genome.fa.s8.2.7.7.80.10.50.1000.18.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: Chr9
Parameters: 2 7 7 80 10 50 1000
Length:  48574783

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   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   

This is table  18  of  135  ( 16172 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)
7302362--7302405	22	2.0	22	86	0	61	34	13	11	40	1.81
7303401--7303469	30	2.3	30	76	2	75	37	1	8	52	1.42
7304372--7304407	2	18.0	2	100	0	72	50	0	0	50	1.00
7305221--7305252	16	2.0	16	93	0	55	34	12	21	31	1.91
7306695--7306741	24	2.0	24	86	0	67	44	17	4	34	1.68
7309324--7309381	27	2.1	27	83	0	71	65	5	1	27	1.23
7312585--7312628	22	2.0	22	86	0	61	34	13	11	40	1.81
7313624--7313692	30	2.3	30	76	2	75	37	1	8	52	1.42
7314595--7314630	2	18.0	2	100	0	72	50	0	0	50	1.00
7315444--7315475	16	2.0	16	93	0	55	34	12	21	31	1.91
7316773--7316839	31	2.2	31	97	2	127	28	10	7	53	1.62
7316949--7316995	24	2.0	24	86	0	67	44	17	4	34	1.68
7321811--7321839	10	2.7	11	89	10	51	37	17	0	44	1.49
7324852--7325110	128	2.0	128	97	0	491	37	11	18	32	1.87
7329685--7329783	49	2.0	49	98	0	189	24	10	32	33	1.88
7331919--7331944	3	8.7	3	100	0	52	0	0	30	69	0.89
7332312--7332363	3	17.3	3	100	0	104	32	0	0	67	0.91
7333408--7333454	20	2.3	21	78	14	62	23	23	14	38	1.92
7335988--7336056	31	2.2	31	80	10	79	47	2	11	37	1.55
7345358--7345393	16	2.2	16	90	0	54	50	5	2	41	1.40
7347417--7347447	14	2.2	14	94	0	53	61	0	9	29	1.28
7347886--7347934	22	2.3	20	83	13	62	44	0	12	42	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7352166--7352220	29	1.9	28	85	3	74	45	7	0	47	1.30
7352244--7352328	41	2.1	41	97	0	161	25	16	7	50	1.70
7355539--7355615	27	2.9	27	90	3	120	16	24	38	19	1.92
7355835--7355872	19	2.0	19	89	0	58	50	7	5	36	1.54
7355968--7356054	22	3.7	22	92	7	129	54	13	0	32	1.40
7359085--7359112	9	3.1	9	100	0	56	57	10	0	32	1.33
7359071--7359196	68	1.9	66	95	3	225	46	8	3	40	1.53
7359185--7359226	16	2.6	16	92	0	66	42	7	2	47	1.43
7359200--7359255	23	2.5	23	82	2	69	44	1	1	51	1.22
7359071--7359218	68	2.3	66	87	10	202	47	8	3	40	1.51
7371260--7371304	23	2.0	23	86	0	63	31	0	2	66	1.04
7371295--7371351	14	4.0	14	77	4	51	68	3	0	28	1.06
7371422--7371460	19	2.1	19	85	0	51	64	12	5	17	1.46
7372008--7372051	14	3.0	14	83	6	52	38	0	0	61	0.96
7371996--7372035	14	2.7	15	84	11	55	35	0	2	62	1.09
7374228--7374261	16	2.2	16	89	5	52	14	11	8	64	1.49
7387249--7387518	65	4.2	65	100	0	540	34	18	15	31	1.92
7387279--7387517	28	7.2	36	63	23	148	32	18	16	32	1.93
7387558--7387651	18	5.2	18	93	0	152	42	24	8	24	1.82
7387558--7387643	9	9.6	9	89	0	136	43	23	9	24	1.83
7392896--7392931	7	5.4	7	93	6	58	0	11	0	88	0.50
7394005--7394139	59	2.3	58	80	9	157	21	19	15	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7397529--7397561	13	2.8	12	86	13	50	45	18	9	27	1.79
7399325--7399441	19	6.4	19	75	18	90	55	5	1	36	1.35
7399310--7399433	50	2.5	50	93	2	196	58	4	1	35	1.29
7399348--7399413	31	2.1	32	86	8	91	57	3	1	37	1.23
7403393--7403595	29	7.5	28	82	9	212	44	25	1	28	1.65
7403437--7403554	23	4.9	23	76	17	105	42	26	3	27	1.71
7403480--7403583	23	4.3	23	74	12	82	43	25	2	27	1.69
7408845--7409024	45	4.0	45	100	0	360	48	6	22	22	1.73
7414978--7415086	44	2.5	44	92	1	193	32	22	14	30	1.94
7418115--7418148	17	2.1	17	88	5	52	50	0	17	32	1.47
7419043--7419110	30	2.3	30	84	0	82	29	48	17	4	1.67
7419164--7419201	18	2.1	18	90	0	58	21	26	10	42	1.85
7420184--7420239	23	2.4	23	78	3	67	58	0	1	39	1.08
7440142--7440170	14	2.0	15	93	6	51	48	20	3	27	1.66
7440355--7440486	40	3.4	39	76	7	117	30	26	18	25	1.98
7447163--7447199	19	2.0	18	89	5	56	81	0	18	0	0.70
7448974--7449172	99	2.0	100	99	1	391	35	9	13	42	1.75
7455767--7455810	17	2.5	17	77	3	52	52	0	0	47	1.00
7457910--7457966	19	2.7	22	76	15	66	40	17	7	35	1.77
7457900--7457957	22	2.6	22	81	7	64	41	17	5	36	1.72
7468860--7468915	2	28.0	2	92	0	94	1	46	0	51	1.11
7469246--7469276	16	1.9	16	93	0	53	19	6	6	67	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7469797--7469872	29	2.6	29	87	8	84	36	10	25	27	1.89
7475003--7475309	154	2.0	154	99	0	605	21	14	22	41	1.90
7480111--7480249	69	2.0	69	97	0	260	39	15	15	28	1.89
7486552--7486586	14	2.5	14	90	0	52	74	0	0	25	0.82
7489479--7489568	45	2.0	45	82	6	112	34	26	5	33	1.80
7489548--7489584	16	2.3	16	95	0	65	21	32	5	40	1.76
7501041--7501079	17	2.3	17	100	0	78	35	0	48	15	1.45
7510810--7511004	31	6.4	31	70	11	152	44	14	17	23	1.86
7510865--7511004	31	4.5	31	77	12	153	45	12	17	24	1.83
7510810--7511004	92	2.1	90	88	1	282	44	14	17	23	1.86
7515680--7515711	5	6.6	5	96	3	57	0	15	0	84	0.63
7519012--7519247	117	2.0	118	98	0	456	36	4	11	48	1.58
7521635--7522538	120	7.5	120	100	0	1808	24	30	8	36	1.86
7524765--7525348	120	4.9	120	100	0	1168	25	29	9	35	1.87
7529657--7529705	19	2.4	21	83	10	57	16	2	8	73	1.16
7529684--7529798	33	3.3	33	65	21	90	23	13	4	59	1.52
7529680--7529821	72	2.0	73	98	1	277	23	14	3	58	1.51
7529687--7529801	37	3.2	37	66	14	112	22	13	4	59	1.53
7541546--7541925	189	2.0	189	98	0	742	38	21	12	27	1.90
7542300--7542326	2	13.5	2	100	0	54	51	0	0	48	1.00
7544564--7544621	21	2.7	21	84	10	73	67	18	3	10	1.35
7544555--7544621	22	3.0	22	83	10	75	65	17	4	11	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7552053--7552079	3	9.0	3	100	0	54	33	0	33	33	1.58
7559517--7559551	18	2.0	17	94	5	61	57	0	0	42	0.99
7562937--7562961	8	3.1	8	100	0	50	88	0	12	0	0.53
7575259--7575297	12	3.2	12	81	0	51	5	25	5	64	1.35
7592603--7592874	134	2.0	134	97	0	517	37	17	12	31	1.88
7597068--7597298	114	2.0	114	90	3	365	34	22	10	32	1.88
7599281--7599344	21	3.1	21	66	20	62	28	15	23	32	1.95
7603876--7603902	12	2.2	12	100	0	54	77	7	0	14	0.97
7604726--7604899	88	2.0	87	83	5	217	39	14	6	39	1.72
7605007--7605132	59	2.1	59	82	7	148	60	4	6	28	1.42
7605118--7605188	35	2.0	35	89	5	108	60	0	7	32	1.23
7605235--7605260	8	3.2	8	100	0	52	11	0	0	88	0.52
7605324--7605392	34	2.0	34	83	5	86	31	2	4	60	1.31
7605346--7605478	59	2.3	59	100	0	266	32	3	3	61	1.26
7609707--7609749	14	3.0	14	86	3	50	41	37	0	20	1.53
7610060--7611015	115	8.4	115	82	4	1087	25	23	19	31	1.98
7610060--7611015	229	4.2	227	84	3	1107	25	23	19	31	1.98
7610073--7611015	457	2.1	457	83	4	1170	25	22	19	32	1.98
7621241--7622175	467	2.0	468	99	0	1863	41	15	10	33	1.81
7623375--7623419	2	22.5	2	100	0	90	51	0	0	48	1.00
7624853--7624909	30	1.9	30	82	13	73	43	3	3	49	1.36
7649749--7649776	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7653564--7653606	13	3.5	13	81	6	54	23	0	0	76	0.78
7655025--7655450	213	2.0	213	99	0	843	41	7	10	40	1.68
7655795--7655838	21	2.1	21	82	0	52	65	6	6	20	1.39
7656428--7656452	12	2.1	12	100	0	50	68	0	0	32	0.90
7658020--7658095	30	2.5	31	79	10	86	42	1	9	47	1.44
7659005--7659046	16	2.4	18	80	7	52	30	2	0	66	1.04
7659846--7659897	25	2.0	26	88	3	79	32	23	5	38	1.78
7663247--7663584	168	2.0	169	99	0	669	40	9	11	38	1.74
7673924--7673988	29	2.2	29	79	15	71	53	1	3	41	1.25
7675850--7675889	20	2.0	20	100	0	80	15	20	30	35	1.93

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   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135