genome.fa.s6.2.7.7.80.10.50.1000.80.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: Chr1
Parameters: 2 7 7 80 10 50 1000
Length:  35726063

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   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   

This is table  80  of  109  ( 13028 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)
25735120--25735194	19	3.8	19	86	6	114	38	16	8	37	1.78
25735131--25735193	21	3.1	21	88	9	103	39	14	7	38	1.75
25736157--25736187	16	1.9	16	93	0	53	9	6	9	74	1.23
25739581--25739605	9	2.8	9	100	0	50	12	20	0	68	1.21
25754646--25754677	1	32.0	1	100	0	64	0	0	0	100	0.00
25755270--25755319	13	3.8	13	89	0	82	32	0	26	42	1.56
25756508--25756552	15	2.7	18	83	16	62	53	0	2	44	1.13
25758978--25759017	14	2.8	14	80	3	53	42	0	0	57	0.98
25761181--25761226	21	2.2	21	84	7	58	28	34	17	19	1.94
25762084--25762324	90	2.7	90	83	1	288	33	15	24	26	1.95
25765785--25765825	17	2.4	17	100	0	82	24	29	26	19	1.98
25766433--25766462	3	10.0	3	100	0	60	66	0	0	33	0.92
25767875--25767902	2	14.0	2	100	0	56	0	50	0	50	1.00
25776193--25776245	17	3.1	16	76	15	52	49	0	3	47	1.19
25776248--25776315	35	1.9	35	82	11	86	33	14	2	48	1.59
25776457--25776503	14	3.4	13	83	13	58	72	0	0	27	0.85
25776456--25776492	20	1.9	20	88	5	58	75	0	0	24	0.80
25786820--25786878	27	2.1	28	84	12	86	28	25	10	35	1.89
25799669--25799803	10	14.2	9	68	15	58	65	3	2	27	1.23
25799708--25799804	38	2.6	36	80	11	104	64	3	4	27	1.26
25800108--25800134	2	13.5	2	100	0	54	51	0	0	48	1.00
25800333--25800380	22	2.2	22	88	0	69	18	2	6	72	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25802357--25802387	14	2.2	14	100	0	62	38	0	0	61	0.96
25805822--25806008	89	2.1	89	89	3	286	50	8	6	35	1.58
25805841--25806028	89	2.1	90	97	1	360	47	7	7	37	1.60
25806810--25806877	32	2.1	32	86	5	93	35	1	2	60	1.21
25806910--25806957	20	2.3	20	80	13	53	56	2	2	39	1.23
25807357--25807400	20	2.1	21	83	4	54	56	2	2	38	1.24
25807494--25807555	32	1.9	32	90	6	99	51	11	3	33	1.54
25807495--25807569	32	2.4	31	84	8	91	56	9	2	32	1.45
25812060--25812111	26	2.0	26	88	7	79	44	3	1	50	1.31
25812034--25812111	25	3.1	25	80	9	70	48	2	1	47	1.23
25814245--25814300	21	2.5	23	85	14	89	46	25	14	14	1.82
25819834--25820080	123	2.0	124	99	0	487	50	12	9	27	1.71
25821029--25821107	25	3.2	25	78	7	88	32	16	30	20	1.94
25825915--25826364	227	2.0	227	93	0	767	30	20	15	34	1.93
25827608--25827695	25	3.6	25	74	8	92	30	20	28	20	1.98
25831025--25831220	99	2.0	100	98	1	385	43	8	9	38	1.67
25838767--25838807	19	2.2	19	86	0	55	60	2	4	31	1.30
25845175--25845205	1	31.0	1	100	0	62	0	0	0	100	0.00
25852932--25853000	3	23.7	3	75	16	65	28	2	2	65	1.22
25852941--25852993	14	3.7	14	80	12	63	30	3	3	62	1.30
25853051--25853112	15	3.9	15	71	10	52	24	3	1	70	1.10
25853177--25853210	18	1.9	18	88	5	52	23	2	5	67	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25853143--25853200	22	2.7	20	71	10	53	24	1	5	68	1.19
25873815--25873909	47	2.0	47	93	0	163	34	12	7	45	1.70
25880455--25880529	27	2.8	26	78	7	80	29	17	8	45	1.77
25880677--25880710	6	5.7	6	92	0	50	14	20	0	64	1.28
25881863--25881907	18	2.6	18	86	10	58	73	2	4	20	1.11
25883874--25883959	35	2.5	35	81	9	106	45	0	4	50	1.22
25883901--25883961	24	2.5	23	80	15	61	45	0	4	49	1.23
25889524--25889593	35	2.0	34	86	8	97	45	0	4	50	1.21
25889528--25889609	35	2.4	34	80	8	94	45	0	6	48	1.27
25890610--25890650	6	6.7	6	91	2	64	19	19	14	46	1.84
25895289--25895335	18	2.6	17	78	12	58	42	17	2	38	1.61
25895468--25895544	14	5.0	15	72	20	61	31	9	18	41	1.81
25901489--25902438	475	2.0	472	96	0	1747	35	16	19	29	1.93
25903035--25903065	14	2.2	14	100	0	62	61	32	6	0	1.21
25904302--25904349	18	2.7	18	76	0	60	37	4	43	14	1.65
25907842--25907875	17	1.9	18	88	5	52	73	2	2	20	1.09
25912768--25912796	12	2.4	12	100	0	58	58	0	6	34	1.25
25914517--25914966	51	8.9	51	74	5	376	30	14	25	30	1.95
25914516--25914960	102	4.4	102	89	1	610	30	14	25	30	1.95
25921033--25921067	11	3.0	11	84	15	52	62	2	25	8	1.38
25921033--25921066	13	2.8	12	91	8	52	64	2	23	8	1.36
25921403--25921474	36	2.0	35	91	2	117	31	8	27	31	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25921772--25921866	48	2.0	48	93	0	163	20	15	21	43	1.88
25926483--25926554	36	2.0	35	91	2	117	31	8	27	31	1.86
25926852--25926946	48	2.0	48	91	0	154	18	15	22	43	1.88
25927250--25927274	6	4.2	6	100	0	50	84	0	16	0	0.63
25929535--25929618	29	2.9	28	72	12	71	28	5	4	60	1.40
25930227--25930257	15	2.1	15	100	0	62	0	12	0	87	0.55
25933574--25933612	16	2.4	16	100	0	78	28	23	7	41	1.82
25935838--25935892	15	3.8	15	76	4	60	38	1	0	60	1.08
25935831--25935892	22	2.9	21	78	4	70	35	1	0	62	1.05
25936093--25936148	27	2.0	27	89	3	85	39	8	3	48	1.52
25937301--25937328	2	14.0	2	100	0	56	50	0	0	50	1.00
25946515--25946732	98	2.2	98	88	1	339	27	16	27	28	1.97
25947905--25947936	15	2.1	15	94	0	55	56	15	6	21	1.62
25947910--25947944	15	2.3	15	90	0	52	62	11	2	22	1.41
25949807--25950652	44	19.5	44	71	16	400	27	23	19	29	1.98
25949885--25950220	173	1.9	173	97	0	636	28	25	17	27	1.98
25949886--25950314	173	2.5	173	88	4	555	28	25	17	28	1.98
25949807--25950661	217	3.9	217	86	3	1068	27	23	19	29	1.98
25952917--25952960	22	2.0	22	100	0	88	22	45	13	18	1.84
25961996--25962022	5	5.4	5	100	0	54	62	0	0	37	0.95
25962532--25962568	13	2.7	14	84	16	51	67	8	2	21	1.29
25965045--25965086	19	2.2	19	87	8	59	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25969111--25969143	12	2.8	12	90	4	50	42	33	18	6	1.75
25970935--25970990	29	1.9	29	82	7	69	26	17	14	41	1.88
25971196--25971310	51	2.3	51	93	0	194	27	30	0	41	1.56
25971422--25971484	18	3.5	18	72	20	51	33	0	3	63	1.10
25972255--25972279	7	3.6	7	100	0	50	28	0	12	60	1.32
25972931--25972965	18	1.9	18	88	0	52	25	34	5	34	1.80
25973124--25973212	29	3.0	29	84	9	135	42	30	1	25	1.62
25973116--25973208	30	3.1	30	84	9	145	40	32	2	24	1.67
25973222--25973320	29	3.4	29	81	5	128	46	25	1	27	1.59
25973309--25973517	55	3.8	55	88	5	307	36	13	5	44	1.68
25973502--25973526	10	2.5	10	100	0	50	44	8	0	48	1.32
25973326--25973530	109	1.9	109	84	8	245	36	11	6	45	1.66
25976629--25976979	124	2.8	124	94	1	614	32	21	15	30	1.94
25977452--25977477	13	2.0	13	100	0	52	30	15	0	53	1.42
25997175--25997236	20	3.2	20	82	8	74	32	3	0	64	1.09
25997192--25997254	32	2.0	31	84	9	83	30	6	0	63	1.19
26008848--26008876	14	2.1	14	100	0	58	34	17	13	34	1.89
26012595--26012639	23	2.0	23	86	0	63	55	4	6	33	1.46
26015752--26015816	3	20.7	3	73	14	51	27	4	3	64	1.28
26015758--26015890	19	6.6	20	70	16	78	28	5	4	61	1.37
26016118--26016147	2	15.0	2	100	0	60	50	0	0	50	1.00
26020346--26020423	36	2.2	35	82	8	88	75	5	6	12	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26020396--26020437	21	2.0	21	85	4	57	71	0	9	19	1.13
26021345--26021387	7	6.0	7	94	5	77	72	0	13	13	1.13
26021490--26021590	42	2.4	42	98	0	193	25	13	30	29	1.94
26022672--26023110	44	10.0	44	88	1	567	29	19	22	28	1.98
26023368--26023642	44	6.3	44	87	1	365	28	20	22	28	1.99
26022854--26023893	516	2.0	516	92	0	1724	30	19	22	27	1.98
26025226--26025278	3	17.7	3	84	7	72	30	1	1	66	1.13
26025233--26025288	24	2.3	24	87	9	78	28	1	3	66	1.19
26031414--26031482	18	3.8	18	86	0	93	27	4	27	40	1.75
26041158--26041224	2	33.5	2	100	0	134	0	49	0	50	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   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109