genome.fa.s11.2.7.7.80.10.50.1000.13.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  13  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)
3730552--3730604	22	2.4	22	96	3	97	26	32	0	41	1.56
3730582--3730671	40	2.2	40	96	0	162	31	24	1	43	1.62
3731839--3731876	7	5.4	7	90	9	60	26	0	13	60	1.33
3732990--3733066	29	2.7	29	97	0	145	45	25	0	28	1.54
3733588--3733629	17	2.4	18	80	4	50	42	7	4	45	1.52
3737258--3737398	6	22.8	6	69	9	61	59	5	2	31	1.35
3737296--3737398	37	2.8	37	84	5	120	60	3	2	33	1.30
3737512--3737550	14	2.8	13	81	11	51	43	5	17	33	1.72
3738099--3738134	16	2.2	17	90	5	56	38	0	0	61	0.96
3738144--3738205	20	3.2	19	75	25	58	53	0	0	46	1.00
3738806--3738845	16	2.5	16	91	0	62	47	2	7	42	1.45
3738856--3738995	59	2.4	59	98	0	271	39	4	9	47	1.55
3738977--3739004	9	3.1	9	100	0	56	32	0	10	57	1.33
3739101--3739144	23	1.9	22	90	9	70	63	0	0	36	0.95
3739918--3740755	417	2.0	416	99	0	1658	27	20	16	35	1.94
3743185--3743243	24	2.4	25	81	13	70	52	1	3	42	1.28
3743171--3743295	56	2.2	58	88	2	191	48	1	3	46	1.27
3743196--3743307	56	2.0	56	87	0	161	48	2	3	45	1.34
3749694--3749722	4	7.2	4	100	0	58	75	0	0	24	0.80
3750496--3750520	13	1.9	13	100	0	50	16	24	28	32	1.96
3753933--3754056	37	3.2	37	64	20	101	38	8	6	46	1.59
3753929--3754055	41	3.2	41	62	28	101	37	7	6	48	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3753955--3754082	37	3.1	45	62	25	118	40	10	6	42	1.64
3753924--3754100	78	2.3	78	98	0	345	40	7	5	45	1.57
3761842--3761867	13	2.0	13	100	0	52	38	0	7	53	1.30
3773735--3774091	70	5.1	69	88	0	471	28	29	20	22	1.98
3773735--3774091	140	2.5	140	89	0	536	28	29	20	22	1.98
3773735--3774121	210	1.8	210	84	2	526	28	28	20	22	1.98
3774571--3774602	15	2.2	15	94	5	57	53	6	3	37	1.42
3781909--3782054	41	3.6	39	76	12	143	26	21	26	26	1.99
3783285--3783355	37	1.9	37	97	0	133	32	9	5	52	1.58
3784267--3784309	15	2.8	16	78	7	52	37	9	4	48	1.56
3784388--3784445	20	2.9	20	70	17	57	36	1	0	62	1.06
3784384--3784444	19	3.3	18	80	8	59	34	1	0	63	1.04
3784393--3784441	18	2.6	19	78	12	57	34	2	0	63	1.06
3785353--3785391	15	2.8	13	82	14	51	43	5	12	38	1.65
3785670--3785848	34	5.2	35	78	6	195	20	24	16	38	1.93
3785646--3785848	35	5.9	35	79	2	194	21	23	16	38	1.92
3785646--3785848	69	2.9	68	89	2	298	21	23	16	38	1.92
3793125--3793170	3	15.3	3	95	0	83	67	2	0	30	1.03
3794472--3794590	58	2.1	58	91	0	193	42	15	21	21	1.88
3798611--3798684	17	4.6	15	74	15	60	21	2	0	75	0.92
3798611--3798687	5	14.4	5	78	16	66	22	2	0	75	0.93
3798611--3798687	26	3.3	22	78	16	84	22	2	0	75	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3798611--3798694	22	4.1	21	75	20	79	22	2	1	73	1.01
3799751--3799789	20	2.0	20	84	0	51	76	2	2	17	1.01
3800209--3800243	15	2.4	15	90	4	54	48	0	8	42	1.33
3803010--3803311	95	3.2	96	80	4	326	38	2	17	41	1.64
3803344--3803634	126	2.3	126	91	1	467	31	17	21	28	1.97
3806239--3806279	21	2.0	21	85	0	55	7	24	39	29	1.82
3808411--3808467	11	5.2	11	79	14	64	40	0	35	24	1.56
3817039--3817137	31	3.3	31	74	20	95	53	12	12	22	1.70
3817562--3817592	11	2.8	11	100	0	62	29	29	0	41	1.56
3818752--3818784	7	4.7	7	92	0	57	27	0	12	60	1.32
3819372--3819414	18	2.4	18	88	0	59	18	27	9	44	1.80
3819800--3819840	22	1.9	22	85	14	59	36	0	4	58	1.20
3822981--3823248	126	2.1	126	95	1	484	27	20	16	35	1.95
3824276--3824300	13	1.9	13	100	0	50	36	0	16	48	1.46
3824843--3824874	14	2.3	14	100	0	64	43	6	6	43	1.54
3825124--3825182	19	3.4	18	75	13	61	50	1	0	47	1.11
3825133--3825179	15	2.8	16	78	15	51	57	2	0	40	1.11
3826362--3826439	38	2.1	38	92	0	129	46	11	10	32	1.74
3826482--3826514	15	2.1	16	94	5	59	42	18	24	15	1.88
3836144--3836202	30	1.9	30	86	6	82	67	1	5	25	1.20
3836693--3836771	36	2.2	37	97	2	151	53	5	5	36	1.45
3838421--3838483	29	2.2	29	81	16	78	41	0	1	57	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3838442--3838506	21	3.0	21	71	22	55	43	0	1	55	1.09
3838428--3838482	28	1.9	29	85	10	78	40	0	1	58	1.09
3839672--3839702	3	10.3	3	92	0	53	64	0	32	3	1.09
3841416--3841475	23	2.7	22	80	12	77	1	5	10	83	0.87
3841402--3841464	29	2.1	31	85	11	87	1	11	6	80	0.95
3841402--3841466	31	2.1	31	86	11	89	1	10	6	81	0.93
3844935--3844977	19	2.3	19	91	0	68	27	4	9	58	1.49
3845044--3845104	29	2.1	28	82	11	70	31	9	19	39	1.84
3848439--3848516	34	2.3	34	90	2	120	47	30	0	21	1.51
3849357--3849392	11	3.3	11	88	0	54	30	0	2	66	1.06
3850836--3851031	96	2.0	97	99	1	385	22	8	15	53	1.68
3853387--3853413	7	3.9	7	100	0	54	74	11	14	0	1.08
3857534--3857648	25	4.6	25	75	7	81	20	23	20	36	1.95
3857532--3857648	50	2.3	49	76	13	121	19	23	19	37	1.94
3857609--3857667	25	2.4	25	85	5	75	20	18	20	40	1.91
3857634--3857718	25	3.4	25	71	12	68	25	23	16	34	1.95
3857634--3857726	49	1.9	48	80	6	107	25	22	16	35	1.94
3867768--3868133	180	2.0	181	98	1	718	39	13	16	30	1.86
3874333--3874409	27	3.1	27	62	27	69	45	10	11	32	1.75
3889292--3889460	36	4.5	36	66	15	108	47	1	3	47	1.27
3889273--3889503	115	2.0	116	99	0	455	47	1	4	46	1.32
3889317--3889479	36	4.4	36	67	16	107	49	1	3	45	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3889284--3889536	115	2.2	115	89	2	348	50	2	3	43	1.32
3898852--3899559	354	2.0	354	99	0	1389	38	15	20	25	1.92
3900514--3900548	17	2.0	18	88	5	54	20	2	0	77	0.90
3901322--3901429	21	5.3	21	81	6	116	12	20	17	50	1.78
3901362--3901398	19	1.9	19	100	0	74	10	21	16	51	1.74
3901322--3901429	40	2.7	40	80	8	128	12	20	17	50	1.78
3903015--3903059	21	2.1	21	83	0	54	48	6	0	44	1.29
3903042--3903087	17	2.7	17	89	0	65	54	2	0	43	1.12
3904026--3904068	22	2.0	22	90	0	68	9	18	27	44	1.80
3904422--3904548	46	2.9	43	75	13	114	28	27	20	23	1.99
3904444--3904569	43	2.9	43	73	12	112	29	26	18	25	1.98
3914963--3915537	113	5.1	113	87	3	832	31	25	21	22	1.98
3914966--3915537	227	2.5	223	87	3	813	31	25	21	22	1.98
3917544--3918030	89	5.5	89	92	1	780	26	24	18	30	1.98
3919125--3919160	17	2.1	17	94	0	63	27	47	11	13	1.77
3919336--3919384	13	3.6	14	81	13	57	14	20	2	63	1.40
3919346--3919388	7	6.1	7	84	10	52	13	18	2	65	1.38
3919346--3919387	15	2.9	15	82	13	52	14	19	2	64	1.39
3921902--3921927	4	6.5	4	100	0	52	0	0	46	53	1.00
3922054--3922079	13	2.0	13	100	0	52	46	15	7	30	1.74
3923177--3923578	114	3.5	113	88	2	585	30	25	22	21	1.99
3923497--3923653	81	2.0	80	86	6	219	30	24	19	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3928976--3929132	43	3.7	42	80	5	156	25	15	26	32	1.96
3929526--3929726	100	2.0	100	98	0	384	30	9	21	38	1.85
3935146--3935302	10	16.4	10	64	18	50	65	3	1	29	1.19
3935147--3935302	9	16.4	9	67	17	75	65	3	1	29	1.19
3935234--3935302	18	3.7	18	80	5	84	66	2	2	27	1.20
3935234--3935314	27	2.9	27	78	10	76	64	4	2	28	1.27
3935233--3935302	19	3.7	19	82	3	79	67	2	2	27	1.19
3935417--3935459	18	2.3	18	84	11	52	74	4	2	18	1.10
3938838--3939064	113	2.0	114	99	0	447	38	8	6	46	1.60
3939239--3939310	35	2.1	35	94	0	126	41	19	9	29	1.83

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