genome.fa.s8.2.7.7.80.10.50.1000.108.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: Chr9
Parameters: 2 7 7 80 10 50 1000
Length:  48574783

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   

This is table  108  of  135  ( 16172 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)
39874396--39874493	49	2.0	50	87	2	144	45	8	16	29	1.76
39879062--39879114	17	3.4	17	65	20	51	24	28	26	20	1.99
39879048--39879124	30	2.6	30	89	0	109	24	27	28	19	1.99
39881157--39881348	15	12.7	14	73	7	114	23	19	25	31	1.98
39881160--39881224	16	4.1	16	72	4	60	20	18	26	35	1.95
39881237--39881380	45	3.2	45	78	1	146	27	18	22	31	1.97
39881157--39881348	30	6.3	30	85	3	161	23	19	25	31	1.98
39881308--39881373	29	2.2	30	78	2	71	28	18	19	33	1.95
39886760--39886792	17	1.9	17	93	0	57	15	0	6	78	0.93
39893570--39893632	29	2.2	29	88	5	92	49	17	3	30	1.62
39896708--39896740	17	1.9	17	93	0	57	36	9	0	54	1.32
39896993--39897051	28	2.0	29	83	6	75	32	1	0	66	1.02
39898676--39898781	43	2.5	43	90	0	158	28	25	21	24	1.99
39898768--39898807	20	2.0	20	90	0	62	30	22	15	32	1.94
39899199--39899249	21	2.4	22	80	9	61	5	39	17	37	1.74
39899209--39899374	87	1.9	87	93	0	287	13	29	18	39	1.88
39899291--39899335	21	2.1	21	91	0	72	2	46	17	33	1.61
39901881--39902083	9	24.1	9	72	14	166	30	1	20	47	1.61
39901881--39902083	25	8.0	25	81	4	237	30	1	20	47	1.61
39901919--39902077	34	4.7	34	72	14	125	29	2	21	46	1.64
39905024--39905252	79	2.8	83	79	9	256	30	21	17	30	1.96
39905664--39905716	21	2.5	21	81	6	54	52	22	0	24	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39905720--39905770	22	2.3	22	86	6	68	33	37	0	29	1.58
39906046--39906082	13	2.7	14	88	12	51	54	32	0	13	1.40
39906573--39906962	166	2.3	166	90	0	611	23	22	23	31	1.99
39907607--39907645	16	2.5	15	84	12	51	43	0	2	53	1.14
39916465--39916513	25	2.0	25	100	0	98	36	4	20	38	1.72
39919080--39919199	9	13.6	9	74	11	97	33	0	18	48	1.48
39919079--39919199	54	2.3	52	92	2	197	33	0	18	47	1.48
39919219--39919285	35	1.9	35	93	0	116	37	5	10	46	1.63
39919218--39919297	35	2.4	32	82	13	108	36	6	8	48	1.59
39919638--39919675	11	3.5	11	85	0	58	47	0	0	52	1.00
39933573--39933689	59	2.0	58	86	1	162	37	11	11	39	1.78
39933734--39933796	26	2.5	25	77	10	65	58	3	4	33	1.35
39939448--39939491	20	2.1	22	87	8	65	45	4	2	47	1.35
39939198--39939554	175	2.0	175	93	4	615	33	10	2	53	1.48
39941564--39941616	19	2.8	19	94	0	97	37	15	9	37	1.79
39942129--39942505	45	8.6	45	71	11	219	26	23	20	29	1.99
39942308--39942419	44	2.5	43	85	5	127	31	20	17	30	1.96
39942258--39942649	215	1.8	215	91	2	653	27	23	19	28	1.99
39942524--39942634	44	2.5	43	77	11	109	28	19	21	29	1.98
39942998--39943118	43	2.8	43	87	7	165	28	27	18	26	1.98
39943156--39943381	44	5.2	43	64	11	136	23	23	25	27	2.00
39943129--39943781	88	7.4	88	86	1	907	21	22	26	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39943119--39943782	263	2.5	263	86	2	933	21	22	26	29	1.99
39943129--39943781	175	3.7	174	87	2	903	21	22	26	29	1.99
39945004--39945028	2	12.5	2	100	0	50	0	48	0	52	1.00
39945957--39946017	26	2.3	26	83	5	70	57	4	14	22	1.57
39951954--39951978	13	1.9	13	100	0	50	68	0	0	32	0.90
39952447--39952498	19	2.7	19	96	0	95	40	15	7	36	1.76
39953347--39953410	29	2.2	29	82	2	74	23	6	6	64	1.40
39953668--39953776	2	54.5	2	100	0	218	49	0	0	50	1.00
39953832--39953889	26	2.1	28	81	12	68	51	1	3	43	1.28
39955316--39955378	30	2.1	30	85	8	83	61	0	3	34	1.12
39958538--39958685	60	2.4	58	81	10	163	29	19	12	38	1.88
39966234--39966274	2	20.5	2	100	0	82	51	48	0	0	1.00
39968786--39968816	15	2.0	16	93	6	55	70	12	0	16	1.16
39981556--39981865	158	2.0	152	93	3	530	38	14	24	22	1.91
39985824--39985884	9	6.8	9	79	7	61	70	3	0	26	1.02
39990518--39990564	23	2.0	23	100	0	94	38	8	4	48	1.53
39996526--39996550	4	6.2	4	100	0	50	24	28	24	24	2.00
40019604--40019641	19	2.0	19	100	0	76	31	5	15	47	1.68
40030945--40031074	69	1.9	68	81	9	158	19	31	9	40	1.83
40034491--40034560	31	2.3	31	84	0	86	35	15	11	37	1.84
40041538--40041563	5	5.2	5	100	0	52	0	57	0	42	0.98
40041847--40042160	106	3.0	106	86	5	426	39	14	15	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40042013--40042317	157	2.0	153	89	7	474	45	12	14	26	1.81
40042165--40042370	107	1.9	109	90	7	328	42	14	16	27	1.86
40042372--40042766	103	3.8	103	88	3	540	33	16	14	35	1.89
40042372--40042766	209	1.9	209	86	3	562	33	16	14	35	1.89
40043913--40043966	25	2.1	26	83	10	67	35	5	7	51	1.53
40045620--40045654	8	4.2	8	92	3	52	71	0	5	22	1.07
40045663--40045701	16	2.4	16	91	0	60	48	2	12	35	1.55
40045936--40045963	13	2.2	13	100	0	56	60	7	0	32	1.24
40051679--40051713	17	2.1	17	88	0	52	71	2	0	25	1.00
40065499--40066238	132	5.6	131	88	2	1054	27	14	27	30	1.95
40065494--40066238	44	17.0	45	80	5	740	27	14	27	30	1.95
40066244--40066337	43	2.2	43	86	0	125	34	25	18	22	1.96
40069772--40069806	17	2.1	17	88	0	52	71	2	0	25	1.00
40085544--40086161	44	14.1	44	77	8	548	28	14	26	30	1.95
40085613--40085995	175	2.2	177	89	1	583	28	14	26	30	1.95
40085613--40086163	175	3.2	172	83	5	531	28	14	26	29	1.95
40136385--40136438	28	1.9	28	88	0	81	24	7	46	22	1.77
40138736--40138814	3	25.7	3	78	5	68	55	1	3	39	1.26
40139565--40139596	16	1.9	17	93	6	57	0	15	3	81	0.82
40140357--40141329	128	7.6	128	92	0	1547	24	21	21	32	1.98
40142361--40142512	48	3.1	48	66	22	136	47	7	16	28	1.73
40142283--40142566	97	2.9	97	89	1	399	47	8	16	27	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40142851--40142908	5	10.3	6	77	15	54	1	17	0	81	0.78
40142849--40142910	24	2.6	25	78	19	71	1	17	0	80	0.79
40142862--40142908	16	2.9	16	83	3	58	2	17	0	80	0.80
40147929--40147997	3	22.7	3	77	2	66	56	1	4	37	1.28
40148751--40148782	16	1.9	17	93	6	57	0	15	3	81	0.82
40153410--40153465	27	2.1	27	93	0	94	12	19	3	64	1.42
40153415--40153482	28	2.5	27	82	2	82	11	25	1	61	1.38
40166483--40166515	15	2.3	15	94	5	59	48	0	0	51	1.00
40166956--40167003	24	2.0	25	87	4	71	37	10	0	52	1.36
40167086--40167133	24	2.0	25	87	4	71	37	10	0	52	1.36
40166911--40167180	130	2.1	131	96	2	499	49	8	1	39	1.45
40171480--40171522	19	2.3	18	80	11	50	13	2	11	72	1.22
40177280--40177316	18	2.1	18	100	0	74	35	21	10	32	1.88
40179764--40179818	19	3.0	19	81	5	51	50	0	3	45	1.19
40180601--40180691	37	2.4	37	82	8	96	45	2	20	31	1.64
40185181--40185306	20	6.5	19	70	16	89	61	0	7	29	1.29
40185166--40185308	10	14.6	10	65	19	52	62	0	9	27	1.30
40185343--40185373	16	2.0	16	93	6	55	19	0	9	70	1.14
40185313--40185571	129	2.0	130	99	0	511	27	10	12	49	1.74
40185472--40185502	16	2.0	16	93	6	55	19	0	9	70	1.14
40185359--40185602	129	1.9	128	84	5	294	30	11	14	43	1.81
40185340--40185632	129	2.3	126	82	9	272	29	10	14	46	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40185669--40185713	17	2.6	17	85	3	54	33	2	2	62	1.20
40185666--40185747	9	9.1	9	69	14	53	28	2	3	65	1.22
40201730--40201768	18	2.2	18	100	0	78	28	12	20	38	1.89
40206020--40206173	44	3.5	44	81	1	166	26	20	17	35	1.94
40206197--40206680	45	10.8	45	79	2	488	26	24	17	31	1.97
40206209--40206680	90	5.2	90	88	2	619	26	24	17	31	1.97
40206197--40206680	135	3.6	135	82	0	599	26	24	17	31	1.97
40207896--40207927	9	3.6	9	100	0	64	9	0	0	90	0.45
40219047--40219091	14	3.3	14	84	3	56	64	4	2	28	1.25
40220710--40221429	50	14.2	50	66	5	327	26	21	21	29	1.99

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