genome.fa.s4.2.7.7.80.10.50.1000.10.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: chr4
Parameters: 2 7 7 80 10 50 1000
Length:  31929104

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   

This is table  10  of  82  ( 9773 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)
3245369--3245415	2	23.5	2	100	0	94	51	0	0	48	1.00
3245450--3245490	21	2.0	21	85	4	57	36	4	2	56	1.34
3246986--3247017	2	16.0	2	100	0	64	50	0	0	50	1.00
3260165--3260217	26	2.0	26	100	0	106	41	20	11	26	1.86
3261065--3261134	30	2.3	30	100	0	140	34	14	30	21	1.93
3267218--3267290	30	2.4	30	78	13	78	35	16	19	28	1.93
3269770--3269837	30	2.3	30	87	5	93	13	30	5	50	1.65
3274982--3275189	69	3.0	70	84	4	285	32	19	33	14	1.92
3277357--3277400	14	3.1	14	77	9	54	38	0	4	56	1.20
3278646--3278692	24	2.0	24	82	0	58	38	0	6	55	1.26
3280834--3280871	8	4.6	8	87	6	58	23	0	0	76	0.79
3280823--3280872	17	2.8	18	82	11	59	22	4	0	74	0.99
3281028--3281077	26	1.9	26	83	0	64	22	2	4	72	1.12
3281095--3281154	19	3.3	18	77	20	63	28	0	1	70	0.97
3282088--3282220	58	2.3	58	92	2	214	8	44	15	31	1.76
3282187--3282386	111	1.8	111	94	0	355	7	38	24	30	1.83
3304759--3304809	27	1.9	26	84	11	68	27	17	19	35	1.94
3307484--3307515	15	2.1	15	100	0	64	65	0	0	34	0.93
3309842--3309883	2	21.0	2	100	0	84	50	0	0	50	1.00
3319596--3319671	21	3.5	21	73	16	82	36	13	11	38	1.81
3319574--3319719	45	3.2	45	91	1	213	40	13	10	36	1.78
3319705--3319790	29	2.8	29	71	7	73	45	11	9	33	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3321717--3321758	20	2.0	21	86	4	59	64	0	0	35	0.94
3322064--3322102	5	7.8	5	94	0	69	76	2	20	0	0.90
3322064--3322102	20	2.0	20	100	0	78	76	2	20	0	0.90
3330759--3330792	7	4.9	7	88	0	50	20	14	35	29	1.93
3330759--3330795	14	2.6	14	86	0	56	18	13	40	27	1.88
3331623--3331648	2	13.0	2	100	0	52	0	0	50	50	1.00
3337573--3337623	19	2.7	19	87	0	75	19	13	9	56	1.65
3344155--3344197	20	2.3	18	78	17	52	53	0	2	44	1.13
3345469--3345506	2	19.0	2	94	0	67	50	2	0	47	1.15
3345624--3345729	38	2.7	38	86	2	149	20	15	39	24	1.91
3347925--3347970	18	2.6	18	92	0	74	19	8	21	50	1.75
3348241--3348270	9	3.3	9	90	0	51	30	10	20	40	1.85
3348232--3348270	18	2.2	18	95	0	69	30	10	17	41	1.83
3350994--3351099	38	2.7	40	86	2	153	24	39	15	20	1.91
3352276--3352314	20	2.0	20	85	10	53	38	7	25	28	1.83
3358075--3358117	2	21.5	2	100	0	86	48	0	51	0	1.00
3362615--3362656	21	2.0	21	85	4	57	42	0	2	54	1.13
3368437--3368745	26	12.7	26	78	14	311	24	14	26	35	1.93
3368415--3368718	73	4.2	73	81	10	299	24	14	25	35	1.94
3368463--3368742	47	5.9	46	77	16	243	23	14	26	34	1.94
3368437--3368764	95	3.4	97	85	7	404	24	14	26	35	1.93
3368778--3368854	22	3.6	22	82	5	95	41	22	11	24	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3373873--3374023	45	3.4	45	77	0	142	21	10	25	42	1.85
3373955--3374085	67	1.9	68	82	1	165	23	11	29	35	1.90
3373963--3374108	45	3.3	43	75	6	130	22	12	28	36	1.90
3373942--3374081	22	6.2	22	76	6	93	23	12	27	36	1.91
3375833--3375946	58	2.0	58	92	3	194	15	14	20	50	1.78
3381980--3382096	58	2.0	58	94	0	207	15	15	20	48	1.81
3389234--3389311	28	2.8	28	92	0	120	30	17	19	32	1.95
3389356--3389401	20	2.3	20	96	0	83	45	21	4	28	1.71
3398482--3398512	14	2.1	15	94	5	55	61	19	6	12	1.53
3403767--3403846	40	2.0	40	95	0	142	33	28	13	23	1.93
3403807--3403890	26	3.4	26	72	12	86	38	23	13	25	1.91
3407814--3408127	78	4.0	78	100	0	628	33	14	15	37	1.87
3409009--3409351	170	2.0	170	85	5	462	29	12	6	51	1.64
3409539--3409586	23	2.1	23	92	0	78	39	6	2	52	1.39
3412575--3412769	98	2.0	98	89	0	300	10	10	35	43	1.74
3412676--3412816	55	2.6	55	80	3	140	10	7	33	48	1.67
3412863--3412923	23	2.7	23	81	0	77	26	22	27	22	1.99
3419027--3419068	21	2.0	21	90	4	66	16	26	7	50	1.71
3420776--3420975	31	6.5	31	88	0	247	36	21	18	23	1.95
3423163--3423441	31	8.7	31	85	7	319	34	21	20	22	1.97
3423163--3423466	62	4.8	62	83	7	367	34	21	20	23	1.97
3423299--3423376	40	2.0	40	92	0	129	33	26	20	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3423267--3423410	71	2.0	71	88	5	211	34	24	19	21	1.96
3423205--3423466	133	2.0	133	87	3	384	34	22	20	22	1.97
3423239--3423441	102	2.0	102	89	1	309	34	22	20	22	1.97
3423338--3423466	31	4.2	31	91	4	181	31	24	20	23	1.98
3423934--3423993	29	2.1	29	96	0	111	33	35	15	16	1.90
3424038--3424452	47	8.8	47	82	2	395	23	32	16	27	1.96
3424038--3424452	94	4.4	94	82	5	455	23	32	16	27	1.96
3424049--3424452	141	2.9	140	81	2	470	23	32	16	27	1.96
3424038--3424452	188	2.2	188	86	4	579	23	32	16	27	1.96
3426755--3426796	19	2.2	20	87	12	61	59	9	9	21	1.57
3427962--3428001	2	20.5	2	94	5	73	52	0	0	47	1.00
3428249--3428285	19	1.9	19	89	10	58	64	0	2	32	1.07
3428089--3428673	299	2.0	295	94	2	1021	48	4	14	31	1.63
3429938--3431248	653	2.0	653	99	0	2586	29	19	19	32	1.96
3434031--3434270	60	4.0	58	86	5	284	24	30	18	26	1.98
3434031--3434270	120	2.0	120	84	3	313	24	30	18	26	1.98
3435001--3435039	18	2.2	18	85	0	51	0	28	0	71	0.86
3434991--3435029	9	4.2	9	93	3	60	0	23	0	76	0.78
3435078--3435166	35	2.4	37	78	19	96	0	30	8	60	1.27
3435160--3435200	18	2.2	20	86	8	59	0	36	0	63	0.95
3435226--3435260	18	1.9	18	88	0	52	0	28	0	71	0.86
3435226--3435259	12	2.8	12	90	0	50	0	26	0	73	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3441295--3441428	60	2.2	60	89	2	196	25	32	15	26	1.96
3442152--3442185	16	2.2	15	89	5	50	0	32	0	67	0.91
3442149--3442198	26	1.9	26	84	8	66	0	36	0	64	0.94
3442260--3442382	6	19.7	6	69	25	60	3	29	2	65	1.21
3442219--3442379	70	2.3	70	84	10	206	4	29	3	63	1.29
3442321--3442382	17	3.3	20	80	15	69	3	32	0	64	1.09
3442339--3442384	25	1.9	25	86	8	69	0	32	0	67	0.91
3447497--3447550	20	2.8	19	80	8	56	57	12	0	29	1.36
3451688--3451741	20	2.8	19	80	8	56	57	12	0	29	1.36
3457985--3458021	19	1.9	20	88	5	58	83	8	2	5	0.88
3459004--3459445	58	7.5	58	80	3	409	33	13	18	34	1.90
3459004--3459382	118	3.2	117	81	4	424	33	14	18	32	1.92
3459004--3459381	176	2.1	175	81	4	438	33	14	19	32	1.92
3459580--3459621	5	8.6	5	89	2	50	16	11	0	71	1.14
3459579--3459625	15	3.1	15	84	0	58	17	10	0	72	1.12
3460843--3460903	15	3.7	15	75	18	50	72	3	6	18	1.21
3461407--3461446	19	2.1	19	86	9	55	62	0	2	35	1.09
3463639--3463854	108	2.0	107	98	0	414	34	24	9	31	1.87
3468986--3469033	17	2.9	16	82	14	53	54	4	0	41	1.20
3475274--3475413	70	2.0	70	84	5	185	31	8	30	30	1.87
3475274--3475388	35	3.3	35	95	0	194	33	6	29	30	1.84
3475451--3475496	21	2.3	20	85	7	58	36	6	13	43	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3475459--3475508	21	2.4	21	93	3	84	38	6	16	40	1.73
3477541--3477565	13	1.9	13	100	0	50	52	0	0	48	1.00
3480128--3480166	15	2.7	15	88	4	53	15	2	28	53	1.55
3480578--3480621	21	2.2	20	83	4	52	38	0	11	50	1.39
3480841--3480912	8	8.5	8	73	8	54	47	0	11	41	1.39
3484837--3485144	22	13.8	22	73	3	159	23	9	24	43	1.82
3484837--3484893	23	2.5	22	83	5	69	21	14	17	47	1.82
3484886--3485144	44	5.8	44	74	2	176	23	8	25	42	1.81
3484837--3485076	133	1.8	133	81	5	306	22	9	23	44	1.81
3484881--3485076	66	3.0	66	77	3	187	22	7	25	44	1.79

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