genome.fa.s25.2.7.7.80.10.50.1000.40.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  40  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)
11025760--11025827	33	2.1	33	97	0	127	51	0	7	41	1.30
11032246--11032275	10	2.9	10	95	5	51	13	0	0	86	0.57
11035625--11035665	20	2.0	21	86	13	59	21	21	0	56	1.43
11040598--11040626	15	1.9	15	100	0	58	24	0	0	75	0.80
11041674--11041710	3	12.3	3	100	0	74	32	0	32	35	1.58
11055337--11055403	25	2.7	25	84	9	91	34	17	26	20	1.96
11055370--11055450	24	3.3	24	78	1	90	32	22	24	20	1.98
11067077--11067107	12	2.6	12	94	0	53	45	0	0	54	0.99
11067293--11067332	5	8.4	5	89	10	50	80	0	20	0	0.72
11067294--11067328	18	1.9	18	88	11	54	80	0	20	0	0.72
11073565--11073647	42	2.0	42	97	0	157	40	16	8	33	1.79
11078080--11078127	26	1.9	24	87	8	69	58	10	0	31	1.32
11080226--11080261	17	2.0	19	89	10	58	66	11	2	19	1.35
11080289--11080313	11	2.3	11	100	0	50	52	8	24	16	1.70
11080942--11081036	31	3.2	29	71	23	72	41	10	12	35	1.78
11081013--11081072	31	2.0	30	86	3	84	43	13	8	35	1.74
11083683--11083727	23	2.0	23	91	4	74	40	17	4	37	1.70
11083683--11083759	19	3.8	19	86	6	82	38	18	7	35	1.79
11084069--11085056	44	22.7	45	67	18	341	27	22	19	30	1.98
11084146--11084751	177	3.5	175	86	5	744	27	22	19	30	1.98
11084374--11085049	217	3.1	214	82	7	776	28	22	19	29	1.98
11084288--11084757	173	2.7	174	87	6	689	28	22	19	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11084466--11085075	217	2.8	217	85	4	813	27	22	20	29	1.98
11085039--11085451	132	3.1	131	92	0	619	24	24	20	30	1.98
11092189--11092227	19	2.0	21	85	10	55	69	5	10	15	1.34
11092427--11092499	19	3.7	19	85	7	92	39	15	9	35	1.80
11092436--11092498	21	3.1	21	88	9	103	39	14	9	36	1.78
11093127--11093212	44	2.0	44	88	2	129	47	11	10	30	1.73
11099899--11099989	44	2.1	44	91	0	146	47	14	12	26	1.79
11107541--11107617	32	2.4	31	80	4	91	66	0	5	28	1.13
11107718--11107763	8	5.5	8	85	10	56	78	0	0	21	0.76
11107721--11107764	13	3.3	14	78	12	56	77	0	0	22	0.77
11107728--11107764	18	2.0	19	89	5	58	78	0	0	21	0.75
11110003--11110259	128	2.0	127	91	0	415	29	19	18	33	1.95
11115444--11115487	22	2.0	23	90	4	72	63	13	11	11	1.52
11116373--11116445	24	3.2	23	71	15	71	47	5	9	36	1.59
11116371--11116461	44	2.1	44	93	0	155	49	4	7	38	1.52
11116371--11116434	20	3.0	21	70	17	67	48	1	10	39	1.48
11118787--11118820	17	2.0	17	94	0	59	26	11	26	35	1.91
11133294--11133356	28	2.2	28	94	0	108	12	15	9	61	1.55
11133997--11134035	17	2.4	17	86	4	53	43	2	0	53	1.14
11135022--11135072	21	2.4	21	86	0	66	3	45	15	35	1.65
11137933--11139604	835	2.0	835	97	0	3175	33	18	17	30	1.95
11141308--11141433	7	16.0	7	80	11	81	30	3	19	47	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11141315--11141860	9	61.4	9	78	12	496	32	1	16	48	1.56
11141308--11141476	73	2.3	73	87	4	234	30	3	20	45	1.68
11141308--11141467	80	2.0	80	87	4	234	31	3	19	45	1.68
11142062--11142334	115	2.4	114	82	6	320	25	23	19	32	1.98
11142243--11142430	95	2.0	96	82	9	233	24	22	19	33	1.97
11142549--11142805	112	2.3	111	76	7	252	25	21	20	32	1.98
11147168--11147594	110	3.9	110	88	3	610	34	18	17	30	1.94
11147168--11147586	222	1.9	220	89	3	646	34	17	17	29	1.94
11148177--11148223	18	2.6	18	86	0	67	61	6	6	25	1.44
11149912--11150232	148	2.2	148	87	1	448	31	19	19	30	1.96
11158427--11158989	23	24.6	23	76	10	449	30	6	22	40	1.79
11158460--11158981	137	3.8	136	77	9	444	30	6	22	40	1.79
11158617--11159083	137	3.4	136	82	4	498	30	5	22	41	1.78
11158418--11158989	160	3.6	160	95	0	1020	30	6	22	40	1.79
11158427--11159083	46	14.4	46	74	10	379	30	6	22	40	1.79
11159697--11159816	43	2.8	43	89	0	177	22	17	30	29	1.97
11162772--11162897	9	14.0	9	79	11	116	46	18	0	35	1.49
11162757--11162899	47	2.9	47	83	10	173	45	16	0	37	1.48
11162780--11162895	56	2.0	61	82	14	147	46	18	0	34	1.50
11162780--11162895	61	2.0	56	88	8	169	46	18	0	34	1.50
11167044--11167155	43	2.6	43	94	0	188	29	17	24	28	1.97
11178447--11178498	27	1.9	27	92	0	86	25	26	9	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11200052--11200113	15	4.2	15	77	6	56	50	1	4	43	1.33
11211067--11211138	34	2.1	34	94	0	126	34	19	6	38	1.79
11216810--11216846	18	2.0	19	89	5	58	29	0	2	67	1.04
11221700--11221782	27	3.1	27	78	3	87	19	22	32	25	1.97
11221840--11221887	23	2.0	23	84	4	60	72	0	25	2	0.95
11225329--11225375	6	7.8	6	90	0	67	2	44	31	21	1.64
11225325--11225381	12	4.8	12	84	0	69	1	43	28	26	1.65
11225325--11225384	18	3.3	18	85	0	84	1	41	30	26	1.65
11227006--11227044	16	2.4	16	100	0	78	58	5	0	35	1.20
11227158--11227279	60	2.0	60	93	0	208	54	13	0	31	1.39
11227272--11227333	19	3.2	19	91	8	106	54	14	0	30	1.40
11227267--11227332	21	3.2	21	89	10	109	57	13	0	28	1.37
11227650--11227708	27	2.2	27	87	0	82	16	32	23	27	1.96
11231132--11231180	21	2.4	21	86	3	64	18	32	10	38	1.84
11231540--11231617	39	2.0	39	97	0	147	48	19	2	29	1.62
11235264--11235348	44	1.9	45	82	2	109	22	15	12	49	1.78
11237333--11237461	43	3.0	43	75	8	127	20	18	27	32	1.96
11248567--11248615	6	7.8	6	78	17	55	77	4	2	16	1.01
11254821--11254927	39	2.7	39	85	5	128	51	10	1	36	1.47
11260454--11260486	17	1.9	17	100	0	66	42	6	27	24	1.78
11262364--11262388	6	4.2	6	100	0	50	68	0	16	16	1.22
11263560--11263607	24	2.0	24	100	0	96	41	25	8	25	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11263561--11263614	24	2.2	24	93	0	90	44	24	5	25	1.75
11266606--11266639	17	1.9	17	88	5	50	58	17	0	23	1.38
11276868--11276939	23	3.3	22	78	11	76	8	18	25	48	1.75
11285886--11285926	19	2.1	20	86	4	57	31	9	2	56	1.45
11286333--11286398	27	2.4	28	78	14	75	3	19	6	71	1.21
11286408--11286495	43	2.1	40	81	10	97	45	4	2	47	1.35
11288639--11288675	3	12.3	3	100	0	74	32	0	0	67	0.91
11292661--11292701	17	2.3	19	87	8	59	17	0	2	80	0.82
11294257--11294288	15	2.0	17	88	11	50	43	3	25	28	1.69
11294656--11294692	9	4.1	9	92	0	65	29	10	13	45	1.77
11295013--11295317	42	7.2	41	79	4	243	28	31	17	22	1.97
11295013--11295257	84	2.9	84	85	4	305	27	32	18	21	1.97
11295013--11295279	42	6.3	43	82	2	270	28	31	17	22	1.97
11300452--11300480	15	1.9	15	100	0	58	31	41	6	20	1.79
11300485--11300518	7	4.9	7	85	0	50	29	50	2	17	1.61
11300542--11300590	14	3.4	14	83	5	62	40	34	0	24	1.55
11300858--11301141	41	6.9	41	86	0	352	28	33	19	18	1.95
11300819--11301141	82	4.0	82	83	0	378	29	32	19	18	1.96
11300816--11301141	123	2.7	123	81	1	386	29	31	19	19	1.96
11301176--11301311	40	3.4	40	78	7	134	20	19	20	38	1.93
11304527--11304606	39	2.1	39	92	0	133	27	6	32	33	1.82
11304566--11304891	180	1.8	177	87	3	483	31	12	27	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11310764--11310804	3	13.7	3	100	0	82	65	0	0	34	0.93
11310850--11310888	19	2.0	21	85	10	55	69	12	0	17	1.19
11311014--11311089	27	2.8	27	90	4	109	18	34	23	23	1.96
11311147--11311207	26	2.3	27	97	2	115	52	0	6	40	1.27
11320478--11320518	21	2.0	21	90	0	64	19	29	21	29	1.98
11326749--11326788	18	2.2	19	86	4	55	22	30	7	40	1.81
11329781--11329848	29	2.4	28	73	11	66	41	2	5	50	1.42
11330063--11330139	27	2.7	27	82	6	82	41	1	0	57	1.07
11330051--11330139	29	3.1	27	78	9	88	41	1	1	56	1.14
11332249--11332419	85	2.0	85	96	0	315	32	14	13	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