genome.fa.s9.2.7.7.80.10.50.1000.71.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:  38630433

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   

This is table  71  of  97  ( 11551 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)
28457389--28457413	3	8.3	3	100	0	50	68	0	0	32	0.90
28460455--28460990	284	1.9	281	86	3	772	31	11	13	43	1.80
28461352--28461399	20	2.4	20	92	0	78	33	16	18	31	1.94
28466144--28466197	27	2.0	27	92	0	90	62	0	0	37	0.95
28466149--28466191	22	2.0	22	86	9	61	62	0	0	37	0.95
28466409--28466463	23	2.3	24	81	3	67	36	1	3	58	1.26
28475494--28475539	23	2.0	23	91	0	74	41	13	6	39	1.70
28479107--28479140	15	2.3	15	90	5	52	26	32	0	41	1.56
28482518--28482561	21	2.1	21	100	0	88	36	18	9	36	1.82
28487069--28487128	21	2.9	21	80	2	77	40	13	13	33	1.83
28487255--28487296	16	2.6	16	88	3	57	71	9	2	16	1.23
28501987--28502045	18	3.2	19	77	15	70	59	8	3	28	1.43
28502090--28502114	12	2.1	12	100	0	50	32	32	0	36	1.58
28503611--28503772	80	2.0	79	88	3	236	37	8	15	39	1.77
28503847--28503897	26	2.0	26	88	0	75	45	5	15	33	1.71
28503883--28504077	105	1.9	105	84	0	264	43	14	13	28	1.84
28506041--28506079	21	1.9	21	89	5	62	30	5	2	61	1.31
28506092--28506129	19	2.0	19	85	10	51	31	0	2	65	1.06
28506559--28506597	18	2.2	18	86	9	53	33	7	33	25	1.84
28510178--28510400	75	3.0	75	79	8	246	37	9	15	37	1.80
28522835--28522954	58	2.1	58	98	0	231	36	8	4	50	1.52
28528968--28528992	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28529092--28529213	40	3.1	38	80	7	129	22	15	37	24	1.93
28529108--28529213	38	2.7	40	88	2	144	21	16	38	23	1.92
28532168--28532571	203	2.0	203	97	1	758	43	12	10	32	1.77
28534836--28534897	29	2.2	28	82	8	72	22	4	6	66	1.35
28536120--28536158	20	2.0	20	89	0	60	76	0	5	17	0.96
28541732--28541786	26	2.1	26	83	12	69	58	0	0	41	0.98
28542024--28542526	247	2.0	247	98	1	965	43	11	10	33	1.76
28543824--28543871	25	1.9	25	91	8	80	22	6	31	39	1.79
28552377--28552408	14	2.3	14	94	0	55	56	9	0	34	1.32
28554864--28554903	16	2.5	15	80	11	53	75	7	5	12	1.18
28554891--28554948	24	2.4	25	77	11	68	74	8	0	17	1.06
28564971--28565015	2	22.5	2	100	0	90	48	0	0	51	1.00
28572331--28572364	2	17.0	2	93	0	59	50	2	0	47	1.16
28572654--28572685	2	16.0	2	100	0	64	50	0	0	50	1.00
28573516--28573554	16	2.4	16	87	8	53	20	2	0	76	0.90
28573915--28573955	19	2.2	19	86	4	57	43	4	0	51	1.23
28578041--28578084	20	2.1	22	87	8	65	25	0	0	75	0.81
28578097--28578155	22	2.7	21	82	15	66	52	3	0	44	1.17
28578140--28578178	15	2.6	15	87	0	51	56	0	2	41	1.13
28578119--28578164	22	2.1	22	83	0	56	58	2	0	39	1.10
28578155--28578217	23	2.7	24	79	16	69	53	0	1	44	1.10
28578179--28578213	14	2.5	14	90	0	52	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)
28578185--28578234	24	2.0	25	88	11	77	50	0	0	50	1.00
28580551--28580605	22	2.5	22	88	2	76	30	5	10	52	1.59
28587602--28587724	18	6.7	18	67	18	65	56	5	2	35	1.36
28590656--28590699	21	2.1	21	100	0	88	56	18	11	13	1.66
28605258--28605314	28	2.0	29	83	6	73	33	21	21	24	1.97
28615858--28615903	19	2.4	20	82	10	60	52	0	2	45	1.13
28620245--28620343	35	2.8	35	76	0	117	33	18	15	33	1.92
28622199--28622241	21	2.1	21	87	8	63	65	4	6	23	1.37
28623835--28623879	19	2.4	19	88	7	65	64	0	0	35	0.94
28627942--28628073	64	2.0	65	88	1	194	28	9	25	37	1.86
28637452--28637527	27	2.8	27	95	0	134	7	27	18	46	1.77
28637537--28637571	5	7.4	5	87	12	56	0	17	0	82	0.66
28638025--28638112	36	2.4	39	79	12	105	1	21	10	67	1.27
28638030--28638115	38	2.2	39	83	4	111	1	19	10	68	1.25
28638133--28638187	2	27.5	2	100	0	110	49	0	0	50	1.00
28638367--28638399	2	16.5	2	93	0	57	48	0	0	51	1.00
28642173--28642252	35	2.3	35	84	4	99	22	12	31	33	1.91
28644168--28644205	15	2.5	15	84	16	51	42	0	2	55	1.14
28644228--28644271	23	1.9	23	90	0	70	47	0	4	47	1.22
28644160--28645124	348	2.8	339	83	8	1139	44	6	7	40	1.60
28667054--28667133	27	3.0	27	74	3	81	33	21	20	25	1.97
28669104--28669206	30	3.5	30	78	11	104	25	18	13	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28673232--28673294	29	2.2	29	82	5	74	55	0	6	38	1.25
28682696--28682725	3	10.0	3	92	0	51	30	0	0	70	0.88
28682320--28684428	514	4.2	503	84	5	2416	34	11	5	48	1.63
28682320--28684432	250	8.4	251	81	5	2189	34	11	5	48	1.63
28684234--28684608	200	1.9	196	86	3	536	37	10	6	45	1.65
28686669--28688440	503	3.5	501	88	2	2529	48	6	11	33	1.65
28686728--28688447	755	2.3	752	88	2	2516	48	6	11	34	1.64
28686669--28688440	252	7.0	252	88	1	2455	48	6	11	33	1.65
28716668--28717867	48	24.8	48	79	5	1222	23	45	3	27	1.69
28716668--28717867	144	8.2	144	85	3	1418	23	45	3	27	1.69
28716833--28716913	24	3.4	24	67	13	76	23	54	1	20	1.52
28717142--28717241	30	3.4	30	79	4	125	24	41	6	29	1.78
28720705--28720774	26	2.7	26	81	0	77	38	20	8	32	1.83
28726867--28726976	41	2.7	41	89	0	184	30	19	10	40	1.84
28726904--28726965	20	3.0	21	65	13	56	27	14	9	48	1.75
28748113--28748141	3	9.7	3	100	0	58	31	0	0	68	0.89
28754797--28754844	21	2.3	20	79	10	60	14	22	6	56	1.61
28754802--28754842	21	1.9	22	90	5	66	17	24	7	51	1.70
28756687--28756741	24	2.3	23	78	9	58	65	3	0	30	1.10
28756917--28757013	51	1.9	51	84	0	131	25	38	6	29	1.80
28757659--28757751	48	1.9	48	84	0	123	34	39	3	22	1.70
28757719--28757838	45	2.6	45	77	9	125	27	40	4	27	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28760431--28760477	22	2.1	23	84	11	62	29	6	14	48	1.69
28771124--28771186	30	2.1	30	87	0	90	28	39	6	25	1.80
28771202--28771293	30	3.1	30	85	0	121	28	45	3	22	1.68
28771139--28771368	108	2.2	105	79	2	235	25	44	4	25	1.73
28771310--28771361	27	1.9	27	88	0	77	21	40	7	30	1.81
28771227--28771488	75	3.4	74	79	4	238	25	43	4	25	1.72
28771414--28772179	48	15.8	48	75	5	572	25	43	4	26	1.74
28771510--28772149	198	3.3	193	79	5	572	25	43	4	26	1.74
28772198--28772241	21	2.0	22	91	4	72	22	56	4	15	1.57
28772769--28772793	9	2.8	9	100	0	50	12	0	0	88	0.53
28776646--28776857	78	2.7	78	84	1	264	32	20	12	33	1.91
28778790--28778848	3	19.7	3	96	0	109	33	1	0	64	1.04
28782058--28782126	19	3.7	19	79	12	72	2	13	1	82	0.85
28782051--28782115	23	3.0	21	76	17	60	1	13	1	83	0.80
28782051--28782129	28	2.8	27	83	7	95	2	12	2	82	0.88
28782049--28782116	31	2.2	30	85	12	86	1	13	1	83	0.78
28782076--28782122	18	2.7	19	81	15	50	2	14	0	82	0.75
28782051--28782140	28	3.3	26	73	18	67	5	11	2	81	0.95
28783183--28783296	48	2.4	48	82	8	151	30	47	10	11	1.73
28783183--28783334	48	3.1	48	80	10	148	30	46	9	13	1.75
28783423--28783558	66	2.1	66	91	0	218	27	47	3	22	1.68
28783423--28783607	66	2.8	66	83	4	216	25	46	5	22	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28783571--28783757	60	3.2	59	86	4	270	29	47	4	18	1.69
28783748--28783907	63	2.6	63	84	6	159	28	45	5	21	1.73
28783810--28783923	33	3.6	33	64	17	89	28	44	6	21	1.75
28783783--28783907	60	2.0	62	89	4	191	26	44	5	23	1.75
28793267--28793324	30	2.0	29	83	9	75	31	39	3	25	1.73
28793272--28793342	30	2.4	30	80	4	72	28	46	1	23	1.61
28793335--28793597	48	5.5	48	74	1	168	21	48	3	26	1.66
28793308--28793636	96	3.4	96	77	3	338	23	48	3	25	1.65
28793551--28794665	48	23.2	48	76	8	826	26	48	4	21	1.68
28793305--28793687	96	3.9	99	76	7	334	22	47	3	25	1.67

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