genome.fa.s9.2.7.7.80.10.50.1000.20.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:  38630433

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   

This is table  20  of  97  ( 11551 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)
8881967--8881996	15	2.0	15	100	0	60	0	0	6	93	0.35
8887242--8887336	47	2.0	47	100	0	190	8	33	10	47	1.68
8890143--8890179	18	2.1	18	94	0	65	0	24	2	72	0.97
8890431--8890484	26	2.0	26	82	10	63	51	1	0	46	1.11
8894257--8894298	12	3.6	12	83	3	59	30	28	0	40	1.57
8909145--8909242	27	3.7	26	83	5	115	47	10	6	35	1.62
8909225--8909325	27	3.8	26	75	10	69	39	6	10	42	1.67
8909781--8909822	21	2.0	20	86	4	57	40	2	0	57	1.12
8909901--8909941	2	20.5	2	84	0	55	0	48	2	48	1.14
8912675--8912705	15	2.1	15	100	0	62	19	29	38	12	1.89
8918589--8918656	2	34.5	2	88	8	104	45	0	1	52	1.09
8922326--8922414	46	1.9	46	93	4	153	26	21	11	40	1.87
8932934--8933000	31	2.2	30	89	5	100	35	17	11	34	1.87
8933065--8933159	45	2.1	45	88	0	136	29	22	18	29	1.98
8933087--8933229	69	2.1	69	86	0	196	25	19	19	34	1.96
8933065--8933627	114	4.8	114	87	4	644	24	20	22	31	1.98
8933156--8933272	45	2.6	45	86	2	146	25	18	19	35	1.95
8933186--8933279	45	2.1	45	91	0	152	23	18	24	34	1.96
8933201--8933344	69	2.1	69	94	0	252	21	19	25	34	1.97
8933270--8933394	45	2.8	45	91	1	205	21	21	24	32	1.98
8933360--8933418	24	2.4	24	91	2	91	16	16	27	38	1.91
8933315--8933459	70	2.1	69	90	1	227	22	20	24	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8933385--8933627	45	5.6	45	83	9	317	23	21	25	29	1.99
8933492--8933559	35	1.9	35	96	0	127	26	22	23	27	1.99
8933443--8933602	80	2.0	80	92	0	266	25	21	24	28	1.99
8937366--8937419	24	2.2	24	86	0	72	3	25	1	68	1.16
8939729--8939866	69	2.0	72	83	9	178	29	3	1	65	1.18
8940015--8940044	12	2.5	12	94	0	51	56	10	0	33	1.32
8940766--8940815	19	2.6	19	100	0	100	44	22	10	24	1.83
8953676--8953716	21	2.0	20	85	4	55	56	7	14	21	1.63
8957035--8957061	5	5.4	5	100	0	54	59	0	40	0	0.98
8958178--8958208	16	2.0	16	93	6	55	38	0	0	61	0.96
8960293--8960350	20	2.8	21	73	5	55	24	10	1	63	1.35
8960417--8960441	3	8.3	3	100	0	50	32	0	0	68	0.90
8960428--8960471	19	2.3	19	84	4	52	27	2	0	70	0.99
8960601--8960635	16	2.2	16	90	5	54	40	0	0	60	0.97
8962584--8962639	28	2.0	28	82	6	69	53	3	3	39	1.36
8962959--8963008	19	2.6	21	79	17	56	32	2	0	66	1.03
8988655--8988700	21	2.2	21	92	0	74	15	28	30	26	1.96
8992290--8992328	20	1.9	21	84	5	53	69	0	0	30	0.89
8992627--8992671	2	23.0	2	93	4	74	46	0	2	51	1.13
8992664--8992702	19	2.1	19	90	9	62	30	5	12	48	1.63
9001354--9001379	2	13.0	2	100	0	52	50	0	0	50	1.00
9004436--9004487	24	2.1	24	85	3	68	44	7	25	23	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9004448--9004496	24	2.0	24	88	0	71	40	10	26	22	1.86
9007721--9008880	580	2.0	580	92	1	1957	35	16	20	27	1.94
9016554--9016626	33	2.2	33	90	0	119	23	27	21	27	1.99
9018413--9018450	16	2.3	17	86	4	51	81	0	2	15	0.80
9019479--9019529	21	2.3	22	86	6	68	37	3	7	50	1.50
9020017--9020054	17	2.2	18	90	4	60	76	2	0	21	0.91
9020183--9020226	14	3.1	14	87	9	54	75	0	0	25	0.81
9020182--9020226	23	2.0	23	91	8	74	75	0	0	24	0.80
9020360--9020412	15	3.2	16	76	13	54	69	1	5	22	1.19
9020343--9020435	14	6.6	13	72	17	62	69	2	4	23	1.17
9021374--9021404	16	1.9	16	100	0	62	64	0	0	35	0.94
9022852--9022929	30	2.6	30	97	0	147	55	2	5	37	1.36
9026328--9026391	29	2.2	29	83	2	76	45	17	6	31	1.73
9030576--9030616	15	2.6	17	77	18	52	48	2	9	39	1.49
9031163--9031195	11	3.0	11	95	0	57	36	9	12	42	1.74
9033733--9033785	21	2.6	19	77	13	61	16	11	1	69	1.26
9033741--9033818	21	3.7	20	76	20	70	16	10	2	70	1.26
9049200--9049346	40	3.7	40	83	0	186	59	14	1	23	1.43
9049277--9049339	14	4.5	15	72	11	53	61	17	1	19	1.42
9049413--9049461	23	2.0	25	88	7	75	51	4	8	36	1.51
9053451--9053475	13	1.9	13	100	0	50	48	8	0	44	1.32
9054703--9054740	19	2.0	19	100	0	76	42	31	0	26	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9059121--9059151	11	2.8	11	95	0	53	64	3	0	32	1.09
9059917--9059987	35	2.0	35	86	0	97	16	16	25	40	1.90
9060178--9060250	21	3.5	21	69	14	69	49	5	2	42	1.40
9071855--9071893	12	3.1	13	81	7	53	64	17	0	17	1.30
9072843--9072882	3	13.3	3	100	0	80	67	0	0	32	0.91
9084922--9084959	18	2.1	18	95	0	67	34	13	18	34	1.89
9094528--9094643	25	4.5	25	73	14	92	45	13	9	31	1.76
9094551--9094914	81	4.4	82	81	6	346	45	12	8	33	1.73
9094755--9094891	55	2.4	56	73	13	129	45	10	8	34	1.70
9094537--9094905	24	13.4	29	66	22	122	43	13	9	34	1.75
9094855--9094915	32	1.9	32	89	0	95	44	11	4	39	1.62
9097449--9097491	13	3.4	13	81	18	63	53	2	6	37	1.41
9099283--9099330	23	2.1	23	88	3	71	20	6	4	68	1.28
9099740--9099857	59	2.0	59	91	0	191	34	11	11	41	1.79
9100036--9100092	18	3.2	18	76	0	60	38	24	17	19	1.93
9105627--9105674	14	3.4	14	77	11	53	2	18	4	75	1.07
9110177--9110337	53	3.0	53	95	0	286	29	11	22	36	1.90
9122936--9123058	61	2.0	60	95	1	219	25	21	11	41	1.86
9133213--9133240	2	14.0	2	100	0	56	0	50	0	50	1.00
9140504--9140551	15	3.1	15	81	3	51	47	2	8	41	1.45
9144449--9144804	24	14.8	24	82	2	320	42	18	16	23	1.89
9144902--9144965	32	2.0	32	87	6	94	42	9	12	35	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9144920--9144994	29	2.6	28	83	4	80	42	12	9	36	1.74
9145156--9145185	15	2.0	15	93	0	51	56	26	3	13	1.52
9147108--9147134	7	3.9	7	100	0	54	14	0	0	85	0.61
9149720--9149777	30	1.9	30	82	6	73	58	1	5	34	1.30
9150398--9150433	13	2.6	15	87	12	51	47	0	0	52	1.00
9150525--9150564	18	2.3	18	91	4	64	55	0	0	45	0.99
9151387--9151445	30	2.0	30	93	0	100	30	3	8	57	1.45
9153404--9153476	26	2.6	26	78	10	74	50	0	0	49	1.00
9155336--9155361	6	4.3	6	100	0	52	84	0	0	15	0.62
9177131--9177189	30	2.0	30	90	6	93	35	20	11	32	1.89
9181657--9181690	12	3.1	11	88	12	52	61	0	0	38	0.96
9181718--9181788	36	1.9	36	83	11	90	61	2	7	28	1.36
9192969--9192995	2	13.5	2	100	0	54	51	0	0	48	1.00
9194090--9194134	23	2.0	23	82	8	56	11	26	6	55	1.59
9200550--9200584	3	11.7	3	100	0	70	34	31	0	34	1.58
9200583--9200622	3	13.3	3	100	0	80	32	0	0	67	0.91
9217407--9217555	35	4.2	36	81	4	178	45	14	4	34	1.66
9217407--9217555	71	2.1	71	93	2	255	45	14	4	34	1.66
9217839--9217882	15	2.9	15	93	0	70	25	22	13	38	1.91
9222446--9222483	20	1.9	20	100	0	76	44	21	5	28	1.73
9224862--9224906	22	2.0	22	86	4	63	57	6	2	33	1.37
9224909--9224980	30	2.4	29	80	8	83	29	6	5	58	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9224932--9224989	30	1.9	30	92	0	98	29	5	10	55	1.55
9230421--9230479	29	2.0	30	86	6	84	38	8	11	40	1.72
9230881--9231023	75	1.9	75	86	0	205	13	33	8	44	1.75
9232694--9232745	24	2.2	23	83	10	61	32	3	5	57	1.40
9234325--9234374	17	3.0	16	78	21	50	72	2	0	26	0.96
9240286--9240353	14	4.6	14	73	20	57	50	1	0	48	1.10
9240445--9240475	16	1.9	16	93	0	53	54	0	0	45	0.99
9240498--9240583	26	3.1	28	69	21	67	45	0	1	53	1.07
9240849--9240900	21	2.5	21	90	0	77	1	46	26	25	1.63
9241298--9241323	4	6.5	4	100	0	52	26	0	46	26	1.53

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