genome.fa.s17.2.7.7.80.10.50.1000.114.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  114  of  185  ( 22116 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)
35711904--35711998	40	2.4	40	100	0	190	24	21	27	27	1.99
35720643--35721032	43	9.1	43	87	0	496	30	31	17	20	1.95
35721760--35721811	23	2.3	23	79	0	59	34	7	30	26	1.85
35725379--35725437	10	5.7	10	78	11	57	44	5	0	50	1.24
35725406--35725438	12	2.9	12	86	13	52	42	6	0	51	1.26
35726173--35726224	21	2.5	20	78	12	59	36	38	0	25	1.56
35727049--35727310	41	6.4	41	90	1	418	27	25	24	22	2.00
35727049--35727310	81	3.2	82	91	1	418	27	25	24	22	2.00
35727049--35727310	122	2.1	123	91	4	422	27	25	24	22	2.00
35728524--35728563	21	1.9	21	85	10	55	35	15	0	50	1.44
35728548--35728583	18	2.0	18	89	10	56	38	19	5	36	1.75
35734853--35734893	20	2.0	22	85	9	59	56	0	7	36	1.27
35735537--35735598	30	2.1	30	90	6	99	48	9	8	33	1.65
35746224--35746329	38	2.8	38	85	2	142	39	27	17	15	1.90
35760123--35760238	40	2.9	40	88	0	160	26	21	22	29	1.99
35763643--35763691	14	3.4	14	78	13	55	22	0	28	48	1.50
35763613--35763799	86	2.2	85	96	1	338	22	1	31	44	1.60
35763724--35763854	7	18.6	7	71	9	52	20	0	32	46	1.56
35763765--35763839	21	3.5	21	70	15	64	17	0	40	42	1.49
35767003--35767028	13	2.0	13	100	0	52	61	15	0	23	1.33
35769097--35769238	43	3.3	43	90	0	230	23	15	25	35	1.94
35771089--35771170	25	3.3	25	77	0	101	32	18	25	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35771190--35771350	25	6.5	25	67	16	77	32	21	24	20	1.97
35771829--35771867	5	7.6	5	82	5	51	41	17	0	41	1.50
35779050--35779139	25	3.7	23	71	12	72	34	15	27	22	1.94
35779221--35779284	25	2.6	25	80	9	76	31	23	26	18	1.98
35785309--35785335	6	4.5	6	100	0	54	85	0	0	14	0.61
35791996--35792052	4	14.2	4	96	0	105	73	26	0	0	0.83
35798018--35798067	27	1.9	25	84	8	64	44	4	28	24	1.72
35802042--35802127	18	4.7	18	71	16	61	67	2	0	30	1.03
35802053--35802154	8	11.6	8	73	18	71	65	1	1	30	1.14
35802627--35802705	20	4.0	20	72	20	67	31	3	2	62	1.27
35802601--35802699	10	10.3	10	67	23	52	33	4	2	60	1.27
35802648--35802698	9	5.4	9	82	15	59	31	1	1	64	1.15
35802584--35802706	29	4.5	27	73	16	87	31	4	1	61	1.26
35814277--35814311	17	1.9	19	88	11	56	25	11	5	57	1.56
35816006--35816044	21	1.9	20	89	5	60	41	2	20	35	1.66
35824381--35824550	29	5.9	28	82	7	198	36	13	28	21	1.91
35824381--35824550	59	2.9	57	86	8	227	36	13	28	21	1.91
35824381--35824549	88	1.9	87	86	3	241	36	13	28	20	1.91
35837181--35837211	15	2.1	15	100	0	62	22	32	6	38	1.80
35840556--35840585	15	1.9	16	93	6	53	23	43	6	26	1.78
35864796--35864853	15	3.9	15	78	13	57	79	5	6	8	1.06
35865775--35865820	23	2.0	24	83	12	60	58	8	23	8	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35866175--35866233	5	12.2	5	73	20	54	76	0	3	20	0.93
35866175--35866233	9	6.1	9	79	16	57	76	0	3	20	0.93
35869782--35869947	91	1.8	91	84	2	226	38	24	6	30	1.81
35869768--35870111	160	2.2	160	91	0	571	40	22	5	30	1.78
35869768--35870111	23	15.0	23	75	10	249	40	22	5	30	1.78
35872730--35872780	23	2.2	24	89	3	77	13	7	21	56	1.62
35873377--35873424	24	2.0	24	100	0	96	25	12	29	33	1.92
35876764--35876894	66	2.0	66	93	0	226	32	10	20	35	1.87
35877146--35877292	47	3.2	47	72	19	146	44	2	3	50	1.30
35877132--35877258	44	2.8	43	73	15	123	45	2	3	48	1.34
35877355--35878217	120	7.2	118	98	0	1537	44	2	5	47	1.39
35878046--35878080	18	2.0	17	88	5	52	45	0	0	54	0.99
35878166--35878200	18	2.0	17	88	5	52	45	0	0	54	0.99
35878365--35878455	45	2.0	45	85	2	121	37	28	6	27	1.82
35878436--35878504	16	4.2	16	96	3	129	37	37	0	24	1.56
35878436--35878504	33	2.1	32	97	2	129	37	37	0	24	1.56
35880015--35880214	41	4.9	41	83	0	238	28	28	22	21	1.99
35895234--35895409	42	4.2	42	75	8	153	42	18	15	24	1.88
35895299--35895408	41	2.6	42	83	7	143	43	16	15	24	1.86
35904153--35904247	49	1.9	49	89	0	145	30	32	11	25	1.91
35912699--35912758	13	4.7	12	76	15	50	46	0	1	51	1.10
35913619--35913663	22	2.1	22	88	12	67	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35924272--35924306	8	4.5	8	96	3	63	57	22	20	0	1.41
35924543--35924609	27	2.5	27	92	0	116	43	17	14	23	1.87
35926370--35926461	46	2.0	46	100	0	184	30	8	10	50	1.68
35926731--35926763	17	2.0	17	88	5	50	63	15	6	15	1.49
35927632--35927938	153	2.0	153	98	0	596	38	12	11	37	1.79
35928476--35928514	17	2.3	17	83	12	53	33	0	10	56	1.33
35933004--35933079	40	1.9	40	100	0	152	63	2	10	23	1.39
35933057--35933094	19	2.0	19	100	0	76	47	5	15	31	1.68
35937989--35938064	23	3.3	23	86	0	89	38	7	17	36	1.79
35938094--35938155	23	2.7	24	82	9	67	32	0	22	45	1.53
35939452--35939527	22	3.2	23	76	12	75	38	19	11	30	1.88
35939465--35939580	22	5.0	23	70	19	89	38	16	12	31	1.86
35939435--35939577	47	3.1	45	83	10	164	39	16	11	31	1.85
35939452--35939574	24	5.2	24	70	8	83	37	17	13	31	1.88
35939799--35939847	15	3.2	15	85	8	55	48	20	0	30	1.50
35940501--35940623	43	2.9	43	80	12	144	30	26	20	22	1.98
35947135--35947438	22	13.0	23	69	21	188	39	15	11	33	1.83
35947123--35947438	47	6.7	47	92	1	492	39	15	12	32	1.85
35947673--35947707	15	2.3	15	90	9	54	51	22	0	25	1.48
35948294--35948400	43	2.5	43	83	10	130	30	27	20	21	1.98
35953102--35953311	75	2.8	75	87	5	291	42	7	6	43	1.58
35953173--35953220	7	6.9	7	83	11	55	52	4	0	43	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35955775--35955825	23	2.2	23	79	6	59	19	11	19	49	1.79
35961372--35961438	12	6.4	11	78	18	63	59	0	2	37	1.13
35961370--35961497	43	3.1	43	85	7	176	64	0	2	33	1.07
35961370--35961509	41	3.3	43	85	7	173	62	0	2	35	1.07
35962534--35962584	23	2.2	23	89	6	77	15	9	23	50	1.73
35963249--35963301	24	2.2	24	89	0	79	52	7	3	35	1.48
35965165--35965216	24	2.2	24	85	0	68	57	5	1	34	1.33
35971946--35972007	26	2.4	26	86	0	79	32	12	16	38	1.86
35981010--35981095	30	2.9	31	79	6	97	38	9	24	27	1.86
35984975--35985127	27	5.7	27	81	9	143	43	20	14	20	1.87
35984975--35985127	54	2.8	54	83	3	166	43	20	14	20	1.87
35984975--35985137	81	2.0	80	83	5	204	44	19	15	20	1.87
35985321--35985419	26	3.8	26	79	0	117	16	21	22	40	1.91
35985318--35985420	52	2.0	52	90	0	161	16	21	22	39	1.92
35985531--35985625	28	3.4	28	86	2	138	24	23	23	29	1.99
35987218--35987326	55	2.0	54	82	10	132	38	23	12	24	1.90
35987311--35987378	26	2.6	26	90	0	109	42	19	16	22	1.89
36005848--36005931	42	2.0	42	95	0	150	39	27	13	20	1.89
36009307--36009334	14	2.0	14	100	0	56	57	0	7	35	1.26
36018202--36018268	26	2.6	25	81	11	73	22	22	25	29	1.99
36020684--36020964	27	10.4	27	83	2	323	21	16	20	41	1.90
36020684--36020964	54	5.2	54	85	0	382	21	16	20	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36020687--36020964	81	3.4	81	86	2	371	21	16	20	42	1.89
36035705--36035883	42	4.3	42	91	0	268	21	20	22	35	1.96
36037598--36037627	15	2.0	15	93	0	51	50	10	20	20	1.76
36041021--36041099	36	2.2	36	88	6	124	20	32	21	25	1.97
36040976--36041146	86	2.0	87	89	5	267	19	30	22	27	1.98
36041063--36041241	50	3.5	50	87	4	250	22	29	19	27	1.98
36046981--36047030	21	2.3	22	86	3	66	50	4	12	34	1.58
36052065--36052095	8	3.8	8	95	4	53	29	0	25	45	1.54
36056239--36056409	29	5.9	29	79	5	150	22	26	14	36	1.92
36056253--36056444	87	2.2	87	85	3	262	23	26	11	37	1.90

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