genome.fa.s8.2.7.7.80.10.50.1000.7.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  7  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)
3092861--3092904	21	2.1	21	87	8	63	20	2	22	54	1.56
3093074--3093135	32	2.0	31	90	3	97	20	17	11	50	1.77
3105284--3105335	24	2.2	24	85	0	68	50	11	3	34	1.57
3120245--3120288	20	2.3	19	84	4	52	20	2	6	70	1.21
3121063--3121108	20	2.2	20	85	11	58	30	8	10	50	1.68
3126913--3126946	1	34.0	1	87	0	50	0	5	0	94	0.32
3130984--3131032	17	2.7	18	81	9	55	40	10	14	34	1.79
3132539--3132606	22	3.1	22	83	8	93	42	19	23	14	1.88
3132541--3132630	22	3.8	25	78	12	77	38	21	23	16	1.92
3134004--3134136	37	3.5	38	72	9	119	30	5	12	51	1.61
3134000--3134146	76	1.9	77	87	4	217	30	4	11	53	1.58
3134002--3134179	76	2.4	77	81	5	211	33	4	9	52	1.54
3134154--3134196	3	14.3	3	100	0	86	32	0	0	67	0.91
3135773--3135830	12	4.8	12	78	0	53	8	27	39	24	1.84
3137451--3138159	148	4.6	156	92	5	1037	29	9	8	51	1.65
3138145--3138177	17	1.9	17	93	0	57	9	9	6	75	1.18
3138365--3138403	20	2.0	20	95	5	71	71	7	0	20	1.10
3138477--3138523	6	8.0	6	92	2	69	0	44	0	55	0.99
3138480--3138568	30	3.0	29	85	6	117	0	37	0	62	0.95
3138526--3138567	19	2.2	20	91	4	68	0	30	0	69	0.89
3150043--3150188	71	2.1	71	100	0	292	34	18	10	35	1.86
3151112--3151162	23	2.0	23	85	14	66	37	3	1	56	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3155367--3155498	31	4.1	31	74	7	138	31	6	10	52	1.60
3162733--3162817	31	2.7	31	81	1	98	54	1	3	41	1.25
3163677--3164151	126	3.8	125	85	3	632	31	17	21	29	1.96
3163679--3164151	250	1.9	251	88	2	718	31	17	21	29	1.96
3165912--3165966	27	2.0	27	86	6	76	29	12	30	27	1.93
3166720--3166757	20	1.9	20	84	10	51	55	7	2	34	1.43
3167760--3167814	22	2.5	21	85	11	74	47	1	25	25	1.62
3167763--3167818	11	4.9	12	75	16	57	46	1	26	25	1.63
3170963--3171027	23	2.9	23	81	6	71	41	4	7	46	1.53
3175608--3175645	5	7.6	5	93	0	67	78	0	21	0	0.74
3180706--3180740	14	2.4	14	90	4	52	51	2	0	45	1.16
3180718--3181302	295	2.0	295	100	0	1170	36	17	9	36	1.83
3189207--3189236	16	1.9	16	93	6	53	0	10	0	90	0.47
3191245--3191274	3	10.3	3	92	7	53	66	0	0	33	0.92
3191248--3191274	14	1.9	14	100	0	54	66	0	0	33	0.92
3209033--3209066	17	2.0	17	94	0	59	38	0	0	61	0.96
3209157--3209215	11	5.5	11	76	15	61	37	3	0	59	1.14
3209158--3209230	31	2.3	32	90	6	114	38	2	0	58	1.12
3209198--3209251	20	2.5	21	85	8	65	37	0	3	59	1.15
3223137--3223176	20	2.0	20	90	0	62	50	12	10	27	1.72
3223125--3223191	34	1.9	35	90	3	109	46	13	8	31	1.74
3225289--3225420	67	2.0	67	93	0	228	26	32	18	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3225549--3225688	57	2.4	59	84	8	187	21	25	22	30	1.98
3229552--3229586	2	17.5	2	93	0	61	48	0	2	48	1.16
3233727--3233807	42	1.9	42	92	0	135	48	14	20	16	1.81
3235516--3235567	26	2.0	26	96	0	95	36	3	21	38	1.72
3236932--3236975	21	2.1	21	95	0	79	59	11	0	29	1.32
3237009--3237046	19	1.9	19	89	5	58	57	7	0	34	1.28
3237045--3237111	27	2.5	27	97	0	125	11	32	23	31	1.91
3237196--3237228	17	1.9	17	88	11	50	57	3	0	39	1.14
3250940--3251017	38	2.1	38	100	0	156	17	17	7	56	1.64
3260624--3260679	2	28.0	2	85	0	76	42	3	3	50	1.37
3266695--3266732	20	1.9	20	88	0	58	44	5	7	42	1.56
3293700--3293747	22	2.2	21	79	13	53	2	27	4	66	1.21
3293754--3293788	5	7.4	5	90	9	56	57	0	0	42	0.99
3293754--3293788	14	2.5	15	90	9	56	57	0	0	42	0.99
3293760--3293798	19	2.2	19	86	9	55	61	0	0	38	0.96
3294692--3294730	16	2.4	16	100	0	78	20	41	25	12	1.88
3296142--3296186	19	2.4	19	88	7	65	44	13	0	42	1.43
3297824--3297860	18	2.1	17	90	5	56	70	0	5	24	1.08
3299463--3299593	64	2.0	65	92	4	221	27	16	16	39	1.90
3299896--3300385	236	2.0	239	92	3	815	34	16	16	32	1.91
3305629--3305661	12	2.8	12	86	4	50	45	0	0	54	0.99
3311199--3311254	9	6.1	9	72	12	51	51	1	3	42	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3322598--3322627	15	2.0	15	100	0	60	6	33	6	53	1.53
3327249--3327322	33	2.2	33	82	0	85	37	17	20	24	1.93
3330010--3331200	594	2.0	594	90	1	1870	34	19	14	31	1.91
3332076--3332701	312	2.0	313	99	0	1236	52	13	6	27	1.64
3333722--3333786	24	2.8	24	88	2	96	43	21	10	24	1.84
3333846--3333898	24	2.2	24	100	0	106	47	22	11	18	1.81
3345381--3345447	33	2.0	34	94	2	118	46	4	20	28	1.70
3352370--3353055	340	2.0	342	99	0	1358	39	12	11	36	1.79
3353083--3353112	15	1.9	16	93	6	53	66	0	0	33	0.92
3362729--3362774	24	1.9	24	86	0	65	47	6	6	39	1.55
3380927--3380957	3	10.3	3	100	0	62	67	0	0	32	0.91
3382930--3383222	125	2.4	125	87	0	417	27	16	23	32	1.96
3390818--3390863	21	2.2	21	81	18	60	50	4	2	43	1.34
3391422--3391455	17	2.0	17	94	0	59	38	0	0	61	0.96
3391448--3391487	21	1.9	21	89	0	62	37	2	0	60	1.11
3391447--3391505	22	2.8	21	80	14	59	42	1	1	54	1.20
3395399--3395596	101	2.0	101	95	0	360	40	19	13	27	1.88
3396873--3396898	6	4.3	6	100	0	52	30	19	30	19	1.96
3399071--3399123	1	53.0	1	96	0	97	98	1	0	0	0.14
3403626--3403675	22	2.3	22	83	12	68	18	30	2	50	1.58
3406090--3406123	14	2.5	14	90	4	52	29	0	11	58	1.33
3444832--3444864	17	1.9	17	100	0	66	57	6	18	18	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3457870--3457937	26	2.5	27	77	15	70	51	5	8	33	1.57
3458520--3458781	46	5.7	46	96	0	470	28	22	15	33	1.95
3465779--3465819	21	2.0	21	90	9	68	70	0	0	29	0.87
3466290--3466319	11	2.7	11	89	0	51	76	3	6	13	1.11
3474010--3474156	75	2.0	75	93	0	249	40	17	16	25	1.90
3485181--3485372	95	2.0	96	98	1	377	29	8	13	48	1.71
3486586--3486618	13	2.3	15	90	10	52	75	9	6	9	1.18
3488983--3489026	23	2.0	23	86	4	63	40	4	9	45	1.56
3491357--3491392	2	18.0	2	94	0	63	0	47	0	52	1.00
3492244--3492517	137	2.0	137	96	1	505	28	15	18	37	1.91
3508093--3508118	12	2.2	12	100	0	52	26	15	0	57	1.38
3510402--3510467	26	2.5	25	92	7	105	34	0	0	65	0.93
3521118--3521149	5	6.4	5	100	0	64	56	21	0	21	1.43
3522712--3522851	47	3.0	47	70	17	148	46	4	2	46	1.37
3522689--3522812	44	2.8	44	72	17	119	47	2	3	46	1.31
3523051--3523100	24	2.1	24	96	0	91	26	14	20	40	1.90
3527103--3527148	20	2.3	20	82	13	60	65	0	2	32	1.05
3529807--3529856	25	2.0	25	84	7	66	40	0	0	60	0.97
3551925--3551980	23	2.4	23	87	0	76	44	21	7	26	1.78
3552584--3553114	274	2.0	257	89	1	670	40	10	17	28	1.83
3555610--3555697	45	2.0	45	86	0	122	28	17	20	34	1.95
3555743--3555786	23	1.9	22	82	17	54	38	0	25	36	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3559028--3559170	41	3.5	41	90	0	232	30	18	19	31	1.96
3559028--3559186	41	3.9	41	86	3	160	30	19	20	29	1.97
3561218--3561300	21	4.0	21	83	0	112	45	15	22	15	1.84
3562511--3562842	165	2.0	167	98	1	650	39	17	7	35	1.77
3572227--3572260	17	1.9	18	88	5	52	17	11	8	61	1.54
3588434--3588780	176	2.0	165	90	7	545	44	13	13	28	1.82
3599484--3599529	19	2.3	21	77	7	51	52	0	2	45	1.13
3601241--3601273	2	17.5	2	87	12	52	54	0	0	45	0.99
3601241--3601273	15	2.2	15	100	0	66	54	0	0	45	0.99
3601241--3601266	13	2.0	13	100	0	52	53	0	0	46	1.00

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