	68	2.0	70	95	2	247	45	23	0	30	1.53
56165411--56165442	7	4.6	7	92	0	55	34	50	0	15	1.45
56165462--56165494	14	2.3	15	94	5	59	36	33	0	30	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56165824--56165981	41	3.9	41	88	1	219	28	27	22	22	1.99
56170411--56170435	3	8.3	3	100	0	50	36	0	0	64	0.94
56171355--56171387	3	11.0	3	100	0	66	66	0	0	33	0.92
56171468--56171541	8	9.6	8	73	14	50	44	1	9	44	1.44
56171789--56171840	23	2.3	23	86	6	79	44	0	11	44	1.40
56172409--56172490	40	2.0	40	95	0	146	50	24	13	12	1.76
56175168--56175321	40	3.8	40	72	5	132	38	18	20	22	1.94
56175357--56175675	41	7.8	42	82	7	354	21	16	30	30	1.96
56176056--56176096	21	2.0	20	85	4	55	19	0	41	39	1.52
56176088--56176120	7	4.6	7	92	7	57	15	3	51	30	1.58

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