genome.fa.s25.2.7.7.80.10.50.1000.44.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: Gbar_D12
Parameters: 2 7 7 80 10 50 1000
Length:  58873029

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   

This is table  44  of  196  ( 23409 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)
12114960--12115081	10	12.3	10	67	14	56	31	3	0	63	1.16
12114866--12114986	19	6.5	19	68	21	78	30	7	1	60	1.34
12114978--12115020	19	2.2	20	83	4	52	30	4	0	65	1.13
12114924--12115023	38	2.6	37	76	13	96	34	5	0	61	1.18
12115038--12115081	21	2.1	21	87	4	63	27	2	0	70	0.99
12116112--12116196	27	3.4	25	78	12	93	55	0	1	43	1.07
12118893--12118923	9	3.4	9	90	0	53	38	22	12	25	1.90
12119326--12119408	16	5.2	16	66	22	59	53	12	0	34	1.38
12119329--12119408	31	2.5	31	91	2	133	52	12	0	35	1.39
12123482--12123688	43	4.8	43	82	4	222	28	20	19	30	1.97
12123482--12123688	86	2.4	85	85	4	274	28	20	19	30	1.97
12124058--12124108	21	2.4	21	86	0	66	1	41	19	37	1.63
12123994--12124161	87	1.9	87	85	2	230	12	27	20	39	1.89
12126029--12126112	9	9.0	9	74	7	78	33	3	16	46	1.64
12126029--12126098	27	2.6	27	90	2	113	31	2	17	48	1.61
12126176--12126226	21	2.4	21	93	0	84	39	9	15	35	1.81
12126436--12126473	16	2.4	16	91	4	60	52	5	0	42	1.24
12126470--12126519	13	3.5	13	78	19	55	50	8	8	34	1.61
12126468--12126513	17	3.0	16	81	18	62	52	8	6	32	1.58
12130944--12130984	20	2.0	20	85	4	55	36	39	4	19	1.73
12135298--12135346	25	2.0	24	84	8	62	42	0	2	55	1.11
12136203--12136236	15	2.2	16	89	5	52	55	2	0	41	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12136214--12136243	8	3.8	8	95	0	51	50	6	0	43	1.28
12136203--12136243	16	2.7	15	88	3	55	53	4	0	41	1.22
12141759--12141813	19	2.9	19	81	7	60	67	0	10	21	1.21
12143667--12144470	89	9.0	89	89	1	1126	27	23	17	30	1.97
12143626--12144468	268	3.1	268	89	0	1240	27	24	17	30	1.97
12143667--12144470	179	4.5	179	89	1	1175	27	23	17	30	1.97
12145397--12145421	13	1.9	13	100	0	50	56	8	24	12	1.62
12145759--12145790	13	2.3	15	84	15	50	12	15	0	71	1.14
12145760--12145791	14	2.4	13	94	5	55	12	18	0	68	1.20
12148636--12148681	19	2.4	19	85	7	58	47	8	19	23	1.77
12157287--12157332	2	23.0	2	95	0	83	0	2	47	50	1.13
12159551--12159589	8	4.9	8	87	0	51	28	0	0	71	0.86
12159584--12159619	18	1.9	19	88	5	56	41	0	0	58	0.98
12161166--12161204	17	2.3	17	86	8	53	20	2	2	74	1.06
12163197--12163251	3	18.3	3	100	0	110	67	0	0	32	0.91
12164094--12164141	22	2.2	22	88	0	69	22	22	47	6	1.73
12164614--12164725	44	2.6	43	78	5	118	30	19	18	31	1.96
12164764--12165346	44	13.2	44	85	2	715	31	24	14	30	1.94
12164774--12165346	133	4.3	131	87	3	718	30	24	13	30	1.94
12164764--12165346	221	2.6	220	89	1	857	31	24	14	30	1.94
12166610--12166658	13	3.6	14	81	13	57	14	20	2	63	1.40
12166620--12166662	7	6.1	7	84	10	52	13	18	2	65	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12166620--12166661	15	2.9	15	82	13	52	14	19	2	64	1.39
12167538--12167568	4	7.8	4	92	0	53	48	0	22	29	1.51
12171980--12172057	6	13.0	6	88	0	102	69	0	2	28	1.02
12171980--12172057	9	8.7	9	89	0	102	69	0	2	28	1.02
12172894--12172936	22	2.0	22	85	0	59	20	16	46	16	1.84
12174038--12174126	25	3.1	30	84	12	116	41	6	24	26	1.80
12176560--12176626	33	2.0	33	100	0	134	20	14	26	37	1.92
12178733--12178818	30	3.0	29	85	12	117	43	6	24	25	1.79
12178731--12178819	25	3.1	30	85	12	125	41	6	25	25	1.80
12180611--12180827	55	3.9	55	87	1	310	26	7	15	51	1.69
12181973--12182096	62	2.0	62	98	0	239	42	8	13	35	1.74
12188103--12188208	30	3.3	30	70	19	88	27	17	26	28	1.98
12189542--12189595	26	2.1	26	83	10	67	42	7	18	31	1.78
12194829--12195017	51	3.7	52	81	7	228	24	16	26	31	1.97
12195247--12195278	16	2.0	16	93	0	55	59	0	15	25	1.36
12198260--12198406	65	2.3	65	84	2	188	39	11	12	36	1.79
12198325--12199266	132	7.1	131	83	2	974	36	14	15	32	1.89
12198325--12199265	264	3.6	262	83	2	1114	36	14	15	32	1.89
12198792--12198999	67	3.1	66	67	18	187	36	18	14	29	1.91
12198768--12198969	65	3.1	65	64	18	164	37	17	15	29	1.91
12198853--12199064	65	3.2	65	67	15	173	36	15	15	32	1.89
12198331--12199271	396	2.4	396	83	2	1201	36	14	15	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12199202--12199332	67	2.0	67	82	0	163	34	16	16	32	1.91
12205350--12205394	11	4.2	11	82	5	56	62	8	6	22	1.48
12206881--12206916	13	2.7	13	91	4	54	30	2	50	16	1.60
12208183--12208209	13	2.1	13	100	0	54	33	29	7	29	1.85
12214458--12214487	12	2.5	12	94	0	51	6	30	40	23	1.80
12222212--12222288	40	1.9	39	82	10	93	32	24	20	22	1.98
12224643--12224756	33	3.5	32	84	4	113	34	5	14	46	1.66
12225733--12225791	17	3.5	17	73	0	55	32	6	10	50	1.62
12225730--12225806	34	2.2	33	82	11	84	32	10	9	48	1.69
12231782--12231814	17	1.9	17	93	0	57	57	15	12	15	1.65
12241378--12241446	32	2.2	32	89	0	102	39	24	4	31	1.75
12241535--12241564	16	1.9	15	93	6	51	56	10	0	33	1.32
12242946--12243050	49	2.1	49	82	8	124	27	21	30	20	1.98
12242961--12243138	49	3.6	50	80	6	168	28	21	27	23	1.99
12243339--12243377	12	3.2	12	85	0	51	56	5	20	17	1.60
12255352--12255397	19	2.4	18	85	10	56	71	0	2	26	0.97
12260473--12260555	41	2.0	41	97	0	157	39	14	15	30	1.87
12267141--12267165	13	1.9	13	100	0	50	36	24	24	16	1.94
12269596--12269630	18	1.9	18	88	0	52	71	8	11	8	1.31
12270923--12271120	27	7.4	26	79	11	172	20	16	19	43	1.88
12270923--12271121	54	3.7	53	84	6	240	20	16	19	43	1.88
12270923--12271120	80	2.5	81	85	4	258	20	16	19	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12275492--12275641	41	3.7	41	89	0	210	17	18	26	37	1.93
12276358--12276431	34	2.2	34	97	0	139	40	25	2	31	1.70
12291982--12292033	21	2.3	22	80	9	52	59	1	1	36	1.19
12292394--12292430	2	19.0	2	88	5	58	0	54	0	45	1.00
12292655--12292691	10	3.5	11	82	10	51	62	0	37	0	0.96
12305409--12305512	31	3.4	31	71	12	99	44	11	25	19	1.84
12312111--12312173	24	2.6	24	82	9	67	52	7	6	33	1.56
12313273--12313321	23	2.1	23	82	14	57	2	26	18	53	1.56
12314095--12314135	14	2.8	15	82	14	50	70	2	4	21	1.18
12316216--12316265	25	2.0	25	100	0	100	40	24	16	20	1.91
12317217--12317256	18	2.2	19	86	4	55	60	2	2	35	1.24
12317925--12317977	11	5.2	11	80	17	69	9	41	33	15	1.79
12317936--12317975	18	2.2	18	100	0	80	10	40	35	15	1.80
12321585--12321647	26	2.4	27	97	2	119	41	11	0	47	1.39
12321641--12321683	20	2.1	21	86	4	61	81	11	0	6	0.87
12321713--12321787	27	2.8	26	82	8	87	25	22	32	20	1.98
12321939--12321977	19	2.0	21	85	10	55	17	0	12	69	1.19
12322033--12322082	3	16.7	3	100	0	100	34	0	0	66	0.92
12325185--12325211	11	2.5	11	100	0	54	40	14	7	37	1.74
12327944--12327998	27	2.0	27	89	0	83	9	30	14	45	1.76
12328734--12328825	3	32.3	3	70	16	54	0	30	0	69	0.89
12328766--12328878	10	11.7	10	66	26	50	0	30	0	68	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12328773--12328910	4	35.0	4	73	20	80	1	29	0	68	0.98
12328703--12328875	78	2.2	78	88	5	253	0	30	0	69	0.93
12328703--12328919	78	2.9	78	84	9	238	0	31	0	67	0.97
12328955--12329033	27	2.9	27	92	0	122	16	31	22	29	1.96
12329090--12329180	27	3.4	27	95	4	166	49	0	10	39	1.38
12329073--12329211	55	2.5	54	69	2	134	40	0	9	50	1.35
12330427--12330456	15	2.0	15	93	0	51	33	23	13	30	1.93
12332531--12332737	103	2.0	103	95	0	369	30	14	13	41	1.84
12339639--12339710	33	2.2	33	100	0	144	44	2	5	47	1.41
12344075--12344201	42	3.0	42	83	0	164	45	16	18	18	1.85

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