genome.fa.s4.2.7.7.80.10.50.1000.16.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  16  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)
5353919--5353956	20	1.9	19	89	5	58	42	0	15	42	1.47
5357321--5357363	22	2.0	22	85	0	59	51	9	9	30	1.65
5360948--5360979	7	4.4	7	96	4	55	84	0	12	3	0.74
5371411--5371567	52	3.0	52	88	1	235	21	12	32	33	1.91
5378688--5378853	42	4.0	42	84	0	188	22	32	18	25	1.97
5378690--5378856	84	2.0	84	86	0	235	23	33	17	25	1.96
5381377--5381583	52	4.0	52	92	0	342	22	14	29	32	1.94
5381564--5381673	36	3.1	36	83	10	120	24	11	35	28	1.91
5382532--5382637	35	3.1	35	71	8	110	33	25	15	25	1.95
5389910--5390017	35	3.2	34	70	10	96	35	24	11	29	1.90
5389909--5390038	67	1.9	67	87	3	190	36	25	11	26	1.90
5389921--5390034	35	3.4	34	68	7	79	36	24	12	26	1.91
5390913--5390944	14	2.2	15	94	5	57	78	6	12	3	1.06
5392507--5392569	13	4.9	13	79	11	67	73	1	4	20	1.11
5392508--5392564	21	2.9	21	76	19	61	73	1	5	19	1.11
5398781--5398833	28	1.9	27	88	3	79	28	18	18	33	1.95
5398878--5398923	20	2.3	20	96	0	83	45	21	4	28	1.71
5407515--5407935	37	11.3	37	82	4	472	23	13	19	43	1.86
5407490--5407935	75	6.0	76	82	4	505	24	13	18	43	1.86
5407936--5408018	1	83.0	1	73	0	67	86	10	2	0	0.65
5407936--5408024	39	2.3	38	85	11	119	84	12	2	1	0.78
5408166--5408192	13	2.1	13	100	0	54	77	7	14	0	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5410117--5410166	21	2.4	22	74	12	52	72	2	2	24	1.06
5410068--5410171	8	13.1	8	72	16	56	69	0	6	23	1.18
5412810--5412847	18	2.1	19	95	5	69	50	0	2	47	1.15
5414632--5414665	13	2.6	13	90	0	50	82	0	17	0	0.67
5414762--5414948	91	2.0	92	87	3	270	20	12	28	37	1.90
5414782--5414989	91	2.3	92	83	5	244	20	13	26	38	1.90
5416281--5416316	2	18.5	2	88	5	56	50	0	2	47	1.15
5416340--5416450	58	1.9	57	88	3	161	24	19	34	20	1.96
5417922--5417952	2	15.5	2	93	0	53	48	0	3	48	1.17
5422345--5422461	33	3.4	36	78	10	111	31	10	26	31	1.90
5422714--5422750	17	2.1	18	95	5	67	83	0	16	0	0.64
5424796--5424857	29	2.1	29	90	0	97	30	37	17	14	1.90
5430239--5430265	12	2.2	12	100	0	54	62	0	0	37	0.95
5431812--5431859	25	1.9	25	83	8	62	70	0	8	20	1.12
5434069--5434131	25	2.6	25	77	7	67	47	3	11	38	1.55
5444072--5444112	21	2.0	21	90	0	64	41	26	12	19	1.87
5445521--5445567	24	1.9	25	82	4	60	21	19	0	59	1.38
5448236--5448376	73	1.9	73	95	1	257	31	9	23	34	1.88
5449103--5449145	2	21.5	2	95	0	68	51	4	0	44	1.22
5451603--5451741	36	3.6	36	74	17	145	23	14	38	24	1.92
5451586--5451757	80	2.2	80	93	0	290	25	13	34	26	1.94
5455869--5455908	18	2.4	16	84	12	53	52	2	35	10	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5473676--5473745	2	35.0	2	94	0	122	0	47	0	52	1.00
5474342--5474451	37	3.0	37	89	2	168	27	10	36	25	1.89
5474703--5474779	22	3.7	22	72	13	72	35	24	18	22	1.96
5475727--5475901	43	4.1	43	84	2	221	23	33	17	25	1.96
5484516--5484540	13	1.9	13	100	0	50	52	0	0	48	1.00
5490342--5490500	73	2.2	73	83	0	210	44	19	13	22	1.85
5491030--5491063	11	3.2	11	95	4	61	32	8	32	26	1.87
5491065--5491100	17	2.1	17	100	0	72	22	22	16	38	1.93
5502335--5502493	69	2.3	69	97	0	300	33	6	18	42	1.75
5503074--5503133	27	2.2	28	79	8	70	31	13	20	35	1.91
5514704--5514742	20	1.9	21	89	5	62	53	5	0	41	1.23
5515032--5515076	23	2.0	23	86	4	65	60	0	2	37	1.09
5516391--5516423	17	1.9	17	88	11	50	42	15	3	39	1.62
5516584--5516647	28	2.3	28	78	5	76	46	9	6	37	1.61
5524018--5524261	73	3.3	74	81	7	252	41	17	19	21	1.90
5526393--5526452	25	2.4	25	86	5	86	25	30	15	30	1.95
5526861--5526898	2	19.0	2	94	0	67	47	0	2	50	1.15
5528435--5528614	84	2.1	85	86	5	249	25	19	32	22	1.97
5528451--5528614	42	3.9	42	82	2	195	25	19	32	22	1.97
5529081--5529117	19	1.9	19	94	0	65	35	35	18	10	1.86
5535308--5535406	19	5.1	19	64	9	65	21	16	40	22	1.91
5535304--5535406	38	2.6	40	87	3	147	20	15	40	23	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5535632--5535671	21	1.9	21	84	0	53	30	22	15	32	1.94
5543336--5543434	19	5.1	19	66	9	74	20	16	41	22	1.90
5543332--5543434	38	2.6	40	86	6	140	19	15	41	23	1.89
5543657--5543699	21	2.0	21	86	0	59	25	27	18	27	1.98
5545204--5545248	2	23.0	2	95	4	83	48	0	0	51	1.00
5546149--5546238	38	2.4	38	90	0	144	26	31	5	36	1.79
5549855--5549979	43	2.9	43	83	2	135	22	33	18	25	1.96
5555616--5555699	42	2.0	42	95	0	150	19	22	34	23	1.96
5555740--5555856	2	58.0	2	93	1	117	45	0	0	43	1.10
5568766--5568868	38	2.7	38	83	8	120	20	36	19	23	1.95
5570689--5570976	79	3.6	79	79	5	305	33	9	23	33	1.87
5574022--5574073	25	2.1	25	100	0	104	36	15	19	28	1.92
5598783--5598822	19	2.0	20	95	4	73	42	27	0	30	1.56
5608287--5608327	21	1.9	22	90	5	66	26	21	24	26	2.00
5609928--5610069	44	3.4	43	71	23	140	25	13	36	24	1.92
5609874--5610119	81	3.0	81	91	0	393	24	12	37	24	1.90
5616095--5616217	39	3.2	39	65	21	94	24	14	35	25	1.93
5616111--5616242	37	3.5	37	69	19	108	20	13	40	25	1.89
5616404--5616443	21	2.0	21	85	9	57	25	10	20	45	1.81
5619259--5619296	17	2.2	17	90	0	58	7	31	23	36	1.84
5621021--5621121	41	2.5	41	87	6	134	25	37	11	24	1.90
5621871--5621914	22	2.0	22	86	8	63	31	20	6	40	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5632241--5632284	22	2.0	22	86	8	63	31	20	6	40	1.79
5641015--5641071	25	2.3	26	81	9	73	14	26	14	45	1.82
5641383--5641467	33	2.5	33	77	7	91	32	28	11	27	1.92
5641483--5641587	35	3.0	34	84	5	138	38	31	7	22	1.82
5642392--5642421	11	2.7	11	89	0	51	36	0	0	63	0.95
5658096--5658135	19	2.2	18	86	13	55	47	2	2	47	1.29
5658357--5658386	14	2.1	14	100	0	60	36	13	20	30	1.90
5674498--5674576	28	2.8	28	76	3	79	34	22	12	30	1.92
5674991--5675042	20	2.5	20	87	9	70	30	15	13	40	1.86
5675186--5675231	21	2.1	22	88	8	67	54	13	8	23	1.66
5675233--5675273	21	2.0	21	90	0	64	43	21	4	29	1.73
5675341--5675399	10	5.5	11	73	17	52	49	20	3	27	1.65
5675341--5675399	21	2.8	21	86	2	73	49	20	3	27	1.65
5675479--5675553	21	3.5	21	80	7	71	50	21	6	21	1.71
5678195--5678219	13	1.9	13	100	0	50	52	0	0	48	1.00
5681732--5681795	30	2.2	30	83	10	80	29	7	17	45	1.76
5682950--5682974	13	1.9	13	100	0	50	52	0	0	48	1.00
5690973--5691038	7	9.4	7	78	6	71	1	31	0	66	1.01
5690973--5691023	21	2.5	21	93	3	86	1	29	0	68	1.00
5690973--5691031	21	2.8	22	87	12	79	1	30	0	67	1.00
5693113--5693152	17	2.2	18	86	8	55	62	12	0	25	1.30
5696179--5696230	22	2.4	21	87	3	68	25	28	17	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5703396--5703420	2	12.5	2	100	0	50	52	0	48	0	1.00
5703505--5703529	2	12.5	2	100	0	50	52	0	48	0	1.00
5703375--5703584	109	2.0	106	97	1	384	34	15	25	24	1.94
5704446--5704496	22	2.3	22	82	0	66	41	23	21	13	1.89
5710605--5710677	37	2.0	37	86	0	101	31	12	34	21	1.91
5710620--5710714	37	2.6	37	82	0	100	25	14	34	25	1.94
5710964--5711051	40	2.2	40	91	0	140	27	26	20	26	1.99
5712562--5712620	20	3.0	20	95	5	102	50	0	1	47	1.11
5713223--5713256	15	2.3	15	90	5	52	58	5	11	23	1.55
5716768--5716867	39	2.5	40	83	3	114	26	13	35	26	1.92

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