genome.fa.s9.2.7.7.80.10.50.1000.81.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  81  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)
32055237--32055280	18	2.4	18	81	7	54	40	0	2	56	1.11
32055937--32056102	26	6.1	26	67	18	79	47	12	8	31	1.70
32056731--32056786	25	2.3	25	75	12	62	42	1	0	55	1.10
32078117--32078150	17	2.0	17	100	0	68	23	17	47	11	1.81
32078121--32078158	17	2.2	17	90	0	58	28	21	42	7	1.81
32092242--32092294	23	2.2	24	83	3	72	67	3	0	28	1.07
32092236--32092294	12	5.0	12	78	10	50	66	3	0	30	1.08
32092433--32092487	18	3.1	18	89	0	92	40	20	10	29	1.86
32092692--32092735	22	2.0	22	100	0	88	9	77	9	4	1.12
32096624--32096655	2	16.0	2	100	0	64	50	0	0	50	1.00
32102764--32102829	27	2.4	27	100	0	132	15	48	7	28	1.72
32108271--32108299	2	14.5	2	100	0	58	48	0	0	51	1.00
32118713--32118825	21	5.5	21	80	7	117	46	24	7	21	1.76
32118659--32118822	62	2.7	63	81	6	158	45	24	6	23	1.75
32118742--32118820	20	3.9	20	85	9	99	45	26	6	21	1.75
32118742--32118820	40	2.0	40	89	2	122	45	26	6	21	1.75
32124612--32125331	367	2.0	369	86	2	1027	33	21	19	25	1.97
32143126--32143172	20	2.5	18	86	6	58	57	0	2	40	1.11
32143518--32143556	19	2.0	20	90	5	62	56	0	0	43	0.99
32143481--32143533	28	1.9	28	84	3	72	66	0	1	32	1.03
32145180--32146133	349	2.8	339	83	8	1116	40	7	6	44	1.60
32145765--32145796	15	2.1	15	94	0	55	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32146086--32146118	15	2.1	17	88	11	52	54	6	0	39	1.25
32148078--32148279	28	7.3	28	79	8	234	37	8	13	40	1.76
32148078--32148281	55	3.7	55	81	8	252	36	8	13	40	1.76
32148068--32148279	83	2.6	83	85	7	288	36	8	14	39	1.78
32149043--32149098	29	1.9	29	85	0	76	28	16	8	46	1.77
32149176--32149232	27	2.2	25	81	6	60	47	8	3	40	1.52
32150025--32150078	20	2.8	20	81	18	78	51	0	5	42	1.25
32150068--32150115	22	2.2	22	88	3	71	45	0	8	45	1.33
32151451--32151487	19	2.0	18	89	5	56	45	2	0	51	1.15
32152847--32152931	29	2.9	28	70	21	68	34	4	5	55	1.45
32152890--32152950	30	2.0	30	83	0	77	34	8	6	50	1.58
32153227--32153253	3	9.0	3	100	0	54	33	0	0	66	0.92
32169636--32169660	2	12.5	2	100	0	50	52	0	48	0	1.00
32169710--32169750	2	20.5	2	100	0	82	51	0	48	0	1.00
32169967--32170001	6	5.5	6	90	10	52	65	0	34	0	0.93
32172285--32172512	113	2.0	116	88	7	351	63	0	5	30	1.17
32173248--32173289	2	21.5	2	95	4	77	47	0	0	52	1.00
32185718--32185747	11	2.7	11	94	0	51	30	13	23	33	1.93
32187433--32187532	36	2.8	36	90	0	146	19	16	40	25	1.91
32187595--32187639	2	22.0	2	86	4	63	46	4	0	48	1.22
32193145--32193184	21	1.9	21	84	0	53	32	0	27	40	1.57
32196455--32196717	146	1.8	143	82	5	336	39	30	9	20	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32201463--32201560	29	3.3	29	67	5	72	35	16	4	43	1.67
32202890--32202943	27	2.0	27	96	0	99	44	12	14	27	1.82
32203375--32203417	20	2.2	20	87	4	61	41	2	2	53	1.26
32203552--32203651	50	2.0	50	88	0	146	29	22	19	30	1.97
32205073--32205419	57	6.1	57	98	0	676	33	19	14	33	1.91
32218543--32218751	104	2.0	104	94	0	366	44	9	11	33	1.74
32219008--32219214	27	7.6	27	79	4	202	35	8	14	41	1.76
32219029--32219248	54	4.1	54	80	6	225	34	10	16	39	1.82
32219095--32219226	28	4.9	27	73	3	86	34	12	14	39	1.83
32219009--32219214	81	2.5	82	81	3	229	35	8	14	41	1.76
32219011--32219208	109	1.8	109	86	4	292	36	9	14	40	1.77
32219011--32219232	109	2.0	109	84	3	286	36	9	13	39	1.78
32220189--32220219	15	2.1	15	100	0	62	25	0	35	38	1.56
32221863--32221895	3	11.3	3	93	6	59	63	0	0	36	0.95
32222475--32222508	17	1.9	18	88	5	52	29	2	5	61	1.34
32232198--32233218	253	4.0	255	95	0	1796	26	16	17	39	1.90
32243518--32243565	16	2.7	18	78	15	64	56	16	6	20	1.62
32247306--32247334	9	3.3	9	90	9	51	48	20	10	20	1.79
32254141--32254171	2	15.5	2	100	0	62	51	0	0	48	1.00
32254128--32254377	136	1.9	132	96	2	455	40	5	15	37	1.71
32254276--32254307	2	16.0	2	100	0	64	50	0	0	50	1.00
32257355--32257499	2	75.0	2	75	18	103	45	2	2	48	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32257354--32257407	5	10.8	5	80	11	58	55	1	0	42	1.10
32257383--32257516	17	7.9	17	72	18	86	41	1	2	53	1.25
32257383--32257516	18	7.9	16	71	19	62	41	1	2	53	1.25
32270503--32270787	148	1.9	153	79	5	330	39	10	13	36	1.79
32271326--32271403	34	2.3	34	82	4	95	43	20	10	25	1.83
32273799--32273838	2	20.0	2	84	0	53	50	0	7	42	1.30
32273799--32273838	12	3.3	12	92	0	62	50	0	7	42	1.30
32277325--32277367	15	2.7	15	89	7	59	60	0	0	39	0.97
32280787--32280853	5	13.2	5	76	14	50	26	1	0	71	0.94
32282208--32282343	47	2.9	47	82	2	148	32	4	14	48	1.64
32283775--32283819	11	4.6	10	79	20	51	26	2	0	71	0.98
32283776--32283853	14	6.1	13	72	12	63	23	2	1	73	1.03
32283781--32283856	17	4.6	16	75	17	66	23	1	1	73	0.98
32283816--32283865	24	2.0	25	84	3	66	22	6	2	70	1.20
32283825--32283885	24	2.6	24	81	2	61	19	11	1	67	1.30
32283977--32284048	3	25.3	3	77	13	64	26	1	1	70	1.03
32283977--32284059	16	4.9	16	75	16	71	26	1	1	71	1.01
32284318--32284360	12	3.2	13	81	18	52	20	0	0	79	0.74
32284315--32284360	22	2.1	22	88	8	67	21	0	0	78	0.76
32284571--32284622	26	2.0	27	81	11	63	26	1	0	71	0.97
32284748--32284795	21	2.2	23	85	7	64	50	6	4	39	1.47
32285031--32285055	13	1.9	13	100	0	50	8	20	0	72	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32285230--32285487	76	3.4	76	85	4	342	19	37	14	27	1.91
32285482--32285521	20	2.0	20	90	0	62	15	40	20	25	1.90
32285406--32285596	96	2.0	94	82	6	233	17	39	17	25	1.91
32287533--32287578	21	2.2	21	78	14	51	43	4	0	52	1.21
32288064--32288099	2	18.0	2	88	0	54	44	0	5	50	1.25
32288994--32289018	13	1.9	13	100	0	50	32	8	20	40	1.81
32289216--32289288	19	3.9	19	98	1	139	21	10	15	52	1.73
32289201--32289288	38	2.4	36	90	7	135	22	11	13	52	1.72
32313095--32313628	175	3.0	176	90	2	802	32	17	8	41	1.80
32315707--32315747	21	2.0	21	90	9	66	46	7	17	29	1.74
32333739--32333825	43	2.0	44	93	2	149	52	12	12	21	1.72
32335080--32335133	20	2.6	20	77	16	56	40	3	1	53	1.29
32335399--32335437	19	2.0	20	85	5	53	56	0	0	43	0.99
32335423--32335479	30	1.9	30	85	3	80	35	1	0	63	1.05
32340913--32341109	99	2.0	99	93	0	340	38	13	22	25	1.90
32346181--32346223	20	2.2	20	86	0	59	23	2	6	67	1.27
32350333--32350389	15	3.8	15	81	11	55	29	1	3	64	1.20
32351707--32351736	15	2.0	15	93	0	51	10	0	6	83	0.81
32352113--32352146	16	2.2	16	89	5	52	17	0	0	82	0.67
32352377--32352408	2	16.0	2	93	0	55	50	3	0	46	1.17
32352622--32352683	2	30.5	2	87	9	90	48	0	3	48	1.17
32364491--32364516	6	4.3	6	100	0	52	0	15	65	19	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32373161--32373202	2	21.0	2	100	0	84	50	0	0	50	1.00
32377329--32377367	19	2.1	19	85	4	53	38	0	2	58	1.12
32377504--32377550	16	2.7	18	74	12	53	36	4	0	59	1.17
32377513--32377550	19	2.1	18	85	14	51	44	2	0	52	1.14
32377718--32377753	19	1.9	19	88	5	56	52	2	0	44	1.15
32377802--32377826	13	1.9	13	100	0	50	84	0	0	16	0.63
32384798--32384826	11	2.7	11	94	5	51	27	6	0	65	1.18
32391668--32391700	2	16.5	2	100	0	66	51	0	0	48	1.00
32391948--32392017	17	4.1	18	68	20	51	38	7	1	52	1.38
32392010--32392047	15	2.5	15	84	16	51	52	2	0	44	1.14

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