genome.fa.s18.2.7.7.80.10.50.1000.3.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: D05
Parameters: 2 7 7 80 10 50 1000
Length:  64368997

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   

This is table  3  of  208  ( 24943 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)
785534--785578	22	2.1	22	91	4	74	46	2	0	51	1.13
820034--820086	20	2.6	19	80	14	52	54	3	1	39	1.29
820048--820085	20	1.9	20	88	0	58	57	0	2	39	1.12
820068--820104	11	3.4	11	92	7	58	59	0	2	37	1.12
829042--829136	31	3.2	28	71	11	75	47	5	2	45	1.37
838819--838855	6	6.2	6	100	0	74	32	51	0	16	1.45
849934--850071	69	2.0	69	100	0	276	30	15	18	34	1.93
858397--858449	16	3.1	18	71	23	51	37	0	5	56	1.23
858577--858664	31	2.9	30	73	9	81	48	7	4	38	1.53
867698--867739	3	14.0	3	90	9	68	66	0	33	0	0.92
867871--867904	16	2.1	17	88	5	52	23	0	70	5	1.09
897557--897587	4	7.8	4	100	0	62	48	25	0	25	1.52
902954--902993	18	2.2	18	86	8	55	67	10	0	22	1.20
909128--909170	20	2.1	20	86	4	59	44	4	0	51	1.22
909175--909215	13	2.9	14	80	20	50	51	0	2	46	1.14
910328--910399	29	2.4	30	73	11	76	34	5	16	43	1.72
911879--911932	22	2.5	21	74	14	56	68	1	1	27	1.10
922836--922901	31	2.1	31	86	5	89	36	16	6	40	1.73
933168--933197	4	7.5	4	100	0	60	50	0	26	23	1.50
938606--938704	42	2.4	42	92	0	162	38	17	26	18	1.92
939216--939323	15	7.2	15	69	12	87	43	7	23	25	1.79
939209--939323	30	3.8	30	97	0	203	44	6	23	25	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
943910--944017	15	7.2	15	67	12	78	42	7	23	26	1.80
943903--944017	30	3.8	30	95	0	194	43	6	23	26	1.79
948704--948739	16	2.2	16	90	9	56	83	0	16	0	0.65
953755--953780	4	6.5	4	100	0	52	23	53	0	23	1.46
959280--959387	40	2.8	37	77	15	119	52	2	4	39	1.36
960624--960648	3	8.3	3	100	0	50	32	0	0	68	0.90
971302--971339	20	1.9	20	89	10	60	65	5	10	18	1.41
999888--1000302	106	3.9	106	95	0	722	32	19	18	28	1.96
1000766--1000791	12	2.2	12	100	0	52	69	0	0	30	0.89
1003731--1003829	23	4.3	23	97	0	189	21	21	26	31	1.98
1007410--1007595	46	4.0	46	93	0	309	37	9	25	27	1.86
1009170--1009213	20	2.2	20	83	0	52	77	0	0	22	0.77
1010294--1010479	73	2.5	73	98	0	363	40	24	5	29	1.79
1010480--1010508	3	9.7	3	100	0	58	68	0	0	31	0.89
1011564--1011598	8	4.4	8	92	0	52	31	0	0	68	0.90
1011612--1011636	13	1.9	13	100	0	50	64	8	20	8	1.46
1013557--1013660	24	4.3	24	97	0	190	16	22	23	38	1.93
1017935--1018120	73	2.5	73	98	0	363	40	24	5	29	1.79
1018121--1018188	3	22.7	3	100	0	136	67	0	0	32	0.91
1021893--1021933	21	2.0	21	90	0	64	29	21	29	19	1.98
1029044--1029168	53	2.3	55	73	8	130	32	16	16	35	1.91
1030098--1030126	3	9.7	3	100	0	58	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1031270--1031313	19	2.3	19	88	4	61	34	20	2	43	1.64
1031883--1031913	15	2.1	15	100	0	62	25	19	12	41	1.87
1032518--1032606	45	2.0	43	86	4	124	34	25	16	22	1.95
1033730--1033772	11	4.0	11	84	3	61	30	2	46	20	1.63
1033730--1033772	21	2.0	21	90	4	68	30	2	46	20	1.63
1037817--1037909	18	5.2	18	88	0	141	32	16	22	29	1.95
1038441--1038483	11	4.0	11	84	3	61	30	2	46	20	1.63
1038441--1038483	21	2.0	21	90	4	68	30	2	46	20	1.63
1041414--1041555	72	2.0	72	94	0	248	28	28	13	29	1.94
1042973--1043006	17	2.0	17	94	0	59	44	50	0	5	1.26
1047612--1047645	17	2.0	17	94	0	59	44	50	0	5	1.26
1053393--1053433	21	1.9	22	85	5	57	46	26	0	26	1.53
1055354--1055383	15	1.9	16	93	6	53	40	0	0	60	0.97
1055728--1055797	25	2.8	25	91	4	115	18	21	21	38	1.93
1055751--1055856	22	4.5	22	75	5	77	16	23	19	40	1.91
1060547--1060571	13	1.9	13	100	0	50	40	0	4	56	1.18
1062881--1063041	82	2.0	82	97	0	304	36	6	8	49	1.57
1073166--1073195	13	2.3	13	100	0	60	60	0	13	26	1.34
1082573--1082660	23	4.0	21	82	5	70	37	23	21	17	1.94
1082573--1082660	46	2.0	43	82	6	104	37	23	21	17	1.94
1082607--1082661	23	2.4	24	90	6	87	34	21	21	21	1.97
1083755--1083809	17	3.1	17	79	10	56	9	14	7	69	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1083835--1083880	3	15.3	3	84	8	58	58	2	0	39	1.10
1084008--1084042	5	7.2	5	87	6	54	60	2	0	37	1.12
1086130--1086176	24	2.0	24	86	0	67	38	17	25	19	1.92
1086222--1086287	26	2.6	25	78	7	69	36	22	24	16	1.94
1099336--1099603	109	2.4	109	94	1	466	29	16	20	33	1.95
1099919--1099949	15	2.1	15	100	0	62	61	0	6	32	1.21
1100241--1100377	3	45.7	3	75	8	109	59	2	8	29	1.39
1100246--1100285	20	2.0	21	85	5	55	57	2	12	27	1.48
1100300--1100391	12	7.1	13	82	13	86	61	1	5	31	1.25
1102101--1102338	130	1.8	130	85	3	336	20	21	21	36	1.96
1102193--1102430	87	2.7	86	83	5	273	18	21	22	36	1.95
1102144--1102467	43	7.5	43	71	10	180	19	21	21	36	1.95
1102231--1102381	44	3.5	43	71	12	128	16	23	22	37	1.93
1102278--1102566	130	2.2	130	83	7	358	19	21	22	36	1.95
1102098--1102560	217	2.1	216	86	4	639	19	22	22	35	1.96
1102581--1102757	97	1.8	95	89	2	273	28	21	19	29	1.98
1102668--1103950	46	28.2	46	64	14	444	29	24	19	26	1.98
1102668--1103446	136	5.7	136	96	0	1409	29	24	19	26	1.98
1102668--1103305	90	7.1	89	64	10	256	30	24	19	26	1.98
1103346--1103907	97	6.0	96	72	12	399	28	23	19	27	1.98
1103443--1103804	133	2.7	134	94	1	636	29	23	20	27	1.99
1103076--1103950	364	2.4	366	97	1	1664	29	23	19	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1108108--1108151	19	2.3	20	84	7	56	40	11	20	27	1.86
1109742--1110009	109	2.4	109	94	1	457	29	17	20	33	1.95
1110325--1110355	15	2.1	15	100	0	62	61	0	6	32	1.21
1110649--1110782	3	44.7	3	74	8	103	59	2	8	29	1.40
1110654--1110693	20	2.0	21	85	5	55	57	2	12	27	1.48
1119836--1119873	19	2.0	20	89	5	60	34	23	0	42	1.55
1121108--1121149	8	5.0	8	86	13	50	59	0	0	40	0.97
1121107--1121144	13	2.9	13	92	7	60	57	0	0	42	0.98
1133930--1134037	44	2.4	44	87	3	144	29	23	13	33	1.93
1134915--1134949	9	3.9	9	84	0	52	2	17	0	80	0.84
1134915--1134954	18	2.2	19	90	4	64	2	15	2	80	0.93
1134958--1135030	5	14.6	5	76	20	64	56	4	0	39	1.19
1134959--1135001	19	2.3	19	92	8	70	58	0	0	41	0.98
1134965--1135029	24	2.6	25	80	9	71	58	4	0	36	1.19
1140985--1141074	44	2.1	43	93	2	153	43	7	7	41	1.62
1145947--1146002	25	2.4	24	82	11	71	44	21	16	17	1.86
1147016--1147045	15	2.1	14	93	6	51	3	20	0	76	0.92
1147111--1147147	10	3.9	10	82	10	51	51	0	0	48	1.00
1150447--1150541	26	3.5	26	75	17	102	44	0	2	53	1.12
1150491--1150541	25	2.2	25	86	13	74	43	0	0	56	0.99
1150449--1150556	26	4.0	26	74	16	69	44	0	1	52	1.18
1150449--1150563	57	2.0	58	84	5	153	45	1	1	51	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1151524--1151822	150	2.0	150	100	0	598	44	8	14	32	1.75
1151749--1152400	125	5.3	123	86	5	822	49	8	12	29	1.70
1151749--1152400	248	2.7	246	84	7	842	49	8	12	29	1.70
1166568--1166722	75	2.1	75	98	0	301	45	5	7	41	1.55
1168642--1168896	51	5.0	51	87	1	343	40	27	15	16	1.88
1177521--1177572	24	2.2	24	89	0	77	55	9	1	32	1.43
1198159--1198197	20	1.9	21	85	15	55	41	5	0	53	1.23
1199305--1199361	26	2.2	26	96	0	105	31	5	21	42	1.75
1199653--1199754	33	3.2	33	88	5	154	38	7	2	50	1.46
1199660--1199753	31	3.0	31	92	3	134	39	8	2	50	1.45

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