genome.fa.s4.2.7.7.80.10.50.1000.73.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  73  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)
26838476--26838507	2	16.0	2	93	0	55	0	53	0	46	1.00
26852266--26852312	26	1.9	23	86	8	58	23	6	4	65	1.33
26860782--26860850	4	16.8	4	81	13	70	81	0	0	18	0.70
26860787--26860857	25	2.8	26	87	8	94	81	0	0	18	0.69
26860786--26860854	8	8.5	8	85	9	86	82	0	0	17	0.67
26862573--26862599	10	2.7	10	100	0	54	48	7	11	33	1.67
26864200--26864264	34	1.9	34	83	0	85	36	18	7	36	1.80
26866524--26866637	22	5.1	22	67	8	86	46	4	1	47	1.32
26866517--26866653	46	3.1	45	78	3	152	50	5	2	42	1.36
26866720--26866798	10	7.9	10	72	19	58	50	2	0	46	1.14
26866675--26866768	45	2.1	45	84	7	120	46	4	1	47	1.28
26866710--26866798	11	8.5	11	73	19	57	50	3	0	46	1.18
26866743--26866798	20	2.9	19	86	10	78	51	0	0	48	1.00
26870578--26870633	24	2.3	24	100	0	112	7	12	51	28	1.65
26871194--26871238	14	2.9	16	80	12	58	53	0	2	44	1.13
26871222--26871310	38	2.5	35	80	12	99	52	0	2	44	1.13
26871290--26871331	15	2.6	16	81	11	50	50	4	0	45	1.23
26871446--26871631	64	2.9	64	82	1	219	40	5	10	44	1.61
26887402--26887456	26	2.1	26	100	0	110	12	25	14	47	1.80
26889778--26889830	27	2.0	27	100	0	106	37	11	11	39	1.77
26891199--26891244	24	1.9	24	82	8	58	63	0	8	28	1.24
26897032--26897075	18	2.4	19	88	11	65	13	2	6	77	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26903965--26904006	21	2.0	21	86	9	59	50	0	2	47	1.14
26904334--26904470	42	3.3	42	87	1	186	29	26	17	26	1.97
26907405--26907684	138	2.0	138	96	0	515	28	23	17	30	1.97
26920623--26920658	18	1.9	19	88	5	56	36	0	8	55	1.30
26921214--26921266	20	2.7	20	74	14	56	18	1	5	73	1.12
26937289--26937317	6	5.0	6	95	4	51	86	13	0	0	0.58
26937431--26937464	3	11.3	3	100	0	68	35	0	0	64	0.94
26937800--26937854	21	2.6	21	82	8	58	61	1	0	36	1.06
26959988--26960067	28	3.0	26	75	15	81	38	7	11	42	1.69
26960006--26960656	28	23.8	27	74	9	187	41	13	8	36	1.75
26960018--26960625	55	11.1	54	76	8	392	41	13	8	36	1.75
26959930--26960574	137	4.7	137	77	5	482	42	13	7	35	1.74
26959938--26960650	110	6.5	109	74	8	437	41	13	8	36	1.75
26959930--26960625	27	25.3	27	73	11	385	41	13	8	36	1.74
26959938--26960651	192	3.7	190	79	5	758	41	13	8	36	1.75
26960937--26960979	2	21.5	2	90	0	68	51	0	2	46	1.13
26964639--26964680	22	1.9	22	85	9	59	26	2	2	69	1.13
26971385--26971457	31	2.3	31	92	2	119	35	16	12	35	1.86
26974508--26974635	67	1.9	68	88	4	197	37	17	21	23	1.94
26977375--26977434	31	1.9	31	93	0	102	33	13	18	35	1.89
26992086--26992137	22	2.4	22	96	0	95	21	50	15	13	1.78
26998631--26998655	1	25.0	1	100	0	50	100	0	0	0	0.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27019041--27019096	27	2.0	28	89	3	87	57	0	3	39	1.16
27025776--27025994	121	1.8	119	84	4	287	34	11	10	43	1.75
27027163--27027277	57	2.0	57	82	0	140	35	33	18	12	1.88
27031265--27031324	2	30.5	2	90	9	97	48	0	1	50	1.11
27038521--27038559	19	2.0	20	85	5	53	20	5	7	66	1.36
27048050--27048112	19	3.3	19	71	10	56	36	0	0	63	0.95
27057673--27057706	16	2.1	16	88	0	50	35	0	0	64	0.94
27057716--27057745	2	15.0	2	92	0	51	46	0	3	50	1.18
27067149--27067204	29	1.9	29	92	0	94	57	3	7	32	1.43
27069820--27069864	2	22.5	2	100	0	90	51	0	48	0	1.00
27072040--27072106	22	2.8	23	77	16	73	50	4	0	44	1.22
27072074--27072108	18	1.9	18	94	0	61	54	2	0	42	1.15
27074358--27074459	30	3.5	30	85	9	140	58	1	0	39	1.09
27074681--27074720	19	2.2	19	86	13	57	45	0	0	55	0.99
27074690--27074745	26	2.2	26	87	3	78	51	0	0	48	1.00
27078542--27078891	175	2.0	168	87	3	502	24	12	30	34	1.91
27092939--27093035	30	3.3	30	75	4	90	32	12	7	47	1.68
27093115--27093177	33	1.9	33	86	0	90	36	6	17	39	1.75
27093110--27093180	33	2.2	33	81	0	88	38	8	15	38	1.78
27093452--27093709	131	2.0	130	100	0	507	30	11	13	44	1.78
27104042--27104136	31	3.1	31	92	3	147	41	16	13	28	1.87
27109849--27109918	29	2.4	28	79	9	77	21	25	8	44	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27117696--27117851	66	2.4	65	90	3	242	52	6	7	33	1.54
27118588--27118671	29	2.9	29	69	3	71	23	27	7	41	1.80
27122579--27122609	10	2.9	11	90	9	55	61	0	0	38	0.96
27122579--27122622	21	2.1	21	82	0	52	61	0	2	36	1.09
27127950--27127983	14	2.3	15	90	5	52	47	0	0	52	1.00
27127950--27127997	15	3.3	15	85	8	55	43	0	2	54	1.12
27128121--27128154	17	2.0	17	88	0	50	50	2	0	47	1.16
27128084--27128182	51	2.0	50	84	9	130	51	3	1	44	1.23
27128209--27128526	42	7.2	42	66	13	165	58	3	3	34	1.31
27128208--27128824	133	4.8	131	78	13	636	56	2	3	37	1.31
27128479--27128530	20	2.7	19	82	8	52	65	1	0	32	1.04
27128536--27128587	27	1.9	27	88	7	79	55	0	3	40	1.18
27128519--27128596	22	3.3	22	74	19	68	56	0	2	41	1.13
27128453--27128784	131	2.7	118	78	16	341	56	2	2	38	1.28
27128714--27128745	16	2.1	16	94	5	57	65	0	0	34	0.93
27137697--27137730	15	2.3	15	89	0	50	61	2	8	26	1.40
27172805--27172860	2	29.0	2	85	7	71	46	3	1	48	1.30
27172901--27172958	7	8.3	7	88	0	80	13	15	0	70	1.17
27173376--27173417	19	2.2	20	82	4	50	57	2	2	38	1.25
27175494--27175553	25	2.2	28	82	8	72	36	6	6	50	1.55
27176192--27176278	26	3.5	26	78	9	117	39	25	17	18	1.92
27176183--27176300	49	2.4	49	98	1	229	41	23	16	18	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27176182--27176300	23	4.9	24	76	10	109	42	23	15	18	1.89
27176459--27176485	11	2.5	11	100	0	54	0	51	0	48	1.00
27183706--27183900	100	2.0	99	83	3	248	34	16	12	36	1.86
27206749--27206795	19	2.5	19	72	10	51	59	0	0	40	0.97
27207154--27207325	85	2.0	87	85	5	233	43	6	6	43	1.57
27207661--27207703	17	2.5	17	81	7	52	25	0	0	74	0.82
27209455--27209490	3	12.0	3	93	0	63	2	33	0	63	1.08
27225453--27225523	35	2.0	35	97	0	133	38	11	8	42	1.71
27232527--27232578	25	2.1	25	100	0	104	40	3	23	32	1.72
27246273--27246323	25	2.0	25	96	0	93	37	23	13	25	1.92
27246924--27247109	81	2.3	81	90	2	295	39	12	8	39	1.74
27252721--27252747	2	13.5	2	100	0	54	51	0	0	48	1.00
27261722--27261830	36	3.0	36	95	0	191	34	24	13	26	1.93
27262554--27262602	23	2.1	23	92	0	80	22	12	4	61	1.48
27263029--27263056	2	14.0	2	100	0	56	50	0	0	50	1.00
27263439--27263471	17	1.9	17	88	11	50	12	6	0	81	0.85
27264025--27264081	30	1.9	30	92	0	96	43	12	26	17	1.84
27266561--27266585	10	2.5	10	100	0	50	40	20	20	20	1.92
27303327--27303380	15	3.4	15	76	18	56	3	11	0	85	0.73
27307464--27307495	2	16.0	2	100	0	64	0	50	0	50	1.00
27307921--27307948	3	9.3	3	100	0	56	0	32	0	67	0.91
27310590--27310632	2	21.5	2	100	0	86	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27314727--27314782	29	1.9	29	100	0	112	12	19	14	53	1.72
27320079--27320131	2	28.0	2	82	17	69	50	1	0	47	1.12
27320079--27320133	20	2.8	20	84	15	80	50	1	0	47	1.11
27320128--27320161	12	2.9	12	91	4	52	32	11	0	55	1.36
27322484--27322522	20	1.9	21	89	5	62	23	7	12	56	1.62
27324872--27324905	2	17.0	2	93	0	59	47	2	0	50	1.16
27325970--27326010	2	20.5	2	100	0	82	51	0	0	48	1.00
27327198--27327229	2	16.0	2	100	0	64	50	0	50	0	1.00
27329713--27329749	2	18.5	2	100	0	74	48	0	0	51	1.00
27332687--27332717	2	15.5	2	93	0	53	48	0	3	48	1.17

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