genome.fa.s5.2.7.7.80.10.50.1000.1.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: Chr4
Parameters: 2 7 7 80 10 50 1000
Length:  30015117

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   

This is table  1  of  85  ( 10117 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)
1931--1975	21	2.1	22	87	4	65	2	13	6	77	1.05
7435--7460	6	4.3	6	100	0	52	50	19	15	15	1.79
7443--7547	45	2.3	45	83	6	142	42	18	17	21	1.89
13763--13818	22	2.7	20	81	13	67	26	3	3	66	1.25
21708--21738	3	10.3	3	100	0	62	67	0	0	32	0.91
26658--26717	28	2.2	27	84	3	75	53	8	5	33	1.53
28260--28357	44	2.2	45	88	1	144	26	27	15	30	1.96
28704--29227	45	11.7	45	79	4	540	29	22	18	29	1.97
28704--29249	89	6.1	89	79	3	551	29	22	18	29	1.97
28702--29249	134	4.1	134	95	0	979	29	22	18	29	1.97
29510--29592	44	1.9	43	87	2	121	18	22	16	42	1.89
37791--37850	28	2.2	27	84	3	75	53	8	5	33	1.53
40693--40744	19	2.7	19	84	3	68	30	3	1	63	1.23
43627--43666	16	2.5	16	88	8	55	47	2	2	47	1.29
48050--48130	39	2.1	39	88	0	117	37	6	7	49	1.56
48157--48187	15	2.1	15	100	0	62	32	0	25	41	1.56
50980--51865	440	2.0	441	99	0	1765	44	15	7	32	1.74
57783--57829	12	3.7	12	83	11	58	27	2	2	68	1.13
57986--58043	26	2.3	25	80	14	66	43	10	0	46	1.38
59376--59409	3	11.3	3	100	0	68	67	0	0	32	0.91
59718--59761	25	1.9	24	82	17	58	40	9	0	50	1.34
66849--67000	81	1.9	83	88	5	238	56	3	7	31	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
67532--67575	3	14.7	3	95	0	79	63	2	0	34	1.07
71987--72047	21	2.7	22	76	19	63	14	11	9	63	1.51
80457--80499	22	2.0	20	83	16	52	55	6	2	34	1.39
96099--96235	70	2.0	69	95	1	247	42	5	12	39	1.67
98036--98060	13	1.9	13	100	0	50	40	0	0	60	0.97
98032--98069	20	1.9	20	88	0	58	47	0	0	52	1.00
98053--98098	20	2.4	19	81	3	56	65	0	2	32	1.05
99878--99934	29	2.0	29	82	6	71	40	15	7	36	1.75
106899--106946	23	2.1	23	84	0	60	47	0	6	45	1.27
112255--112319	23	2.9	22	76	17	62	29	4	1	64	1.22
114789--114830	21	2.0	21	86	9	59	40	7	11	40	1.69
127403--127492	45	2.0	45	100	0	180	24	20	31	24	1.98
128070--128126	30	1.9	30	100	0	114	26	17	26	29	1.97
132732--132775	2	23.5	2	82	13	58	52	0	47	0	1.00
134245--134296	27	1.9	27	96	0	95	17	38	19	25	1.93
143248--143272	2	12.5	2	100	0	50	0	0	48	52	1.00
152215--152271	28	2.0	28	93	0	96	68	3	24	3	1.21
154317--154341	11	2.3	11	100	0	50	92	0	8	0	0.40
154743--154819	29	2.5	31	87	4	104	46	11	12	28	1.77
154773--154841	29	2.3	29	85	5	84	47	11	15	24	1.79
160151--160205	24	2.4	23	82	8	60	50	1	0	47	1.11
163555--163616	25	2.4	27	81	5	74	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
163554--163592	18	2.3	16	86	8	51	46	0	0	53	1.00
163563--163619	27	2.1	28	87	9	82	40	0	0	59	0.97
163580--163629	20	2.5	20	81	12	59	40	2	0	58	1.10
176707--176739	12	2.7	12	95	4	57	54	15	0	30	1.41
178071--178608	182	3.0	182	99	0	1049	41	22	11	24	1.87
181981--182071	31	2.9	31	93	3	148	59	0	2	38	1.10
181981--182062	11	7.8	11	74	15	68	58	0	2	39	1.11
182004--182111	39	2.7	39	85	5	135	61	0	3	35	1.14
185021--185058	19	2.0	19	100	0	76	31	21	0	47	1.51
197632--197663	16	2.0	16	93	0	55	34	6	34	25	1.81
231145--231211	33	2.0	33	97	0	125	47	13	10	28	1.75
236180--236367	93	2.0	94	98	1	369	47	6	3	43	1.45
237641--237687	24	2.0	24	83	8	60	55	0	2	42	1.12
242277--242320	2	22.0	2	100	0	88	50	0	50	0	1.00
249111--249147	14	2.6	14	95	0	65	43	0	21	35	1.53
251008--251049	21	2.0	21	100	0	84	52	14	19	14	1.75
256806--256871	34	1.9	34	87	6	98	31	7	15	45	1.74
258831--258872	21	2.0	21	100	0	84	52	14	19	14	1.75
259898--259933	17	2.1	17	89	5	54	19	2	11	66	1.35
260402--260439	8	4.8	8	81	12	51	0	13	0	86	0.56
264426--264463	16	2.4	16	95	0	67	34	26	0	39	1.57
264531--264576	24	1.9	24	90	0	74	39	4	8	47	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
268240--268276	9	4.1	9	92	0	65	45	13	10	29	1.77
268312--268354	21	2.0	21	82	8	52	20	37	0	41	1.53
281021--281071	26	2.1	26	85	10	72	35	5	7	50	1.55
284396--284455	30	2.1	28	85	11	79	33	18	1	46	1.59
298222--298373	75	2.0	75	100	0	304	32	18	20	28	1.96
300234--300446	46	4.7	45	80	8	202	17	16	14	51	1.76
300234--300486	137	1.8	137	81	3	312	18	17	13	49	1.79
309882--309920	20	2.0	20	90	10	62	53	5	20	20	1.64
311070--311096	14	1.9	14	100	0	54	22	33	14	29	1.94
312789--312813	13	1.9	13	100	0	50	8	0	24	68	1.16
315878--315903	4	6.5	4	100	0	52	23	0	0	76	0.78
329729--329755	9	3.0	9	100	0	54	33	0	0	66	0.92
332941--332972	12	2.7	12	95	0	55	18	65	12	3	1.38
340997--341022	6	4.3	6	100	0	52	84	0	0	15	0.62
341754--342360	40	14.8	40	85	7	711	25	20	22	31	1.98
341754--342360	286	2.1	289	87	3	875	25	20	22	31	1.98
342434--342552	44	2.7	45	78	12	129	21	21	26	31	1.98
342557--343158	87	6.9	87	84	4	829	23	24	23	29	1.99
342566--343158	174	3.4	174	97	0	1105	23	23	23	29	1.99
344107--344160	12	4.4	12	82	13	58	0	14	3	81	0.82
344109--344162	18	3.1	17	84	12	65	0	14	3	81	0.82
344108--344163	25	2.3	23	85	8	85	0	16	3	80	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
345881--346062	62	2.9	62	97	0	337	30	6	23	40	1.80
351580--351619	20	2.0	20	90	4	64	52	15	20	12	1.74
351784--351817	3	11.3	3	100	0	68	32	0	0	67	0.91
351867--351924	29	2.0	29	89	0	89	36	6	12	44	1.68
352549--352593	22	2.1	21	87	4	63	48	2	2	46	1.26
359540--359574	17	1.9	19	88	11	56	20	2	11	65	1.37
365420--365451	17	2.0	17	88	11	50	62	15	21	0	1.32
367252--367335	30	2.8	32	80	12	97	42	3	1	52	1.26
368699--368738	14	2.6	15	84	15	55	22	15	5	57	1.57
369163--369235	27	2.7	28	80	18	91	41	10	0	47	1.39
369163--369231	28	2.5	26	86	11	86	39	11	0	49	1.39
369283--369341	27	2.2	27	84	6	75	28	27	27	16	1.97
369570--369631	19	3.3	19	81	4	90	38	11	0	50	1.39
369618--369714	28	3.5	28	97	2	187	50	4	3	42	1.37
370543--370608	18	3.6	19	77	6	73	50	0	12	37	1.40
370550--370609	19	3.2	19	78	4	68	53	0	13	33	1.40
370841--370905	26	2.5	26	87	7	87	46	0	12	41	1.41
375387--375444	25	2.3	25	80	14	66	74	8	10	6	1.23
375839--375873	13	2.6	13	90	4	52	68	0	20	11	1.20
377930--377965	18	2.0	18	100	0	72	61	5	5	27	1.41
378050--378088	3	13.0	3	100	0	78	66	0	0	33	0.92
387820--387863	20	2.3	19	88	4	61	22	0	9	68	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
391527--392083	278	2.0	279	99	0	1107	43	6	10	39	1.64
398795--398883	44	2.0	44	95	0	160	35	21	14	28	1.93
399109--399159	2	25.0	2	77	18	52	50	1	3	43	1.31
399108--399169	29	2.1	30	96	3	117	51	3	6	38	1.44
400416--400461	20	2.2	22	84	7	60	39	0	8	52	1.33
403267--403301	5	7.4	5	93	6	56	40	0	0	60	0.97
413507--413535	2	14.5	2	100	0	58	51	0	0	48	1.00
422008--422065	30	1.9	30	92	0	98	37	8	10	43	1.70
423278--423316	14	2.7	15	84	8	53	23	10	0	66	1.22
424871--424943	36	2.0	36	100	0	146	36	2	16	43	1.62

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