genome.fa.s8.2.7.7.80.10.50.1000.77.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  77  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)
30214156--30214188	17	1.9	17	88	11	50	42	0	0	57	0.98
30217179--30217238	21	2.9	20	78	14	59	66	0	1	31	1.01
30217549--30217612	31	2.1	31	88	2	94	45	9	20	25	1.80
30220645--30220708	29	2.2	29	94	0	110	51	9	12	26	1.70
30221038--30221094	6	8.8	6	76	14	51	3	35	0	61	1.13
30221034--30221104	34	2.1	34	97	0	133	5	33	1	59	1.30
30223359--30223423	28	2.3	29	76	7	71	41	3	12	43	1.58
30223756--30223807	25	2.2	25	93	6	90	57	3	5	32	1.40
30224349--30224382	15	2.2	16	89	5	52	70	14	0	14	1.17
30226725--30226751	6	4.5	6	100	0	54	70	0	0	29	0.88
30226716--30226751	18	2.0	18	88	0	54	66	2	0	30	1.06
30228325--30228360	15	2.4	15	95	0	63	27	19	13	38	1.90
30229923--30229960	19	1.9	20	89	10	60	36	2	0	60	1.11
30236137--30236526	92	4.2	92	88	2	568	44	16	8	30	1.77
30236137--30236526	123	3.2	122	88	3	563	44	16	8	30	1.77
30236137--30236526	31	12.7	31	89	3	540	44	16	8	30	1.77
30242120--30242184	29	2.2	29	97	0	121	32	15	18	33	1.92
30262319--30262369	25	2.0	25	100	0	102	39	21	31	7	1.82
30269287--30269506	109	2.0	110	98	0	424	43	13	15	27	1.84
30297628--30297676	22	2.2	22	77	0	53	20	12	8	59	1.58
30299818--30299858	21	2.0	21	90	0	64	26	21	19	31	1.97
30302756--30302810	25	2.2	25	77	6	58	29	1	3	65	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30311491--30311542	20	2.6	21	82	14	65	36	0	5	57	1.23
30323770--30323844	30	2.5	30	100	0	150	38	13	0	48	1.43
30343870--30343908	13	3.0	13	85	7	53	0	2	15	82	0.79
30343913--30344010	29	3.5	26	84	12	124	51	0	13	35	1.41
30343913--30344010	28	3.5	29	90	6	150	51	0	13	35	1.41
30345799--30345855	26	2.2	25	87	3	87	35	24	24	15	1.95
30345731--30345863	24	5.3	26	69	14	93	34	21	27	16	1.95
30349354--30349447	46	2.0	46	93	4	163	35	8	26	29	1.86
30352526--30352560	17	2.1	17	89	10	54	57	2	0	40	1.14
30354781--30354814	1	34.0	1	93	0	59	0	2	0	97	0.19
30375790--30375832	21	2.0	22	82	13	54	37	20	13	27	1.91
30404389--30404424	17	2.1	17	89	0	54	50	0	11	38	1.38
30404977--30405051	38	2.0	37	82	10	89	38	1	12	48	1.49
30410014--30410243	114	2.0	114	100	0	460	32	6	22	39	1.78
30411710--30412007	148	2.0	149	99	0	589	44	10	8	35	1.70
30438569--30438611	23	2.0	22	86	9	61	41	4	9	44	1.57
30438705--30438761	26	2.2	26	81	9	62	66	5	28	0	1.13
30440136--30440237	37	2.6	37	74	11	91	22	19	27	30	1.98
30440695--30440728	17	1.9	18	88	5	52	38	0	26	35	1.57
30450887--30450913	3	9.0	3	100	0	54	66	0	0	33	0.92
30451822--30451863	20	2.1	20	86	0	57	23	9	30	35	1.87
30452282--30452312	15	2.1	15	93	0	53	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30454999--30455043	22	2.1	21	91	4	72	73	0	8	17	1.08
30454986--30455043	22	2.5	24	78	13	68	70	1	6	20	1.19
30455378--30455435	23	2.5	23	76	20	59	25	3	3	67	1.22
30462419--30462468	18	2.6	19	76	14	50	58	2	32	8	1.39
30468166--30468193	14	2.0	14	100	0	56	57	0	7	35	1.26
30475986--30476028	20	2.1	21	83	12	54	44	0	6	48	1.29
30477957--30478114	79	2.0	79	98	0	307	36	14	3	44	1.63
30485340--30485378	19	2.1	19	85	9	53	38	7	5	48	1.54
30486220--30486268	9	5.4	9	90	9	82	26	10	20	42	1.84
30494683--30494741	29	2.0	30	90	3	93	25	3	18	52	1.61
30494964--30494991	2	14.0	2	100	0	56	50	0	0	50	1.00
30497571--30497907	166	2.0	166	98	0	647	31	10	22	36	1.88
30505936--30505965	2	15.0	2	100	0	60	0	50	0	50	1.00
30508591--30508631	21	2.0	21	100	0	82	19	14	14	51	1.77
30518379--30518467	30	3.0	30	81	0	106	37	23	15	23	1.93
30523992--30524400	178	2.3	180	77	7	383	44	17	14	23	1.85
30528213--30528276	27	2.4	27	83	0	74	50	9	0	40	1.35
30528236--30528287	27	1.9	27	84	7	70	57	11	0	30	1.34
30528326--30528385	27	2.2	27	81	0	66	33	25	26	15	1.95
30528811--30528994	90	2.1	88	94	2	323	23	12	13	50	1.75
30529048--30529106	19	3.2	19	80	4	84	49	0	11	38	1.40
30530156--30530215	14	4.5	13	76	12	50	51	0	10	38	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30538263--30538288	13	2.0	13	100	0	52	53	15	7	23	1.67
30538985--30539092	57	1.9	57	82	3	137	62	8	2	26	1.38
30541182--30541264	40	2.1	40	97	0	157	37	32	21	8	1.84
30542609--30542657	21	2.3	21	89	6	73	8	12	44	34	1.71
30542628--30542669	21	2.0	21	85	0	57	7	14	42	35	1.73
30544499--30544528	3	10.0	3	92	0	51	33	3	33	30	1.74
30548421--30548462	22	1.9	22	85	9	59	47	2	4	45	1.36
30548636--30548668	14	2.2	16	89	10	52	57	0	9	33	1.30
30551272--30551300	2	14.5	2	100	0	58	51	0	0	48	1.00
30559495--30559549	27	2.0	27	85	3	74	25	21	1	50	1.58
30561929--30562003	30	2.4	32	82	10	93	38	8	8	45	1.63
30578083--30578166	41	2.0	41	97	0	159	52	8	0	39	1.32
30593248--30593288	2	20.5	2	100	0	82	51	0	0	48	1.00
30600165--30600209	23	2.0	22	82	4	54	40	17	2	40	1.62
30601449--30601478	14	2.1	14	100	0	60	66	20	0	13	1.24
30602295--30602343	16	3.1	16	87	0	80	40	6	32	20	1.77
30602323--30602418	44	2.1	46	86	3	142	29	6	29	35	1.82
30605295--30605330	15	2.4	14	86	13	54	69	2	8	19	1.27
30605848--30605874	10	2.7	10	100	0	54	44	18	7	29	1.77
30618719--30618807	37	2.4	37	83	5	99	29	39	12	19	1.88
30621412--30621452	21	2.0	21	85	0	55	24	29	34	12	1.91
30629102--30629144	22	2.0	22	86	4	61	51	4	16	27	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30632503--30632565	31	2.0	31	100	0	126	42	12	12	31	1.81
30636119--30636150	14	2.3	14	94	0	55	31	0	15	53	1.43
30644000--30644042	2	21.5	2	80	0	50	53	0	6	39	1.28
30643996--30644040	6	7.5	6	94	0	63	53	0	8	37	1.32
30645264--30645410	75	1.9	77	93	2	253	44	6	3	44	1.47
30647714--30647808	47	2.0	47	100	0	190	27	28	14	29	1.95
30650724--30650807	42	2.0	42	85	0	114	21	38	10	29	1.87
30659159--30659256	33	3.0	33	81	4	117	18	11	17	53	1.73
30660750--30660788	18	2.1	18	85	4	51	61	0	15	23	1.33
30666584--30666613	16	1.9	15	93	6	51	23	0	0	76	0.78
30674870--30674905	16	2.2	17	95	5	65	27	0	0	72	0.85
30678530--30678627	24	4.0	24	74	10	92	22	20	18	38	1.93
30687658--30687701	18	2.4	18	100	0	88	34	13	22	29	1.93
30689585--30689640	24	2.3	24	93	0	94	19	23	19	37	1.94
30689585--30689703	24	4.9	24	73	9	89	21	22	17	37	1.94
30689633--30689689	25	2.3	25	79	11	64	24	22	14	38	1.91
30691221--30691289	33	2.1	33	88	0	102	37	10	23	28	1.87
30692792--30692825	13	2.6	14	86	13	54	44	17	11	26	1.83
30697009--30697190	87	2.1	87	97	0	346	20	30	19	29	1.97
30701641--30701694	27	2.0	27	92	0	90	38	11	29	20	1.87
30704575--30704617	19	2.1	21	87	8	63	58	2	2	37	1.24
30704639--30704697	29	2.1	28	84	9	75	64	1	1	32	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30705449--30705526	38	2.0	39	90	7	124	51	25	2	20	1.60
30705657--30705722	17	3.7	17	71	11	60	34	3	15	46	1.61
30705654--30705725	37	1.9	37	91	0	117	36	2	15	45	1.60
30705883--30705907	12	2.1	12	100	0	50	16	24	36	24	1.94
30711330--30711411	31	2.6	31	88	1	119	43	13	13	29	1.82
30719883--30719955	25	3.0	23	74	20	69	16	27	20	35	1.94
30725812--30725909	25	3.9	25	80	5	99	31	22	28	17	1.96
30725805--30725927	50	2.5	50	82	2	131	31	22	26	19	1.98
30727390--30727414	7	3.6	7	100	0	50	64	0	24	12	1.27
30727938--30728000	23	2.8	23	79	11	76	17	34	20	26	1.95

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