genome.fa.s1.2.7.7.80.10.50.1000.79.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:  37323695

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   

This is table  79  of  93  ( 11113 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)
30268858--30268940	2	42.0	2	88	7	125	49	2	0	46	1.14
30271018--30271134	38	3.1	38	97	0	216	44	12	5	37	1.65
30277774--30277838	18	3.6	18	76	2	67	29	10	16	43	1.82
30278502--30278560	15	3.9	15	75	20	52	71	11	0	16	1.15
30278511--30278560	17	3.3	15	79	17	59	70	12	0	18	1.17
30298867--30298904	18	2.1	19	85	5	51	28	2	13	55	1.51
30298909--30299418	272	1.9	272	90	1	817	41	5	6	46	1.53
30300029--30300112	20	4.3	20	68	6	64	71	1	1	26	1.01
30300029--30300118	26	3.5	26	74	14	69	70	1	1	27	1.02
30300037--30300110	32	2.3	32	82	13	89	70	1	1	27	1.04
30300343--30300376	15	2.3	15	94	0	59	35	14	5	44	1.70
30300820--30300859	18	2.1	18	86	9	53	47	0	2	50	1.14
30309944--30309968	3	8.3	3	100	0	50	32	0	68	0	0.90
30335960--30336122	81	2.0	81	97	0	308	41	11	19	27	1.86
30337971--30338023	23	2.3	23	74	6	54	32	1	1	64	1.15
30345479--30345506	5	5.6	5	100	0	56	0	0	78	21	0.75
30355510--30355630	61	2.0	59	93	6	208	33	3	4	57	1.36
30356130--30356167	18	2.1	18	85	9	51	42	0	15	42	1.47
30366743--30366776	16	2.1	16	88	0	50	82	0	8	8	0.85
30366968--30367012	23	1.9	23	86	4	63	66	2	13	17	1.34
30367539--30367811	129	2.1	129	90	1	422	23	30	35	9	1.87
30368411--30368454	23	2.0	22	86	4	61	56	2	6	34	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30370094--30370224	22	6.0	22	77	3	93	24	9	23	41	1.85
30370175--30370240	23	2.9	23	76	13	73	24	12	30	33	1.91
30370147--30370240	45	2.1	45	81	0	107	24	10	27	37	1.88
30371531--30371575	17	2.8	16	80	9	56	33	0	2	64	1.06
30377989--30378019	11	2.8	11	95	0	53	87	0	0	12	0.55
30387165--30387210	2	23.5	2	95	4	85	0	47	0	52	1.00
30406843--30406873	16	1.9	16	93	0	53	19	0	51	29	1.47
30413579--30413703	63	2.0	63	93	0	214	31	20	8	40	1.82
30421045--30421086	16	2.6	17	85	11	61	35	4	0	59	1.19
30421114--30421148	7	4.7	7	86	13	52	34	0	0	65	0.93
30421115--30421148	16	2.1	16	94	0	59	35	0	0	64	0.94
30426343--30426413	10	7.0	10	78	9	54	66	0	0	33	0.92
30426354--30426401	5	9.8	5	88	11	73	62	0	0	37	0.95
30426361--30426408	15	3.3	15	88	11	57	60	0	0	39	0.97
30455906--30455943	20	1.9	20	88	0	58	50	39	2	7	1.46
30465173--30465222	6	6.9	7	77	22	50	84	0	12	4	0.76
30475638--30475750	45	2.5	46	92	5	185	35	7	12	45	1.69
30487706--30487872	21	7.3	22	68	14	70	21	13	26	37	1.91
30487701--30487827	47	2.8	47	83	4	145	21	14	25	39	1.90
30487808--30487873	22	3.0	22	84	4	87	25	10	25	37	1.88
30487906--30487961	21	2.6	22	75	11	62	50	16	8	25	1.74
30489617--30489844	81	2.8	81	88	2	318	42	11	6	40	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30489863--30490124	111	2.4	111	92	1	427	43	13	11	31	1.79
30490215--30490255	18	2.3	18	87	8	57	39	9	26	24	1.86
30490350--30490389	20	2.0	20	90	0	62	35	10	22	32	1.87
30496531--30496577	3	15.7	3	79	16	53	29	0	0	70	0.88
30496522--30496580	17	3.2	20	77	22	74	28	0	0	71	0.87
30513391--30513423	10	3.3	10	95	0	57	36	0	12	51	1.39
30513383--30513419	6	6.5	6	81	12	51	37	0	10	51	1.37
30513788--30513832	12	3.7	13	75	24	53	60	0	0	40	0.97
30515259--30515367	31	3.5	31	94	0	200	25	15	21	37	1.93
30522075--30522411	118	2.9	117	82	3	435	23	19	28	28	1.98
30522310--30522489	87	2.1	87	87	4	256	22	22	25	29	1.99
30522336--30522526	87	2.2	87	81	7	210	24	23	25	27	2.00
30527753--30527976	31	7.2	31	91	1	315	37	17	17	26	1.92
30528659--30528968	47	6.6	47	80	3	329	27	29	17	25	1.97
30528677--30528942	94	2.8	94	86	0	370	25	29	18	25	1.98
30528677--30528942	141	1.9	141	86	1	381	25	29	18	25	1.98
30528772--30528945	23	7.4	23	65	11	93	26	29	18	24	1.98
30528659--30528968	94	3.3	93	81	7	365	27	29	17	25	1.97
30528659--30528967	141	2.2	140	81	4	379	27	29	17	25	1.97
30528912--30529059	58	2.5	57	86	4	197	26	34	14	25	1.94
30529032--30529082	23	2.2	23	85	0	66	25	33	9	31	1.88
30544890--30544924	2	17.5	2	93	0	61	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)
30544986--30545020	2	18.0	2	94	5	63	51	0	0	48	1.00
30544892--30545075	93	2.0	93	95	3	327	38	5	6	48	1.54
30547411--30547480	35	2.0	35	91	2	115	20	18	14	47	1.83
30553335--30553415	2	42.5	2	80	14	91	49	1	1	46	1.17
30553344--30553423	27	3.0	26	72	15	83	47	2	2	46	1.29
30553912--30553936	2	12.5	2	100	0	50	48	0	0	52	1.00
30566304--30566354	2	25.5	2	84	11	61	47	3	0	49	1.20
30577615--30577674	26	2.3	26	100	0	120	26	11	20	41	1.86
30579946--30580002	21	2.7	21	94	0	105	40	26	14	19	1.89
30580018--30580270	45	5.6	45	88	0	328	28	20	16	33	1.95
30580200--30580325	66	1.9	66	85	3	173	33	21	13	31	1.92
30580802--30580836	18	1.9	18	88	11	54	68	0	0	31	0.90
30580556--30581154	253	2.5	241	82	8	677	49	4	10	35	1.57
30581290--30581350	25	2.4	25	83	8	70	47	0	0	52	1.00
30588634--30588712	30	2.6	30	95	0	140	15	51	25	7	1.69
30588654--30588707	15	3.7	15	71	28	53	16	55	22	5	1.62
30588696--30588737	9	4.7	9	84	0	57	2	57	19	21	1.52
30592645--30592688	2	22.5	2	95	4	81	47	0	52	0	1.00
30597023--30597062	2	20.0	2	100	0	80	50	0	0	50	1.00
30597225--30597320	41	2.4	40	72	11	97	37	2	14	45	1.57
30597723--30597764	19	2.2	19	91	0	66	71	4	4	19	1.22
30597899--30597965	12	5.8	12	71	13	50	74	0	0	25	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30597896--30597966	8	7.9	8	76	17	52	74	0	0	25	0.82
30618436--30618470	17	2.0	18	88	5	54	42	2	25	28	1.69
30659155--30659212	30	1.9	30	100	0	116	50	13	18	17	1.79
30662871--30662896	12	2.2	12	100	0	52	46	23	15	15	1.83
30667553--30667653	25	4.0	26	72	3	89	30	17	12	38	1.88
30694641--30694689	2	24.5	2	87	8	73	2	46	0	51	1.12
30700178--30700221	23	2.0	22	82	13	54	45	0	0	54	0.99
30702288--30702375	44	2.0	44	97	0	167	37	12	25	25	1.91
30702298--30702369	22	3.2	23	67	28	64	37	12	25	25	1.91
30702780--30702832	8	6.0	8	85	14	61	28	0	0	71	0.86
30702783--30702832	18	2.9	17	86	13	68	28	0	0	72	0.86
30721995--30722471	242	2.0	244	89	2	735	27	16	20	36	1.94
30726594--30726649	24	2.3	24	90	0	94	42	8	12	35	1.74
30726594--30726656	24	2.6	24	85	5	92	41	9	12	36	1.76
30726619--30726740	45	2.7	45	79	0	127	35	13	17	34	1.88
30726871--30726980	38	2.6	42	75	20	122	28	15	22	33	1.95
30727056--30727113	31	1.9	30	86	6	82	43	8	15	32	1.77
30729461--30729501	18	2.2	19	86	4	57	78	2	0	19	0.87
30730333--30730357	3	8.3	3	100	0	50	36	0	0	64	0.94
30731965--30732004	21	1.9	21	85	10	55	37	5	0	57	1.21
30734636--30734669	14	2.4	14	95	0	59	0	41	0	58	0.98
30735813--30735870	30	1.9	30	92	0	98	22	15	22	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30739942--30740004	21	3.0	20	86	9	74	41	20	12	25	1.88
30750058--30750087	14	2.1	14	100	0	60	43	13	6	36	1.70
30754107--30754261	11	13.5	11	68	16	75	42	3	1	52	1.28
30754111--30754173	32	1.9	33	84	9	85	46	1	0	52	1.10
30754210--30754261	25	2.2	25	89	6	81	36	1	0	61	1.07
30755478--30755641	47	3.5	47	94	0	274	47	13	4	34	1.62
30756685--30756751	15	4.7	15	67	23	54	55	2	0	41	1.15
30756684--30756751	21	3.2	21	70	15	68	54	2	0	42	1.15
30764996--30765034	17	2.3	17	100	0	78	7	25	15	51	1.70
30777513--30777569	27	2.1	27	83	3	71	38	0	0	61	0.96

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