genome.fa.s9.2.7.7.80.10.50.1000.89.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  89  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)
35064027--35064136	45	2.4	44	80	5	112	28	22	16	32	1.96
35066945--35066991	23	2.0	23	100	0	94	29	4	12	53	1.58
35068266--35068343	12	6.0	12	70	21	59	61	0	35	2	1.10
35068246--35068339	15	6.7	15	73	16	58	63	1	32	2	1.13
35078259--35078343	29	2.8	30	83	3	109	34	0	3	62	1.12
35078259--35078351	30	3.1	29	81	4	105	35	2	3	59	1.26
35080072--35080140	30	2.3	31	84	2	95	36	5	5	52	1.50
35080055--35080140	30	2.9	30	82	3	93	33	4	5	55	1.44
35082385--35082507	32	4.2	31	76	17	102	35	14	11	38	1.82
35082497--35082591	45	2.1	45	86	0	136	31	15	16	35	1.91
35082586--35082674	44	2.0	45	86	2	126	32	16	13	37	1.88
35091132--35091269	68	2.0	68	80	5	154	45	9	2	42	1.48
35093373--35093544	90	1.9	90	92	0	290	40	12	25	22	1.88
35105267--35105374	32	3.3	32	74	12	110	28	13	24	33	1.94
35105261--35105411	67	2.3	67	83	0	185	28	12	25	33	1.92
35110817--35111051	23	10.2	22	80	4	211	32	23	11	31	1.91
35110817--35111051	46	5.1	46	82	1	283	32	23	11	31	1.91
35110817--35111040	69	3.2	69	85	1	288	32	23	11	32	1.91
35111354--35111410	26	2.1	27	93	3	98	50	5	12	31	1.62
35111360--35111421	26	2.4	26	88	0	88	54	6	12	25	1.62
35113435--35113502	27	2.5	27	85	0	100	45	14	26	13	1.82
35113536--35113561	12	2.2	12	100	0	52	50	0	34	15	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35115397--35115452	23	2.4	23	81	0	76	37	32	10	19	1.86
35118081--35118130	2	25.5	2	95	4	93	50	0	0	50	1.00
35119901--35119983	35	2.4	35	81	4	105	48	14	14	22	1.80
35121634--35121709	2	41.0	2	85	15	110	47	0	52	0	1.00
35121740--35121785	2	23.0	2	100	0	92	50	0	50	0	1.00
35123343--35123560	105	2.1	105	97	0	418	14	22	18	44	1.86
35128331--35128372	15	2.6	16	85	11	50	54	0	0	45	0.99
35128335--35128368	8	4.4	8	85	7	52	55	0	0	44	0.99
35128331--35128364	15	2.2	16	94	5	61	55	0	0	44	0.99
35128612--35129063	133	3.4	132	84	3	566	15	42	14	28	1.85
35129783--35129813	16	1.9	16	100	0	62	77	0	12	9	0.99
35130391--35130448	6	8.9	7	78	21	56	74	1	24	0	0.92
35130391--35130448	18	3.0	20	78	12	68	74	1	24	0	0.92
35130479--35130528	18	2.9	17	82	8	66	74	0	26	0	0.83
35130479--35130531	17	3.2	16	82	17	65	73	0	26	0	0.83
35131525--35131573	19	3.1	15	81	18	55	67	2	2	28	1.13
35131525--35131575	17	3.0	17	78	16	61	68	1	1	27	1.11
35135078--35135146	35	2.0	35	91	2	113	20	1	18	59	1.46
35135111--35135209	40	2.5	40	88	0	144	25	2	16	56	1.51
35137968--35139212	618	2.0	618	98	0	2382	29	22	24	23	1.99
35144915--35145064	20	7.5	20	67	20	66	30	2	0	66	1.10
35146524--35146617	2	48.5	2	84	6	95	45	2	2	48	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35146893--35146970	35	2.2	35	79	4	86	48	11	8	30	1.70
35147123--35147162	15	2.6	15	84	4	53	75	2	0	22	0.93
35148353--35148440	35	2.5	35	79	0	104	51	13	13	21	1.76
35148353--35148487	70	1.9	70	84	3	182	45	19	14	20	1.84
35151514--35151543	4	7.5	4	92	0	51	23	0	3	73	0.98
35152919--35153145	101	2.3	100	86	2	321	21	36	13	28	1.92
35153122--35153167	24	1.9	24	86	0	65	19	45	8	26	1.79
35154311--35154345	2	18.0	2	88	5	54	51	0	0	48	1.00
35154983--35155067	15	5.5	15	71	20	61	69	1	3	25	1.12
35155322--35155399	14	5.7	14	68	27	51	71	0	5	23	1.05
35155320--35155385	26	2.6	24	79	11	78	75	0	4	19	0.97
35155355--35155399	3	15.3	3	82	17	51	68	0	2	28	1.01
35155322--35155385	23	2.7	24	80	11	78	75	0	4	20	0.99
35155327--35155396	11	6.0	11	76	20	54	71	0	5	22	1.07
35155324--35155399	17	4.3	17	75	9	71	71	0	5	23	1.07
35156739--35156824	27	3.2	26	80	15	95	12	8	2	76	1.09
35156746--35156810	20	3.1	21	82	10	71	12	9	1	76	1.07
35156762--35156816	23	2.5	22	85	8	69	14	9	1	74	1.14
35158593--35158640	4	12.0	4	86	0	60	47	6	0	45	1.27
35158594--35158640	12	3.9	12	88	0	67	48	6	0	44	1.28
35159712--35159793	15	5.6	14	80	12	78	25	1	0	73	0.91
35159728--35159775	18	2.5	20	93	6	82	22	0	0	77	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35161590--35161861	90	3.0	89	85	3	366	41	11	21	25	1.86
35161789--35161926	74	1.9	74	90	3	224	39	11	23	24	1.88
35165911--35165953	23	1.9	23	95	4	79	46	30	0	23	1.52
35165911--35166016	8	13.8	8	71	11	62	47	34	0	17	1.49
35165912--35166035	24	5.4	22	72	14	81	45	36	0	16	1.54
35165964--35166027	33	1.9	33	93	0	110	46	37	1	14	1.53
35177500--35177531	2	16.0	2	93	0	55	46	0	3	50	1.17
35181065--35181204	27	5.1	27	74	18	112	50	2	1	45	1.25
35196180--35196221	19	2.2	19	83	8	50	14	23	16	45	1.84
35204038--35204141	29	3.5	30	81	11	115	57	2	2	36	1.28
35215983--35216034	2	26.5	2	96	3	97	51	0	0	48	1.00
35217692--35217728	19	2.0	18	89	5	56	48	0	0	51	1.00
35221070--35221103	2	17.0	2	93	0	59	47	0	2	50	1.16
35229934--35230034	50	2.0	50	100	0	202	32	11	17	37	1.87
35233656--35233742	38	2.3	38	100	0	174	37	28	6	26	1.82
35254902--35254926	12	2.1	12	100	0	50	48	0	0	52	1.00
35255111--35255173	14	4.4	14	71	11	56	52	3	0	44	1.17
35255106--35255182	20	3.7	20	66	10	64	51	2	0	45	1.14
35255521--35255557	2	18.5	2	100	0	74	48	0	0	51	1.00
35263681--35263716	13	2.8	13	84	16	56	61	0	8	30	1.26
35263804--35263836	17	1.9	17	88	11	50	60	21	0	18	1.36
35266374--35266426	18	2.9	16	79	20	52	45	1	0	52	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35280108--35280153	19	2.4	19	88	0	65	45	0	0	54	0.99
35285503--35285528	2	13.0	2	100	0	52	50	0	0	50	1.00
35287894--35287923	14	2.1	14	100	0	60	20	0	6	73	1.05
35288084--35288131	20	2.6	18	79	20	55	35	0	4	60	1.16
35288091--35288131	20	2.0	20	86	9	57	41	0	4	53	1.22
35288084--35288135	17	2.9	17	75	22	52	32	0	5	61	1.20
35289848--35289902	22	2.5	22	71	11	58	27	9	18	45	1.79
35290054--35290101	23	2.1	23	92	0	78	41	25	8	25	1.83
35290054--35290117	23	2.8	23	85	4	76	39	23	10	26	1.88
35290564--35290646	35	2.4	35	97	0	157	49	0	1	49	1.08
35290583--35290646	20	3.5	20	69	20	66	51	0	0	48	1.00
35290629--35290660	16	2.0	16	93	0	55	65	0	0	34	0.93
35295554--35295613	29	2.1	29	100	0	120	41	10	31	16	1.81
35295987--35296039	21	2.5	20	82	8	61	58	1	1	37	1.20
35296999--35297024	3	8.7	3	100	0	52	0	34	0	65	0.93
35299645--35299712	34	2.0	34	94	0	118	25	22	16	36	1.94
35317250--35317305	20	2.8	21	78	10	64	46	3	0	50	1.19
35317677--35317720	2	22.5	2	90	4	72	47	2	0	50	1.13
35317475--35317932	240	1.9	239	86	4	652	41	7	5	45	1.54
35318624--35318682	30	2.0	30	86	0	82	57	3	0	38	1.15
35341819--35341916	2	49.5	2	97	2	189	48	0	51	0	1.00
35343253--35343290	14	2.7	14	87	0	58	34	5	15	44	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35343238--35343306	7	9.9	7	71	12	52	37	4	15	42	1.68
35374221--35374270	21	2.4	20	87	9	73	44	0	4	52	1.20
35375071--35375116	24	1.9	24	100	0	92	28	8	21	41	1.83
35405894--35405956	29	2.1	30	85	2	83	20	7	11	60	1.55
35432031--35432064	3	11.3	3	100	0	68	0	35	0	64	0.94
35432632--35432666	18	1.9	18	88	0	52	45	0	0	54	0.99
35433231--35433261	16	2.0	16	93	6	55	29	6	0	64	1.18
35433580--35433612	17	1.9	17	88	11	50	9	9	3	78	1.05
35442767--35442803	18	2.1	18	100	0	74	27	5	27	40	1.78
35455006--35455054	15	3.5	15	71	21	52	44	4	12	38	1.61

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