genome.fa.s8.2.7.7.80.10.50.1000.107.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  107  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)
39504915--39504971	23	2.5	21	76	15	51	35	1	1	61	1.17
39512244--39512337	47	2.0	47	97	0	179	42	9	6	41	1.63
39513285--39513534	123	2.0	124	99	0	493	46	5	2	45	1.39
39517125--39517157	16	2.0	17	88	5	50	48	9	0	42	1.35
39521404--39521454	24	2.2	24	85	3	68	23	1	41	33	1.66
39528953--39528982	3	10.0	3	100	0	60	33	0	0	66	0.92
39530213--39530252	15	2.7	15	88	0	53	12	40	42	5	1.64
39536599--39536636	3	12.7	3	100	0	76	0	31	0	68	0.90
39551762--39551791	2	15.0	2	92	0	51	50	3	0	46	1.18
39553078--39553126	25	1.9	26	83	4	64	14	8	36	40	1.75
39553599--39553706	56	1.9	56	94	0	189	25	24	20	30	1.98
39553512--39553796	143	2.0	143	88	0	417	25	23	20	30	1.99
39553727--39553866	44	3.2	43	66	13	115	27	23	22	25	2.00
39553648--39553876	87	2.6	87	92	0	386	24	23	22	30	1.99
39555109--39555142	12	2.8	12	86	4	50	14	11	0	73	1.10
39555519--39555581	28	2.3	26	79	10	72	11	9	6	73	1.26
39557945--39557988	20	2.1	21	83	4	54	11	22	11	54	1.68
39560302--39560331	2	15.0	2	92	0	51	50	3	0	46	1.18
39561714--39561746	16	2.1	16	88	5	50	9	6	9	75	1.18
39571149--39571232	3	28.0	3	83	7	100	65	1	1	32	1.08
39582330--39582361	16	1.9	17	93	6	57	0	9	3	87	0.64
39582330--39582362	8	4.1	8	85	14	50	0	9	3	87	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39591970--39591996	14	1.9	14	100	0	54	77	7	0	14	0.97
39591992--39592026	3	11.7	3	93	0	61	65	0	2	31	1.07
39596648--39596713	23	2.8	24	79	4	80	16	24	24	34	1.95
39596582--39596713	26	5.3	25	75	9	94	18	21	22	36	1.95
39598007--39598278	3	90.7	3	100	0	544	33	0	0	66	0.92
39602935--39603073	49	2.8	48	80	6	154	45	20	20	13	1.85
39603498--39603698	108	1.9	108	82	6	255	25	15	10	47	1.78
39604465--39605167	50	14.1	50	73	1	528	32	22	20	24	1.98
39604467--39605149	100	6.8	100	88	0	952	32	22	20	24	1.98
39605190--39605303	44	2.6	44	81	2	131	25	21	25	28	1.99
39605912--39605945	17	2.0	17	94	0	59	38	41	8	11	1.73
39607096--39607349	3	84.0	3	94	0	427	31	1	1	64	1.12
39614784--39615019	45	5.2	45	77	8	228	32	16	20	30	1.95
39614784--39615087	94	3.3	92	81	5	301	32	17	20	29	1.95
39614738--39615047	139	2.3	132	79	5	325	33	16	19	30	1.94
39616159--39616198	3	13.3	3	100	0	80	32	0	0	67	0.91
39618682--39618772	44	2.1	44	89	0	137	28	10	13	47	1.76
39629072--39629119	23	2.0	25	84	8	64	8	16	2	72	1.18
39630918--39631055	21	6.6	21	73	1	107	21	20	17	41	1.91
39630949--39631084	42	3.2	42	82	0	164	17	21	19	41	1.90
39630919--39631078	21	7.7	21	73	1	88	19	20	18	41	1.91
39646716--39646757	21	2.0	21	85	0	57	19	45	7	28	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39646715--39646780	27	2.4	27	75	5	62	18	46	6	28	1.72
39652705--39652729	12	2.1	12	100	0	50	84	0	0	16	0.63
39657819--39657850	5	6.2	5	92	7	55	40	0	18	40	1.51
39658340--39658464	26	5.0	26	75	9	93	18	26	21	33	1.96
39658412--39658472	24	2.6	24	84	5	72	18	24	21	36	1.95
39664987--39665048	31	2.0	31	83	0	79	33	25	4	35	1.78
39667768--39668182	230	1.8	230	96	1	769	24	13	17	44	1.85
39671125--39671156	14	2.1	16	88	11	50	15	9	53	21	1.70
39671791--39671823	4	8.2	4	93	0	57	72	3	0	24	0.98
39671790--39671821	16	2.0	16	100	0	64	68	6	0	25	1.12
39676922--39676953	15	2.1	15	94	0	55	43	21	31	3	1.68
39678188--39678470	141	2.0	142	96	0	523	36	12	10	39	1.78
39681563--39681638	36	2.1	36	82	4	91	53	1	6	38	1.35
39681825--39681861	16	2.3	16	95	0	65	37	2	35	24	1.70
39681841--39681931	44	2.0	46	89	4	141	26	3	29	40	1.72
39681841--39681948	46	2.5	44	81	11	127	28	2	30	37	1.71
39682865--39682908	2	22.5	2	81	4	54	50	2	2	45	1.27
39683213--39683257	11	4.4	11	81	10	51	62	0	6	31	1.21
39684409--39684452	14	2.9	15	83	12	54	79	0	2	18	0.83
39685380--39685406	7	3.9	7	100	0	54	0	11	0	88	0.50
39695733--39695826	47	2.0	47	97	0	179	27	11	21	39	1.88
39710395--39710429	18	1.9	18	88	0	52	80	0	2	17	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39710388--39710453	27	2.4	27	82	5	71	74	1	3	21	1.04
39712394--39712428	1	35.0	1	100	0	70	0	0	0	100	0.00
39715247--39715296	21	2.4	21	90	3	75	34	22	18	26	1.96
39717041--39717093	19	2.8	18	78	18	54	32	20	5	41	1.76
39719042--39719287	101	2.4	101	91	0	393	32	15	23	28	1.95
39721978--39722163	26	7.5	24	70	11	92	18	26	23	32	1.97
39722004--39722163	48	3.3	48	75	9	135	18	26	22	31	1.97
39725100--39725144	20	2.2	20	96	0	81	33	31	26	8	1.87
39731867--39732169	44	6.8	44	75	10	213	33	17	18	29	1.94
39731864--39732101	89	2.8	85	85	2	296	33	17	18	30	1.94
39731864--39732111	85	2.9	86	85	2	309	33	17	19	30	1.95
39731914--39732155	129	1.8	131	83	8	319	33	17	18	30	1.94
39732076--39732181	51	2.1	51	89	0	158	36	17	16	28	1.93
39732127--39732216	44	2.0	44	82	0	108	36	13	17	32	1.89
39733946--39733998	21	2.5	22	81	9	56	22	7	1	67	1.25
39744175--39745523	674	2.0	674	100	0	2698	38	14	11	34	1.83
39745957--39746083	46	2.9	44	76	16	115	64	6	1	27	1.27
39746026--39746083	10	5.6	11	72	13	52	65	3	0	31	1.09
39746070--39746104	17	2.1	17	88	0	52	48	0	0	51	1.00
39751193--39751316	41	3.0	41	83	4	169	28	25	24	21	1.99
39752642--39752678	18	2.1	18	89	0	56	54	2	2	40	1.29
39761498--39761531	17	1.9	18	88	5	52	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39763222--39763256	17	2.0	18	88	5	54	51	0	8	40	1.33
39764839--39765172	44	7.7	44	69	13	163	29	24	18	27	1.98
39764822--39765598	217	3.6	216	89	3	1151	27	24	18	28	1.98
39765283--39765596	44	7.2	45	65	14	140	28	24	18	28	1.98
39764841--39765607	216	3.6	215	86	5	802	27	24	18	28	1.98
39765588--39766449	128	6.8	128	89	4	1291	25	22	19	32	1.98
39773070--39773104	17	2.0	18	88	5	54	51	0	8	40	1.33
39788887--39788939	19	2.7	19	75	13	54	69	3	0	26	1.05
39797077--39797238	40	4.1	40	89	0	247	16	17	26	39	1.91
39799687--39799728	21	2.0	22	86	13	61	52	2	2	42	1.27
39803742--39803785	18	2.4	18	92	0	70	40	40	2	15	1.60
39803888--39803963	9	8.4	9	89	0	98	26	11	22	39	1.88
39803894--39803963	27	2.6	27	90	0	113	24	11	24	40	1.88
39804209--39804250	20	2.1	20	100	0	84	23	9	19	47	1.78
39808001--39808044	18	2.4	19	81	11	65	36	6	4	52	1.49
39808067--39808099	15	2.1	16	94	5	59	42	12	0	45	1.41
39819959--39820574	45	13.9	45	78	5	488	31	17	24	27	1.97
39824019--39824077	22	2.7	21	81	2	64	59	15	10	15	1.61
39839740--39839768	15	2.0	15	93	6	51	41	27	3	27	1.72
39840990--39841049	26	2.3	26	97	2	113	60	3	6	30	1.39
39844228--39844279	23	2.3	21	81	12	59	34	3	5	55	1.42
39853315--39853431	22	5.3	22	75	8	112	16	21	17	44	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39853303--39853436	44	3.0	44	82	0	169	17	21	16	44	1.86
39860802--39860921	62	2.0	61	93	1	204	34	26	16	22	1.95
39865166--39865806	45	14.2	45	95	1	1077	26	23	16	33	1.96
39865937--39866820	441	2.0	441	100	0	1768	33	17	9	38	1.83
39867049--39867085	18	2.1	18	100	0	74	45	16	10	27	1.80
39868376--39868597	15	14.8	15	75	5	180	27	22	22	28	1.99
39868377--39868596	30	7.3	30	79	3	210	26	22	22	28	1.99
39868798--39868834	3	12.3	3	100	0	74	35	0	32	32	1.58
39870659--39870699	18	2.2	20	86	8	59	65	14	0	19	1.26
39873620--39873684	30	2.2	30	91	0	103	20	24	30	24	1.98

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