genome.fa.s7.2.7.7.80.10.50.1000.1.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: Chr3
Parameters: 2 7 7 80 10 50 1000
Length:  26558743

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   

This is table  1  of  79  ( 9388 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)
1853--1929	32	2.4	32	89	4	111	28	29	25	15	1.96
1956--1999	21	2.2	20	95	4	79	47	27	13	11	1.77
9002--9041	19	2.1	19	100	0	80	27	10	10	52	1.66
22884--23144	132	2.0	132	96	0	477	31	18	20	30	1.96
25966--26003	15	2.5	15	86	0	58	57	0	0	42	0.98
35484--35694	77	2.7	76	88	2	332	24	19	24	31	1.98
41009--41036	14	2.0	14	100	0	56	7	7	7	78	1.09
46895--46945	3	17.0	3	95	0	93	0	31	0	68	0.90
46944--46977	1	34.0	1	100	0	68	0	0	0	100	0.00
47133--47196	33	1.9	33	90	0	101	18	7	29	43	1.78
53988--54018	15	2.1	15	100	0	62	51	12	6	29	1.65
64057--64083	12	2.2	12	100	0	54	7	25	14	51	1.68
70830--70862	13	2.4	14	90	5	50	48	3	0	48	1.17
74529--74650	51	2.4	51	85	0	163	28	20	14	36	1.92
80962--81355	125	3.2	125	83	5	462	28	16	16	38	1.90
81462--81550	34	2.6	34	89	5	128	38	15	1	44	1.54
81538--81590	25	2.1	24	86	13	72	47	15	0	37	1.45
81571--81607	16	2.2	16	90	4	56	64	18	0	16	1.29
82777--82823	21	2.2	21	84	0	58	70	6	23	0	1.10
90720--90823	8	13.0	8	90	0	127	0	58	0	41	0.98
90720--90823	6	17.3	6	86	0	127	0	58	0	41	0.98
90865--90966	12	8.7	12	86	4	136	0	58	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
90869--90966	6	16.7	6	85	8	94	0	59	0	40	0.98
90867--90963	10	9.9	10	80	12	103	0	59	0	40	0.97
90865--90966	4	25.5	4	85	0	123	0	58	0	41	0.98
92596--92866	147	1.8	147	89	0	425	11	28	15	43	1.82
95368--95441	29	2.5	30	84	4	96	50	13	13	22	1.77
95343--95438	31	3.2	30	77	8	97	47	11	15	25	1.79
101174--101203	13	2.3	13	88	0	51	76	0	10	13	1.01
101978--102110	66	2.0	66	100	0	266	16	19	12	51	1.76
106334--106435	45	2.3	45	91	0	168	44	13	14	27	1.83
108818--108853	18	1.9	19	88	5	56	63	13	2	19	1.41
109769--109828	27	2.2	27	100	0	120	33	15	18	33	1.92
117683--117728	24	1.9	24	95	0	83	45	8	8	36	1.66
121132--121168	2	18.5	2	100	0	74	51	0	48	0	1.00
122332--122358	6	4.5	6	100	0	54	14	0	0	85	0.61
122499--122532	17	1.9	17	88	5	50	35	0	2	61	1.11
131577--131640	32	2.0	32	100	0	128	34	6	31	28	1.82
133275--133316	14	2.9	15	85	7	59	83	0	14	2	0.75
147496--147544	24	2.0	24	100	0	98	42	20	16	20	1.89
159529--159555	12	2.2	12	100	0	54	18	0	25	55	1.43
168538--168590	23	2.3	24	78	18	60	37	5	1	54	1.35
172225--172262	19	2.0	19	100	0	76	42	21	5	31	1.75
176537--176591	29	1.9	28	85	3	74	49	1	0	49	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
176546--176603	28	2.0	29	83	3	73	56	1	0	41	1.09
179571--179622	24	2.1	25	86	10	72	44	11	3	40	1.59
182258--183615	677	2.0	678	99	0	2700	40	9	11	38	1.75
186909--186934	7	3.7	7	100	0	52	0	11	0	88	0.52
188440--188478	20	2.0	20	85	10	53	71	2	2	23	1.10
189870--189934	21	3.1	21	69	8	60	15	26	18	40	1.90
193832--193856	13	1.9	13	100	0	50	40	16	8	36	1.77
210176--210209	2	17.0	2	100	0	68	50	0	50	0	1.00
219814--219872	30	1.9	31	86	13	86	37	5	1	55	1.32
228398--228468	31	2.3	32	80	7	83	52	9	9	28	1.66
228413--228471	31	1.9	31	96	0	109	49	8	13	28	1.71
229107--229152	12	3.8	12	80	5	56	65	2	2	30	1.16
229442--229470	9	3.0	10	90	10	51	58	0	0	41	0.98
230331--230362	6	5.3	6	100	0	64	84	0	15	0	0.63
230680--230742	30	2.1	30	87	0	90	55	12	3	28	1.52
230779--230818	11	3.6	11	82	0	53	60	10	10	20	1.57
230780--230841	22	2.8	22	76	11	56	64	6	12	16	1.47
240153--240420	95	2.8	94	91	2	423	48	15	14	20	1.80
248478--248531	23	2.4	22	84	12	65	33	7	1	57	1.37
266833--267092	128	2.0	129	98	0	504	38	18	16	25	1.92
276075--276158	6	14.0	6	97	0	159	50	15	1	33	1.52
280129--280154	8	3.2	8	100	0	52	11	0	0	88	0.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
281455--281626	94	1.8	94	81	2	211	37	16	9	36	1.82
282262--282334	31	2.4	33	82	11	84	39	10	9	39	1.73
288683--288717	17	2.1	17	89	5	54	34	25	5	34	1.80
295311--295340	16	1.9	16	93	6	53	16	6	3	73	1.18
300147--300183	9	4.1	9	85	0	56	48	13	8	29	1.71
300367--300426	30	2.0	31	83	3	77	18	38	0	43	1.50
301005--301030	5	5.2	5	100	0	52	23	19	19	38	1.93
305602--305763	81	2.0	81	83	4	202	21	10	20	47	1.80
313454--313488	18	1.9	18	88	0	52	34	8	22	34	1.85
313532--313581	25	2.0	26	88	4	75	14	10	4	72	1.26
313532--313572	14	3.2	12	83	16	55	9	9	2	78	1.06
314959--314991	15	2.1	16	88	5	50	60	6	3	30	1.36
314959--315000	16	2.7	15	88	3	57	61	4	2	30	1.29
315367--315439	27	2.7	27	89	0	119	17	28	23	30	1.97
326774--326803	14	2.1	14	100	0	60	26	26	6	40	1.81
328824--328864	16	2.7	15	85	10	57	46	0	2	51	1.14
328855--328896	19	2.2	20	86	4	59	59	2	2	35	1.23
333053--333096	19	2.3	19	84	11	54	61	2	18	18	1.45
337774--337836	28	2.1	30	82	8	76	7	19	3	69	1.27
340196--341488	646	2.0	647	99	0	2579	41	10	13	34	1.79
344275--344302	5	5.6	5	100	0	56	21	60	0	17	1.36
350418--350456	19	2.1	19	95	0	69	41	2	17	38	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
358684--358722	18	2.2	18	85	0	51	10	0	61	28	1.28
358659--359206	123	4.3	127	77	14	422	18	8	51	22	1.72
358737--359039	123	2.5	122	90	1	453	16	9	51	22	1.73
359299--359355	12	4.8	12	75	0	51	5	7	59	28	1.45
359299--359373	24	3.1	24	77	11	82	8	8	56	28	1.57
359913--359967	26	2.1	26	86	0	74	41	0	7	50	1.30
365486--365523	20	2.0	20	89	5	60	39	0	2	57	1.12
367449--368179	135	5.3	135	88	4	1061	15	9	53	22	1.69
367656--367698	18	2.4	18	92	0	77	11	11	55	20	1.66
368121--368150	12	2.5	12	88	0	51	13	0	63	23	1.29
368139--368209	30	2.4	30	90	4	108	21	7	52	19	1.70
368229--368285	24	2.4	24	82	5	71	7	8	56	28	1.56
373963--373995	15	2.3	15	84	5	50	54	0	3	42	1.15
377920--378192	145	1.9	145	92	0	465	35	22	12	29	1.91
378196--378235	6	6.7	6	97	0	71	50	30	0	20	1.49
380951--381031	6	13.8	6	94	5	148	16	0	33	50	1.45
380773--380980	67	3.2	65	83	9	262	23	9	21	46	1.80
383043--383327	142	2.0	142	100	0	570	30	19	22	27	1.98
396089--396149	31	2.0	31	93	0	104	42	6	11	39	1.67
397198--397262	29	2.2	28	81	5	76	58	1	7	32	1.36
397571--397618	20	2.5	19	83	9	62	56	0	4	39	1.19
398523--398575	25	2.1	24	83	13	63	1	22	16	58	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
408021--408195	94	1.8	94	85	7	246	24	26	19	29	1.98
411832--411870	19	2.0	19	85	5	51	53	5	5	35	1.45
412599--412941	3	114.7	3	99	0	679	66	0	0	33	0.92
418326--418375	5	10.0	5	100	0	100	40	0	0	60	0.97
419653--419677	12	2.1	12	100	0	50	60	0	16	24	1.36
428235--428275	20	2.0	21	85	4	57	43	14	7	34	1.73
428521--428635	23	4.8	23	75	7	86	31	22	27	18	1.97
429933--429961	12	2.3	13	94	5	51	68	13	0	17	1.20
430073--430165	30	3.2	30	70	6	82	53	2	6	37	1.39
430502--430526	13	1.9	13	100	0	50	48	0	0	52	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