genome.fa.s11.2.7.7.80.10.50.1000.12.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: Chr12
Parameters: 2 7 7 80 10 50 1000
Length:  24583705

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   

This is table  12  of  75  ( 8944 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)
3460497--3460536	20	2.0	20	90	0	62	55	20	25	0	1.44
3460731--3460964	104	2.3	103	81	4	263	20	29	23	26	1.99
3460768--3461003	104	2.3	104	81	1	249	22	30	22	24	1.99
3460955--3461048	42	2.2	42	80	9	102	17	34	22	26	1.96
3460843--3461195	146	2.4	145	83	1	440	20	32	23	24	1.98
3461081--3461189	41	2.7	41	82	7	123	17	36	24	21	1.94
3464385--3464410	6	4.3	6	100	0	52	15	0	46	38	1.46
3464593--3465000	125	3.3	125	91	0	638	31	17	19	31	1.95
3468118--3468267	49	3.1	49	99	0	291	45	10	2	42	1.50
3468688--3468730	18	2.4	18	84	0	50	44	9	25	20	1.81
3470498--3470546	22	2.2	22	82	10	64	48	0	28	22	1.50
3470498--3470546	11	4.5	10	78	16	53	48	0	28	22	1.50
3473042--3473103	19	3.3	19	77	8	63	70	1	1	25	1.05
3473354--3473438	27	3.1	27	91	0	125	17	21	37	23	1.94
3473670--3473731	19	3.3	19	77	8	63	70	1	1	25	1.05
3473982--3474066	27	3.1	27	91	0	125	17	21	37	23	1.94
3472992--3474247	628	2.0	628	100	0	2512	36	12	16	35	1.86
3477508--3477632	33	3.8	33	78	10	112	26	12	44	16	1.83
3478756--3478797	15	2.9	14	77	16	50	71	7	0	21	1.09
3478752--3478787	19	1.9	18	88	5	54	66	5	0	27	1.13
3478793--3479085	104	2.8	104	96	2	527	54	15	0	29	1.42
3478869--3479028	50	3.1	50	63	16	128	54	13	0	31	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3479660--3479741	27	3.0	27	89	3	121	18	35	29	17	1.93
3496264--3496319	28	2.0	28	85	0	76	66	5	3	25	1.29
3503864--3503902	19	2.0	19	85	5	51	58	2	0	38	1.12
3504834--3504867	15	2.3	15	90	10	52	55	0	2	41	1.15
3507480--3507600	54	2.2	54	95	0	215	42	3	13	40	1.60
3519617--3519788	72	2.4	72	83	5	231	55	12	5	26	1.58
3522854--3522940	25	3.7	25	77	17	105	52	24	21	1	1.53
3522839--3522964	19	6.0	19	70	20	90	53	20	23	2	1.58
3522839--3522964	44	2.9	44	89	0	189	53	20	23	2	1.58
3528341--3528371	3	10.3	3	92	0	53	32	0	3	64	1.09
3535235--3535374	72	1.9	72	98	0	271	35	3	13	47	1.60
3535235--3535348	35	3.2	36	62	18	92	33	1	15	49	1.55
3537620--3537654	16	2.2	16	89	0	52	71	14	8	5	1.29
3538402--3538437	13	2.8	13	95	0	63	27	8	25	38	1.84
3541736--3542104	46	8.0	46	94	0	585	29	25	8	36	1.85
3548659--3549036	78	4.9	78	87	5	493	36	3	15	43	1.66
3549634--3549890	41	6.2	41	87	2	338	29	20	26	24	1.99
3560712--3560739	4	7.0	4	100	0	56	25	0	0	75	0.81
3565179--3565212	16	2.1	16	100	0	68	41	5	0	52	1.25
3565287--3565320	16	2.1	16	100	0	68	41	5	0	52	1.25
3565146--3565454	108	2.9	108	99	0	609	36	9	8	45	1.67
3565395--3565428	16	2.1	16	100	0	68	41	5	0	52	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3568036--3568077	21	2.0	21	100	0	84	28	23	9	38	1.86
3570712--3570749	19	2.1	18	85	14	51	44	0	2	52	1.14
3575549--3575623	31	2.4	31	97	0	141	22	14	20	42	1.88
3575678--3575716	20	2.0	20	90	10	62	25	25	20	28	1.99
3582973--3582997	12	2.1	12	100	0	50	24	36	24	16	1.94
3583230--3583254	12	2.1	12	100	0	50	16	24	36	24	1.94
3583120--3583387	121	2.2	121	100	0	536	19	12	27	41	1.87
3583351--3583375	12	2.1	12	100	0	50	16	24	36	24	1.94
3585921--3585984	19	3.2	19	70	24	51	53	0	4	42	1.22
3586347--3586394	19	2.5	20	76	10	55	33	14	8	43	1.75
3586830--3586855	3	8.7	3	100	0	52	30	0	0	69	0.89
3589729--3589777	3	16.3	3	100	0	98	32	0	0	67	0.91
3589994--3590034	18	2.2	20	87	12	61	53	4	0	41	1.22
3595579--3595659	40	2.0	40	100	0	162	30	22	7	39	1.81
3595756--3595824	23	3.0	23	89	0	111	31	24	21	21	1.98
3602665--3602852	51	3.7	51	86	2	245	32	26	15	25	1.96
3609486--3609554	23	3.0	23	84	0	102	33	27	18	20	1.96
3611395--3611451	10	5.6	10	77	10	53	26	3	3	66	1.24
3611405--3611451	20	2.4	19	86	10	67	27	4	2	65	1.22
3611720--3611784	33	2.0	33	90	0	103	24	21	33	20	1.97
3613180--3613508	163	2.0	163	92	0	550	31	15	11	41	1.83
3614124--3614369	122	2.0	123	97	0	467	49	5	7	37	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3614378--3614411	16	2.2	15	89	5	50	32	0	0	67	0.91
3616051--3616084	15	2.3	15	89	0	50	29	17	0	52	1.45
3616140--3616164	5	5.0	5	100	0	50	80	0	0	20	0.72
3619512--3619559	21	2.2	21	85	3	60	50	2	2	45	1.25
3619589--3619621	9	3.9	9	84	15	52	33	0	9	57	1.30
3619586--3619625	16	2.5	16	91	0	71	37	0	7	55	1.29
3621402--3621452	22	2.3	22	81	15	61	68	0	0	31	0.90
3621402--3621450	11	4.4	12	79	20	54	67	0	0	32	0.91
3623455--3623496	21	2.0	21	86	9	59	66	2	0	30	1.04
3624989--3625040	27	1.9	27	92	0	86	17	21	34	26	1.95
3626774--3626801	2	14.0	2	100	0	56	0	50	0	50	1.00
3628610--3628635	2	13.0	2	100	0	52	50	0	0	50	1.00
3629316--3629382	29	2.3	29	80	16	77	56	2	8	31	1.45
3629621--3629654	17	2.0	17	88	0	50	35	0	20	44	1.52
3631211--3631249	16	2.4	16	78	0	51	0	23	23	53	1.46
3632964--3633222	64	4.0	64	99	0	509	27	16	15	39	1.90
3634664--3634708	21	2.1	21	95	0	81	31	11	11	46	1.74
3637178--3637225	24	2.0	24	88	8	71	27	2	10	60	1.41
3637737--3638101	193	1.9	194	86	2	529	39	12	20	27	1.88
3644738--3644792	19	2.9	19	89	5	76	56	7	0	36	1.27
3648103--3648141	2	19.5	2	100	0	78	0	0	48	51	1.00
3656603--3656650	24	2.0	24	88	4	71	70	16	4	8	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3657276--3657308	11	2.9	11	95	4	57	45	0	33	21	1.52
3659238--3659376	42	3.3	42	73	6	120	23	26	23	25	2.00
3665139--3666028	441	2.0	441	98	0	1719	39	9	11	40	1.73
3667177--3667286	53	2.1	53	98	0	211	38	19	15	27	1.91
3668629--3668692	33	2.0	32	84	6	85	26	12	7	53	1.66
3669400--3669490	41	2.2	41	100	0	182	20	9	39	29	1.85
3670752--3671211	31	14.9	31	74	11	372	44	17	6	32	1.74
3670753--3670996	92	2.6	92	90	1	362	45	16	5	32	1.71
3670917--3671119	61	3.3	60	72	11	178	44	17	6	32	1.74
3670766--3671188	217	1.9	217	93	0	720	43	17	6	32	1.73
3670983--3671265	92	3.1	92	91	0	440	43	18	7	31	1.76
3670752--3671103	125	2.8	123	86	5	462	44	16	6	32	1.74
3673789--3673830	16	2.7	15	76	20	50	40	0	4	54	1.21
3682789--3682967	23	7.9	23	79	14	201	26	0	25	47	1.52
3682791--3682969	45	4.0	45	91	6	251	26	0	25	47	1.52
3683490--3683525	18	2.0	18	94	0	63	38	8	27	25	1.84
3684171--3684195	7	3.6	7	100	0	50	60	12	0	28	1.32
3684287--3684389	51	2.0	52	98	1	199	33	18	25	23	1.97
3685313--3685354	11	3.8	11	93	0	66	50	7	23	19	1.72
3686160--3686212	18	3.1	18	78	8	56	62	0	1	35	1.06
3686628--3686731	52	2.0	52	100	0	208	26	23	17	32	1.96
3687657--3687684	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3687757--3689274	759	2.0	759	99	0	3018	35	11	15	38	1.83
3694722--3694750	15	1.9	15	100	0	58	62	0	6	31	1.22
3695955--3696148	98	2.0	99	91	1	318	21	21	24	32	1.98
3705690--3705966	50	5.7	48	72	7	216	20	21	25	32	1.98
3705685--3705978	98	3.0	98	93	0	498	21	20	25	32	1.98
3714944--3714996	22	2.4	22	100	0	106	18	24	11	45	1.82
3718885--3718913	15	1.9	15	100	0	58	62	0	6	31	1.22
3718928--3718982	15	3.3	16	80	12	58	78	5	1	14	1.02
3721467--3721596	60	2.1	62	83	10	162	67	16	8	6	1.38
3730535--3730591	10	5.2	11	74	21	57	21	35	0	43	1.52

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