genome.fa.s5.2.7.7.80.10.50.1000.8.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: chr5
Parameters: 2 7 7 80 10 50 1000
Length:  39371879

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   

This is table  8  of  103  ( 12320 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)
3177128--3177198	6	11.0	6	77	8	52	46	0	1	52	1.09
3177134--3177240	53	2.0	53	82	10	130	43	3	0	51	1.26
3192431--3192461	1	31.0	1	93	0	53	0	0	96	0	0.05
3204788--3205045	125	2.1	124	81	7	290	44	11	13	30	1.79
3204897--3204965	28	2.6	26	81	4	75	43	14	11	30	1.81
3204940--3205250	98	3.2	98	77	9	348	42	13	14	29	1.84
3205230--3205287	25	2.3	25	81	3	62	44	12	10	32	1.75
3205946--3206014	2	35.5	2	83	11	81	46	2	1	47	1.26
3215788--3215946	79	2.0	79	87	0	228	42	14	15	27	1.85
3216106--3216142	18	2.0	20	84	10	51	37	8	13	40	1.74
3226474--3226601	35	3.7	35	88	0	184	42	14	18	23	1.88
3226485--3226642	35	4.5	35	84	4	140	44	12	17	25	1.84
3226474--3226666	70	2.8	70	81	1	208	45	13	16	24	1.83
3226886--3226941	29	1.9	29	96	0	103	17	28	7	46	1.75
3227169--3227193	13	1.9	13	100	0	50	20	32	0	48	1.50
3227233--3227275	22	2.0	21	95	0	68	13	39	13	30	1.84
3231335--3231363	2	14.5	2	100	0	58	0	0	48	51	1.00
3241034--3241066	17	2.0	17	88	5	50	54	9	0	36	1.32
3243725--3243777	26	2.0	26	96	0	97	32	11	15	41	1.82
3251457--3251485	15	1.9	15	100	0	58	24	20	34	20	1.97
3253706--3253748	2	21.5	2	95	0	77	48	0	2	48	1.14
3255765--3255796	16	2.0	16	93	0	55	12	21	12	53	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3257524--3257566	18	2.4	18	84	0	59	9	46	2	41	1.48
3257529--3257602	21	3.5	21	85	5	96	2	47	5	44	1.40
3257544--3257609	21	3.1	21	91	0	96	1	50	10	37	1.47
3257630--3257677	21	2.3	21	96	0	87	4	35	16	43	1.67
3261326--3261414	29	3.1	28	82	6	81	41	3	10	44	1.54
3261343--3261416	29	2.6	29	87	4	98	40	4	9	45	1.55
3261415--3261524	45	2.4	44	77	3	112	32	13	13	40	1.84
3261498--3261584	45	1.9	45	90	0	138	34	11	13	40	1.81
3266733--3266764	2	16.0	2	100	0	64	0	50	0	50	1.00
3280744--3280898	74	2.1	74	97	0	292	27	21	9	40	1.85
3295251--3295306	28	2.0	28	96	0	103	25	12	28	33	1.92
3317055--3317113	18	3.4	17	81	6	73	49	10	5	35	1.59
3320480--3320562	31	2.7	30	78	10	89	21	22	33	21	1.97
3323963--3324032	29	2.3	30	83	9	81	77	14	2	5	1.07
3323977--3324018	20	2.3	18	84	12	50	78	14	2	4	1.01
3323997--3324032	13	2.7	13	91	4	54	83	8	2	5	0.89
3323997--3324033	14	2.6	14	87	12	58	81	8	5	5	0.99
3325365--3325446	16	4.8	18	73	16	77	20	2	0	76	0.89
3325356--3325448	30	3.2	29	73	14	84	23	2	0	74	0.93
3325360--3325417	24	2.4	25	85	8	75	24	3	0	72	1.00
3325356--3325446	34	2.7	33	80	14	105	23	2	0	74	0.92
3325372--3325445	7	10.3	7	75	18	64	20	2	0	77	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3325492--3325558	3	24.0	3	79	11	63	25	2	0	71	1.00
3325499--3325569	16	4.4	16	72	16	67	21	1	1	76	0.95
3325499--3325562	13	5.2	12	73	17	51	21	1	0	76	0.87
3325516--3325569	19	2.8	19	75	13	65	20	1	1	75	0.98
3325492--3325569	39	2.0	39	82	9	97	23	2	1	73	1.03
3325497--3325560	33	2.0	32	85	8	87	23	1	0	75	0.90
3326605--3326647	10	4.3	10	82	11	52	18	0	0	81	0.69
3326605--3326651	20	2.4	20	89	3	69	19	0	0	80	0.70
3326610--3326652	14	3.0	14	90	10	61	23	0	0	76	0.78
3326606--3326651	24	1.9	24	90	0	74	19	0	0	80	0.71
3326611--3326649	10	3.9	10	87	12	53	23	0	0	76	0.78
3328083--3328125	17	2.4	18	81	11	54	41	2	2	53	1.26
3328950--3329008	23	2.6	23	86	7	68	42	6	5	45	1.52
3328961--3329008	23	2.1	22	92	3	78	41	6	4	47	1.48
3343861--3344036	80	2.2	80	93	4	311	34	9	1	53	1.41
3343899--3344023	39	3.2	39	62	20	96	32	11	0	55	1.41
3344391--3344448	4	16.0	4	73	20	56	0	27	0	72	0.85
3344317--3344468	79	1.9	78	85	10	211	2	32	2	61	1.23
3344394--3344450	17	3.3	17	92	7	89	0	28	0	71	0.86
3344314--3344468	83	1.9	79	83	10	197	2	32	2	61	1.23
3344959--3345017	32	1.9	30	86	13	84	16	3	3	76	1.06
3345519--3345678	75	2.1	75	86	1	223	40	11	8	40	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3361742--3361825	7	12.1	7	68	25	54	27	2	0	70	1.00
3361747--3361827	29	2.9	27	77	14	85	25	2	0	71	0.98
3361775--3361824	20	2.5	19	78	9	55	28	2	0	70	0.99
3362379--3362426	23	2.0	24	84	11	64	8	43	20	27	1.80
3373409--3373456	14	3.2	14	75	16	51	81	8	0	10	0.88
3374730--3374768	17	2.3	17	86	8	53	76	0	5	17	0.96
3375000--3375038	3	13.0	3	100	0	78	66	0	0	33	0.92
3375227--3375337	15	7.5	15	68	19	65	70	0	7	22	1.12
3375308--3375363	10	5.2	10	76	19	51	73	1	3	21	1.08
3375269--3375355	25	3.4	25	81	10	88	71	1	4	22	1.11
3375467--3375506	18	2.2	18	86	8	55	70	0	2	27	1.01
3381877--3381936	20	3.0	20	80	7	70	53	0	6	40	1.27
3384115--3384152	19	2.0	19	100	0	76	42	31	0	26	1.56
3385607--3385806	106	1.9	106	95	0	364	27	21	14	37	1.92
3386908--3386999	22	4.0	21	68	25	62	28	29	11	30	1.92
3386715--3387106	141	2.8	142	86	1	572	27	21	15	34	1.94
3387249--3387291	11	3.9	11	81	0	50	86	6	4	2	0.79
3387249--3387279	12	2.6	12	94	0	53	87	9	0	3	0.66
3387250--3387291	22	1.9	22	90	0	66	85	7	4	2	0.80
3387437--3387469	13	2.5	13	95	5	57	72	12	0	15	1.12
3388848--3388880	15	2.1	16	88	5	50	75	0	0	24	0.80
3388848--3388881	12	2.8	12	90	4	50	76	0	0	23	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3389225--3389327	15	7.1	15	69	18	58	72	0	6	20	1.06
3389268--3389360	19	5.0	19	74	12	70	74	0	4	21	0.99
3389233--3389348	36	3.2	35	76	10	110	73	0	6	20	1.04
3389261--3389360	34	2.8	36	80	11	109	74	0	4	22	0.99
3389225--3389358	26	5.5	24	68	17	82	73	0	5	20	1.04
3389261--3389360	11	9.0	11	70	21	66	74	0	4	22	0.99
3389453--3389499	16	3.1	15	85	11	60	72	0	4	23	1.02
3399581--3399615	16	2.2	16	89	0	52	37	0	40	22	1.55
3412561--3412661	52	1.9	52	100	0	202	34	15	11	37	1.85
3415605--3415667	33	1.9	33	90	0	99	31	6	0	61	1.21
3417585--3417617	7	4.9	7	85	7	50	75	0	0	24	0.80
3417589--3417624	13	2.8	13	91	0	54	77	0	0	22	0.76
3417583--3417620	10	3.7	10	89	3	58	76	0	0	23	0.79
3426129--3426173	22	2.0	22	100	0	90	26	17	4	51	1.65
3428735--3428768	16	2.1	16	94	0	59	52	38	0	8	1.33
3439495--3439557	27	2.3	27	77	0	72	17	28	23	30	1.97
3440576--3440601	2	13.0	2	100	0	52	50	0	0	50	1.00
3440656--3440710	6	9.2	6	77	15	51	20	3	0	76	0.94
3440801--3440868	10	6.0	11	71	19	59	29	0	1	69	0.98
3440801--3440880	21	3.8	20	75	9	70	28	1	1	68	1.05
3440823--3440895	8	8.5	8	79	11	74	28	1	1	68	1.06
3440801--3440891	36	2.5	36	77	10	98	29	1	1	68	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3440823--3440895	17	4.2	16	78	14	74	28	1	1	68	1.06
3442044--3442106	23	2.7	22	75	20	65	76	1	4	17	1.04
3442574--3442635	28	2.2	28	94	0	106	40	9	41	8	1.67
3443551--3443592	15	2.8	15	85	7	50	69	2	0	28	1.01
3443729--3443815	15	5.2	17	71	23	69	70	1	1	27	1.02
3443730--3443823	8	12.7	7	72	18	66	69	1	1	28	1.02
3443730--3443822	36	2.9	32	80	16	111	69	1	1	27	1.02
3443728--3443823	21	4.7	20	75	10	70	69	1	1	28	1.01
3443909--3443974	28	2.3	29	82	15	84	69	1	3	25	1.11
3474036--3474083	25	1.9	25	87	8	71	75	0	8	16	1.04

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