genome.fa.s8.2.7.7.80.10.50.1000.72.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  72  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)
28433803--28433868	18	3.7	18	76	8	62	27	3	22	46	1.66
28433809--28433876	18	3.8	17	76	3	55	26	1	25	47	1.61
28434505--28434578	17	4.4	17	73	0	58	28	10	17	43	1.83
28435797--28435838	15	2.8	15	88	0	57	52	0	16	30	1.44
28435803--28435850	15	3.3	15	85	5	55	45	2	14	37	1.57
28439969--28440018	14	3.5	15	71	18	52	20	8	14	58	1.61
28452114--28452158	20	2.2	21	88	4	65	71	2	2	24	1.09
28454034--28454119	36	2.4	36	90	2	127	5	27	12	53	1.61
28455506--28455577	16	4.2	16	80	13	81	36	31	1	30	1.66
28455539--28455578	20	2.0	20	100	0	80	40	30	5	25	1.77
28486740--28486796	28	2.1	27	83	9	71	35	1	0	63	1.05
28492349--28492520	85	2.0	85	96	0	317	31	19	18	30	1.96
28498004--28498090	43	2.0	43	100	0	174	29	21	13	34	1.92
28501427--28501451	7	3.6	7	100	0	50	72	0	0	28	0.86
28502877--28503055	17	10.2	17	71	17	91	44	10	12	32	1.75
28502875--28503075	18	11.3	17	72	13	122	43	10	11	34	1.76
28502872--28503007	53	2.5	53	82	7	141	40	10	11	38	1.75
28503071--28503134	20	3.1	20	73	13	58	34	9	14	42	1.77
28503176--28503208	14	2.2	15	89	10	50	51	12	9	27	1.69
28503513--28503556	5	8.4	5	83	14	54	77	2	0	20	0.88
28503513--28503556	16	2.8	15	78	21	54	77	2	0	20	0.88
28503519--28503567	21	2.3	21	83	13	64	73	4	0	22	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28503977--28504117	26	5.1	27	73	21	96	0	25	0	74	0.82
28503978--28504120	6	22.3	6	76	13	92	0	25	0	74	0.82
28504009--28504121	3	37.0	3	76	15	90	0	27	0	72	0.85
28504621--28504689	29	2.4	29	80	0	75	39	4	26	30	1.75
28512248--28512393	49	3.0	49	88	1	211	31	28	15	24	1.95
28513843--28513889	3	15.7	3	82	8	51	61	0	2	36	1.08
28514622--28514650	5	6.0	5	92	8	51	79	0	0	20	0.74
28518399--28518462	22	2.9	22	95	2	110	62	1	3	32	1.20
28518400--28518470	22	3.2	22	78	13	74	60	1	2	35	1.20
28521764--28521788	11	2.3	11	100	0	50	12	24	16	48	1.79
28530893--28530932	20	2.0	20	85	0	53	45	5	5	45	1.47
28540514--28540619	41	2.6	41	92	0	176	22	21	25	30	1.99
28541573--28541674	41	2.5	41	91	0	168	21	21	26	30	1.98
28547467--28547508	22	1.9	22	95	0	75	52	14	4	28	1.62
28547708--28547766	31	1.9	31	89	0	91	52	10	0	37	1.35
28553632--28553671	20	2.0	21	85	5	55	62	5	0	32	1.17
28553789--28553840	20	2.7	20	72	3	52	53	1	0	44	1.11
28561298--28561417	50	2.4	52	78	13	128	20	25	24	29	1.99
28564784--28564835	21	2.5	20	84	12	68	3	9	7	78	1.06
28564784--28564835	22	2.4	21	83	3	68	3	9	7	78	1.06
28565373--28565457	3	27.3	3	75	15	75	34	2	3	60	1.27
28565373--28565440	14	4.7	15	72	20	56	32	1	4	61	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28570414--28570458	15	3.1	14	87	9	63	71	0	15	13	1.15
28571755--28572896	100	11.4	100	90	0	1631	28	23	25	22	1.99
28571755--28572852	501	2.2	501	89	0	1669	29	23	25	21	1.99
28571807--28572891	50	21.7	49	64	7	329	28	23	25	22	1.99
28571755--28572896	401	2.9	400	87	1	1680	28	23	25	22	1.99
28573797--28573848	22	2.4	22	83	6	70	3	9	7	78	1.06
28574385--28574469	3	27.3	3	75	15	75	34	2	3	60	1.27
28574385--28574452	14	4.7	15	72	20	56	32	1	4	61	1.24
28575974--28576057	42	2.0	42	81	4	98	28	26	28	16	1.97
28577688--28577729	4	10.8	4	87	5	59	23	4	0	71	1.05
28577693--28577740	27	1.9	26	84	16	66	22	4	0	72	1.01
28577687--28577744	12	4.4	13	76	16	57	22	3	0	74	0.97
28577955--28577997	14	3.0	14	86	3	50	34	2	4	58	1.32
28585532--28585576	17	2.6	17	92	0	72	73	6	0	20	1.05
28591053--28591079	5	5.4	5	100	0	54	18	0	0	81	0.69
28594605--28594698	26	3.6	26	84	5	109	27	11	18	42	1.85
28601236--28601371	46	3.0	46	91	0	227	27	26	10	35	1.89
28602341--28602366	5	5.2	5	100	0	52	42	19	19	19	1.90
28603596--28603643	17	2.9	17	90	3	71	50	20	2	27	1.60
28608216--28608284	21	3.3	21	72	11	52	20	17	14	47	1.82
28608286--28608361	21	3.6	21	73	7	73	14	23	18	43	1.87
28608253--28608376	63	2.0	63	80	3	142	14	19	17	48	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28608287--28608388	42	2.4	42	77	9	109	15	22	17	44	1.87
28608733--28608801	21	3.3	21	72	11	52	20	17	14	47	1.82
28608803--28608878	21	3.6	21	73	7	73	14	23	18	43	1.87
28608770--28608893	63	2.0	63	80	3	142	14	19	17	48	1.81
28608804--28608905	42	2.4	42	77	9	109	15	22	17	44	1.87
28608036--28609588	517	3.0	517	99	0	3079	27	15	18	37	1.91
28609250--28609318	21	3.3	21	72	11	52	20	17	14	47	1.82
28609320--28609395	21	3.6	21	73	7	73	14	23	18	43	1.87
28609287--28609410	63	2.0	63	80	3	142	14	19	17	48	1.81
28609321--28609422	42	2.4	42	77	9	109	15	22	17	44	1.87
28614015--28614067	18	2.9	18	80	2	61	41	45	1	11	1.51
28617034--28617389	17	20.3	17	71	11	227	45	10	10	32	1.74
28617068--28617301	35	6.7	34	79	11	242	46	11	11	30	1.75
28617068--28617291	69	3.2	67	87	9	308	47	12	11	29	1.75
28617320--28617388	18	3.9	17	74	12	59	47	10	14	27	1.76
28617355--28617389	18	1.9	18	94	0	61	51	11	5	31	1.61
28617519--28617665	17	8.5	17	67	14	70	43	8	15	31	1.78
28617511--28617653	52	2.8	53	82	3	166	46	9	14	30	1.76
28617507--28617667	52	3.1	50	75	11	153	42	8	14	33	1.77
28617663--28617704	18	2.3	19	87	4	59	35	7	4	52	1.50
28617662--28617704	19	2.3	19	88	8	61	34	6	4	53	1.49
28618311--28618349	1	39.0	1	84	0	51	0	7	0	92	0.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28618312--28618401	21	4.1	21	77	14	76	0	20	0	80	0.72
28618311--28618401	14	7.2	12	82	13	96	0	19	0	80	0.72
28618337--28618402	27	2.5	26	83	11	80	0	27	0	72	0.85
28618329--28618402	4	18.0	4	76	15	62	0	25	0	74	0.82
28618329--28618386	18	3.3	19	79	18	63	0	25	0	74	0.82
28618330--28618402	31	2.4	31	84	9	87	0	26	0	73	0.83
28618503--28618561	10	5.5	11	76	15	61	0	20	3	76	0.93
28618507--28618564	16	3.7	16	76	19	68	0	20	3	75	0.94
28618503--28618561	21	2.8	20	78	14	57	0	20	3	76	0.93
28618503--28618563	32	1.9	32	93	0	104	0	19	3	77	0.91
28619063--28619210	30	5.0	30	82	8	187	40	2	22	34	1.66
28619051--28619210	58	2.7	59	86	5	225	40	2	24	32	1.68
28619561--28619625	30	2.1	31	91	2	105	38	4	0	56	1.20
28619561--28619640	30	2.7	30	86	7	103	38	3	1	56	1.25
28620092--28620132	6	7.2	6	94	2	59	19	0	26	53	1.45
28621728--28621764	17	2.2	17	90	9	58	56	8	0	35	1.29
28622124--28623778	834	2.0	828	89	3	2529	36	18	17	27	1.93
28625794--28625882	43	2.1	43	97	0	169	37	21	6	34	1.80
28628591--28628631	2	20.5	2	100	0	82	51	0	48	0	1.00
28634406--28634446	11	3.7	11	86	0	64	63	2	7	26	1.33
28634399--28634454	22	2.5	22	80	5	69	62	8	5	23	1.45
28636679--28636704	5	5.2	5	100	0	52	19	61	19	0	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28657105--28657138	6	5.7	6	100	0	68	14	0	32	52	1.42
28663582--28663620	18	2.2	18	85	0	51	43	43	0	12	1.42
28663762--28663803	9	4.7	9	85	11	59	26	9	16	47	1.77
28666416--28666608	98	2.0	97	85	1	260	32	11	8	47	1.69
28666491--28666749	111	2.3	110	86	4	360	35	10	6	47	1.64
28666491--28666784	111	2.7	110	84	5	330	35	10	6	47	1.64
28666766--28666817	14	3.6	14	85	10	77	34	0	0	65	0.93
28666766--28666813	10	4.9	10	78	12	55	33	0	0	66	0.92
28667264--28667336	22	3.3	22	72	14	69	50	26	12	10	1.72
28667270--28667340	24	3.1	24	74	15	87	46	29	14	9	1.76

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