genome.fa.s9.2.7.7.80.10.50.1000.6.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  6  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)
2708540--2708572	2	16.5	2	100	0	66	0	51	0	48	1.00
2722981--2723016	17	2.1	17	89	0	54	41	2	0	55	1.14
2726552--2726603	23	2.3	23	90	3	79	28	7	3	59	1.43
2743160--2743207	6	8.0	6	88	0	69	18	64	2	14	1.38
2752117--2752202	6	14.3	6	74	4	66	17	32	19	30	1.95
2752112--2752184	30	2.4	30	97	0	137	17	32	19	30	1.95
2754622--2754646	4	6.2	4	100	0	50	76	0	0	24	0.80
2754844--2755036	95	2.0	95	95	0	350	31	17	21	29	1.96
2755771--2755805	3	11.7	3	100	0	70	65	0	0	34	0.93
2774081--2774129	16	3.1	15	77	8	53	67	2	0	30	1.02
2789696--2789745	12	4.2	12	84	0	64	18	34	36	12	1.87
2792029--2792088	29	2.1	29	84	6	77	50	13	13	23	1.77
2826004--2826032	2	14.5	2	100	0	58	0	48	0	51	1.00
2833041--2833065	2	12.5	2	100	0	50	48	0	0	52	1.00
2834862--2834887	11	2.4	11	100	0	52	61	0	0	38	0.96
2834933--2834963	14	2.2	14	94	0	53	35	0	6	58	1.24
2835107--2835131	13	1.9	13	100	0	50	24	4	0	72	1.02
2839618--2839701	42	2.0	42	100	0	168	47	21	19	11	1.81
2861751--2861809	29	2.0	29	100	0	118	20	10	20	49	1.77
2864689--2864717	12	2.4	12	100	0	58	0	68	13	17	1.20
2867377--2867415	20	2.0	20	100	0	78	66	2	20	10	1.33
2879720--2879804	43	2.0	43	81	4	100	48	4	1	45	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2890595--2890624	2	15.0	2	100	0	60	0	50	0	50	1.00
2918791--2918847	27	2.1	26	87	6	78	31	12	15	40	1.85
2921890--2921923	2	17.0	2	100	0	68	0	50	0	50	1.00
2924501--2924735	117	2.0	117	85	3	321	25	26	22	24	2.00
2924623--2924935	129	2.4	130	77	6	312	26	26	23	23	2.00
2928600--2928629	2	15.0	2	100	0	60	50	0	50	0	1.00
2932725--2933053	169	2.0	166	93	1	568	31	12	15	39	1.85
2958643--2958725	22	3.5	23	78	9	87	49	0	1	49	1.08
2958643--2958725	15	5.7	15	69	22	61	49	0	1	49	1.08
2958570--2958737	27	6.1	28	64	25	65	54	1	0	43	1.15
2958722--2958762	18	2.2	19	83	12	50	65	4	2	26	1.25
2976590--2977088	248	2.0	250	92	0	831	24	16	17	41	1.89
2982772--2982830	28	2.1	28	100	0	118	20	18	25	35	1.95
2988430--2988499	34	2.1	34	91	0	113	37	11	8	42	1.72
2988526--2988714	100	1.9	100	84	2	254	44	7	8	39	1.63
2997065--2997130	30	2.2	28	81	7	78	57	1	1	39	1.17
2997098--2997154	20	2.6	22	81	15	66	59	1	8	29	1.38
2999075--2999148	36	2.1	36	94	0	130	16	20	25	37	1.93
2999655--2999679	7	3.6	7	100	0	50	24	0	0	76	0.80
3014539--3014635	39	2.5	39	77	12	101	29	19	15	35	1.93
3021087--3021299	108	2.0	105	86	2	291	22	5	41	30	1.75
3026726--3026958	75	3.1	75	97	0	430	18	22	30	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3027697--3027812	39	3.0	39	79	5	144	23	25	18	31	1.97
3032284--3032330	18	2.6	18	83	6	60	53	0	0	46	1.00
3039640--3039707	27	2.4	27	82	7	82	66	0	0	33	0.92
3044539--3044565	3	9.0	3	100	0	54	33	0	66	0	0.92
3046082--3046128	4	12.2	4	82	8	62	72	0	27	0	0.85
3054642--3054680	2	19.5	2	94	0	69	48	0	2	48	1.15
3055406--3055472	30	2.2	30	83	0	89	49	5	4	40	1.48
3055578--3055637	30	2.0	30	83	6	77	38	13	5	43	1.66
3056882--3056936	21	2.6	21	97	0	101	60	0	29	10	1.31
3070144--3070192	21	2.3	21	100	0	98	34	10	40	14	1.79
3082102--3082175	23	3.2	23	98	0	139	25	33	8	32	1.85
3082989--3083041	1	53.0	1	90	0	79	1	3	94	0	0.37
3082989--3083041	22	2.4	22	96	0	97	1	3	94	0	0.37
3113871--3114149	144	1.9	143	95	1	497	19	15	23	41	1.89
3122559--3122585	2	13.5	2	100	0	54	48	0	0	51	1.00
3130542--3130576	6	5.8	6	100	0	70	65	0	34	0	0.93
3147270--3147334	1	65.0	1	96	0	121	0	1	0	98	0.11
3155898--3155934	2	18.5	2	94	0	56	51	5	0	43	1.24
3158105--3158153	23	2.3	22	86	10	66	65	0	0	34	0.93
3158103--3158154	21	2.5	20	82	14	61	65	0	0	34	0.93
3174666--3174695	3	10.0	3	92	0	51	30	0	3	66	1.07
3194548--3194604	27	2.1	28	83	3	71	45	3	1	49	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3201318--3201342	2	12.5	2	100	0	50	52	0	48	0	1.00
3206547--3206600	15	3.6	15	76	18	51	72	5	3	18	1.20
3206699--3206723	13	1.9	13	100	0	50	56	0	0	44	0.99
3209983--3210060	33	2.4	33	76	8	95	39	16	5	38	1.71
3210134--3210176	21	2.0	21	86	8	61	60	4	11	23	1.50
3211681--3211705	2	12.5	2	100	0	50	0	52	0	48	1.00
3219604--3219939	170	2.0	170	93	0	573	24	12	20	42	1.87
3229560--3229587	4	7.0	4	100	0	56	25	0	25	50	1.50
3232964--3233057	33	2.8	33	73	6	100	27	14	15	41	1.87
3241321--3241360	20	2.0	20	90	0	62	2	12	0	85	0.71
3241326--3241367	14	3.1	14	86	6	68	0	16	0	83	0.65
3241327--3241368	11	4.0	11	81	12	52	0	19	0	80	0.70
3244526--3244579	22	2.4	24	74	20	62	24	22	14	38	1.91
3248550--3248597	26	1.9	25	87	8	71	56	6	37	0	1.25
3250614--3250685	30	2.4	30	88	6	101	54	1	4	40	1.28
3250634--3250709	30	2.6	30	85	2	91	63	1	1	34	1.11
3256751--3256842	35	2.6	34	77	3	94	48	18	10	21	1.78
3266901--3266925	5	5.0	5	100	0	50	80	0	20	0	0.72
3275023--3275068	2	23.0	2	100	0	92	0	0	50	50	1.00
3282458--3282492	2	18.5	2	88	11	56	51	0	0	48	1.00
3299560--3299661	51	2.0	51	98	0	195	36	18	19	25	1.95
3320917--3320958	2	21.0	2	95	0	75	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3327330--3327371	15	2.7	16	77	7	59	28	0	0	71	0.86
3327352--3327428	31	2.5	31	82	14	90	41	2	0	55	1.13
3327332--3327405	29	2.9	24	73	21	69	40	0	0	59	0.97
3327505--3327571	30	2.2	30	84	5	91	28	16	31	23	1.96
3328019--3328227	107	1.9	108	92	0	348	36	13	4	44	1.65
3328027--3328227	108	1.9	107	91	1	303	35	14	4	45	1.65
3329174--3329241	30	2.3	30	84	5	84	22	30	22	25	1.99
3329190--3329252	30	2.1	30	82	2	74	25	36	19	19	1.94
3331057--3331132	31	2.4	32	78	12	86	28	6	17	47	1.72
3338758--3338807	21	2.4	21	96	0	91	36	10	12	42	1.76
3348372--3348440	34	2.0	34	100	0	138	36	20	11	31	1.88
3352356--3352565	108	1.9	108	94	1	368	44	3	14	37	1.62
3361595--3361691	29	3.3	29	92	2	151	36	7	12	44	1.70
3361616--3361708	29	3.0	32	89	7	131	34	8	12	44	1.74
3361687--3361761	26	3.0	26	83	9	84	28	12	14	45	1.80
3361595--3361734	58	2.4	57	79	10	151	33	8	13	44	1.74
3361934--3361988	23	2.3	24	78	15	60	49	1	7	41	1.41
3365733--3365759	2	13.5	2	100	0	54	0	48	0	51	1.00
3371703--3371855	23	6.7	22	84	7	164	28	11	22	37	1.89
3371708--3371841	67	2.0	69	86	4	191	27	11	21	39	1.87
3375720--3375994	137	2.0	137	93	0	469	24	31	16	27	1.96
3376616--3377013	151	2.6	151	80	6	423	31	17	19	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3378427--3378504	31	2.5	31	87	0	102	37	19	15	28	1.92
3379213--3379257	21	2.0	22	87	8	65	33	22	13	31	1.92
3379213--3379302	23	3.9	23	81	8	76	28	27	15	27	1.96
3379225--3379302	23	3.3	23	82	7	84	28	29	15	26	1.96
3379384--3379433	23	2.2	23	85	0	64	18	34	14	34	1.90
3379480--3379628	23	6.6	23	73	11	92	24	28	10	36	1.88
3379480--3379631	46	3.3	46	78	12	145	25	29	9	35	1.88
3379697--3379784	23	3.9	22	81	1	77	23	30	11	34	1.90
3380667--3380823	80	2.0	79	86	4	221	39	15	22	22	1.91
3402621--3402654	14	2.3	15	90	5	52	61	8	0	29	1.26

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