genome.fa.s25.2.7.7.80.10.50.1000.112.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   

This is table  112  of  214  ( 25680 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)
33967506--33967541	18	2.0	18	94	0	63	8	27	0	63	1.23
33971574--33971628	28	2.0	26	82	6	65	60	7	10	21	1.55
33976583--33977452	433	2.0	434	88	2	1311	34	12	16	36	1.86
33979357--33979394	19	2.0	19	85	10	51	34	7	18	39	1.80
33982269--33982430	77	2.1	77	94	0	279	33	29	12	24	1.92
33984431--33984528	44	2.2	44	98	0	187	27	17	20	34	1.95
33994939--33994976	4	9.5	4	83	11	51	50	23	2	23	1.62
33996198--33996307	47	2.3	47	80	13	129	48	7	15	29	1.72
34001474--34001633	27	5.9	27	82	10	193	42	16	17	23	1.88
34001789--34001859	26	2.7	26	88	0	106	15	18	25	40	1.89
34001976--34002033	28	2.1	28	93	3	100	20	22	25	31	1.98
34008170--34008202	17	1.9	17	93	0	57	57	9	12	21	1.62
34008611--34008648	15	2.5	15	86	0	58	18	31	10	39	1.85
34010375--34010423	19	2.5	20	81	18	59	77	4	2	16	1.01
34015968--34016001	17	2.1	16	88	5	50	76	14	0	8	1.01
34017865--34017930	33	2.0	33	100	0	132	36	6	24	33	1.80
34020661--34020708	24	1.9	25	83	8	62	72	4	14	8	1.23
34023616--34023646	16	1.9	16	93	0	53	48	0	9	41	1.36
34025061--34025180	42	2.9	40	78	10	116	26	18	25	29	1.98
34029224--34029267	18	2.5	17	78	10	52	40	15	2	40	1.60
34038025--34038060	18	2.1	17	89	5	54	0	33	0	66	0.92
34041295--34041358	29	2.2	29	88	0	92	40	1	26	31	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34041397--34041430	18	1.9	17	94	5	59	29	5	5	58	1.45
34042814--34042852	20	2.0	20	85	10	53	35	2	2	58	1.25
34052914--34052948	10	3.6	10	92	3	54	37	0	40	22	1.55
34055862--34055896	17	2.1	17	88	0	52	22	2	5	68	1.24
34055860--34055900	13	3.0	14	75	17	50	24	4	4	65	1.32
34063000--34063332	88	3.8	88	84	4	438	26	25	25	23	2.00
34063002--34063226	45	5.1	45	62	14	117	27	24	26	22	2.00
34063014--34063240	44	5.2	44	63	12	115	25	26	25	22	2.00
34063002--34063352	176	2.0	176	93	0	594	25	24	26	23	2.00
34064904--34065113	40	5.3	40	91	0	296	23	20	28	27	1.99
34064904--34065148	80	3.1	80	83	2	235	24	20	28	26	1.99
34080077--34080144	29	2.3	29	85	5	93	27	30	13	27	1.94
34080247--34080325	29	2.7	30	82	13	110	29	30	15	25	1.96
34079967--34080319	175	2.0	173	90	2	546	31	24	13	30	1.94
34092555--34092629	37	2.0	37	92	0	123	34	29	18	17	1.94
34098611--34098651	2	20.5	2	100	0	82	48	0	51	0	1.00
34107514--34107574	26	2.3	26	86	5	79	47	22	3	26	1.67
34117662--34117711	26	1.9	26	84	8	66	34	14	10	42	1.78
34128319--34128653	27	12.4	27	79	5	286	45	19	17	17	1.85
34128319--34128653	54	6.2	53	78	5	327	45	19	17	17	1.85
34128319--34128653	81	4.1	81	79	10	357	45	19	17	17	1.85
34128849--34128899	26	2.0	26	84	0	66	17	15	21	45	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34129004--34129085	28	2.9	28	85	0	119	28	19	21	30	1.98
34134732--34135176	51	8.8	51	77	8	374	29	26	15	27	1.96
34134729--34135175	102	4.4	101	81	5	478	29	26	16	27	1.96
34141044--34141068	13	1.9	13	100	0	50	0	12	8	80	0.92
34141910--34142189	27	10.4	27	80	5	318	42	20	18	17	1.89
34141910--34142189	54	5.2	54	85	2	368	42	20	18	17	1.89
34142385--34142487	26	4.0	26	97	0	188	15	22	20	41	1.89
34142588--34142681	28	3.4	28	86	2	127	25	21	23	29	1.99
34144047--34144087	15	2.7	15	96	0	73	43	19	14	21	1.87
34144452--34144493	22	1.9	22	90	0	66	61	28	0	9	1.27
34146542--34146626	39	2.2	40	86	4	127	36	11	14	37	1.82
34146613--34146641	14	2.1	14	100	0	58	51	6	20	20	1.70
34151869--34151898	3	10.0	3	100	0	60	66	0	33	0	0.92
34152179--34152203	10	2.5	10	100	0	50	72	0	0	28	0.86
34157641--34157684	6	7.3	6	97	0	70	34	11	31	22	1.90
34157824--34157861	12	3.2	12	81	7	51	10	5	13	71	1.30
34158776--34158826	6	8.5	6	100	0	102	49	0	35	15	1.45
34167167--34167221	27	2.0	27	92	0	92	45	18	14	21	1.85
34167463--34167508	19	2.3	20	96	3	85	23	10	17	47	1.79
34169940--34169978	21	1.9	20	94	5	69	25	12	5	56	1.57
34183930--34183978	20	2.5	20	86	6	64	24	24	0	51	1.49
34184642--34184937	40	7.4	40	87	1	342	41	27	15	15	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34188773--34188842	25	2.8	25	80	4	70	21	27	18	32	1.97
34188798--34188890	25	3.8	25	79	9	84	19	25	21	33	1.97
34188772--34188933	75	2.2	73	81	8	186	20	25	19	33	1.96
34188909--34188991	25	3.3	25	73	6	87	20	24	18	37	1.94
34196798--34196864	24	2.8	23	75	6	62	19	25	19	35	1.95
34207017--34207059	17	2.5	17	76	3	50	46	37	4	11	1.61
34209189--34209436	50	4.9	50	80	6	232	22	28	20	27	1.99
34219726--34219772	10	4.6	10	77	12	51	36	2	2	59	1.21
34230709--34230757	24	2.0	24	96	0	89	65	8	6	20	1.41
34249225--34249447	40	5.6	40	89	2	290	28	28	20	22	1.98
34257063--34257285	40	5.6	40	89	2	290	28	28	20	22	1.98
34259836--34259869	16	2.1	16	100	0	68	35	0	17	47	1.48
34260036--34260068	14	2.2	16	89	10	52	54	0	0	45	0.99
34262258--34262317	25	2.5	24	81	10	68	63	3	0	33	1.11
34262255--34262344	23	3.8	24	75	10	69	63	2	0	34	1.07
34269003--34269048	19	2.4	19	82	7	58	47	4	0	47	1.21
34269137--34269173	13	2.9	13	92	4	58	43	24	0	32	1.55
34269165--34269204	13	3.1	13	81	0	53	42	17	7	32	1.77
34273043--34273093	10	4.6	11	77	15	52	49	13	0	37	1.43
34276001--34276037	18	2.0	19	89	5	58	21	40	0	37	1.54
34284814--34284847	17	2.0	17	100	0	68	23	0	5	70	1.09
34286132--34286182	12	3.9	13	75	15	52	37	0	37	25	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34287176--34287564	27	14.4	27	78	7	396	42	20	16	20	1.89
34287798--34287878	26	3.1	26	80	3	101	19	22	24	33	1.97
34295447--34296075	210	3.0	210	90	0	990	36	9	16	37	1.81
34296874--34297501	210	3.0	210	89	1	954	37	9	15	38	1.79
34298305--34298933	210	3.0	210	89	0	963	37	9	15	38	1.79
34299738--34300366	210	3.0	210	89	1	956	36	9	15	38	1.79
34301171--34301799	210	3.0	210	89	1	965	36	9	15	38	1.79
34302438--34302465	13	2.2	13	100	0	56	7	25	0	67	1.15
34311234--34311321	25	3.5	25	84	3	97	28	23	19	28	1.98
34334534--34334592	11	5.3	11	75	17	50	15	3	5	76	1.10
34334547--34334604	6	8.3	7	80	14	50	20	1	3	74	1.06
34334580--34334705	3	41.7	3	68	9	60	30	5	3	60	1.38
34336370--34336406	10	3.7	10	92	0	56	89	0	5	5	0.60
34345950--34346133	40	4.6	40	83	8	198	23	20	27	28	1.99
34345950--34346130	80	2.3	81	84	11	223	23	20	27	27	1.99
34362753--34362802	22	2.2	23	82	13	68	70	6	6	18	1.29
34363638--34363723	25	3.5	25	90	1	129	38	2	0	59	1.10
34366390--34366421	6	5.3	6	92	0	55	18	28	0	53	1.45
34368123--34368258	67	2.0	67	84	0	173	27	24	20	27	1.99
34370337--34370441	42	2.6	41	80	4	122	22	32	14	30	1.94
34381660--34381711	23	2.3	22	75	21	54	9	23	1	65	1.32
34381705--34381743	18	2.2	18	85	0	51	12	23	2	61	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34386130--34386199	27	2.6	26	79	4	77	25	25	20	28	1.99
34386374--34386413	21	1.9	21	85	10	55	25	35	12	27	1.92
34389594--34389658	30	2.2	30	82	0	76	27	24	35	12	1.91
34391515--34391651	50	2.7	50	85	0	175	27	23	29	19	1.98
34401260--34401325	3	22.0	3	100	0	132	0	33	0	66	0.92
34406415--34406481	20	3.2	23	70	23	67	28	0	1	70	0.96
34406411--34406482	19	3.7	19	78	15	76	29	0	1	69	0.97
34406433--34406501	35	2.0	35	82	5	86	26	0	2	71	1.00
34406686--34406715	4	7.5	4	100	0	60	23	0	26	50	1.50
34407534--34407589	28	2.0	28	100	0	112	32	10	17	39	1.84

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