genome.fa.s4.2.7.7.80.10.50.1000.32.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  32  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)
11567274--11567346	21	3.5	21	81	3	76	23	27	16	32	1.96
11569586--11569620	17	2.1	17	94	0	61	22	8	22	45	1.79
11575476--11575500	11	2.3	11	100	0	50	0	16	0	84	0.63
11576270--11576298	12	2.3	13	94	5	51	65	17	6	10	1.44
11589498--11589558	30	2.0	30	83	0	77	52	6	31	9	1.60
11589570--11589683	30	3.7	30	76	13	131	49	5	28	16	1.68
11589603--11589706	30	3.1	34	71	17	110	44	7	27	20	1.79
11589570--11589706	64	2.1	65	93	1	231	46	6	28	18	1.73
11593397--11593443	22	2.1	23	88	4	69	29	4	14	51	1.62
11600327--11600374	13	3.6	14	81	13	57	0	14	4	81	0.84
11600329--11600372	6	7.2	6	80	14	54	0	13	2	84	0.73
11606591--11606622	2	16.0	2	93	0	55	46	0	3	50	1.17
11615473--11615528	2	28.0	2	96	0	103	48	0	1	50	1.11
11615533--11615595	20	3.2	19	81	2	81	30	39	3	26	1.72
11618066--11618112	22	2.1	23	88	4	69	29	4	14	51	1.62
11626125--11626172	21	2.2	22	88	3	71	60	6	18	14	1.55
11646419--11646611	68	2.8	67	84	3	242	33	17	11	37	1.87
11647373--11647411	19	2.1	19	90	9	62	17	23	30	28	1.97
11647897--11647989	43	2.2	42	88	9	136	25	34	12	26	1.92
11650114--11650174	21	3.0	21	80	2	79	40	11	11	36	1.77
11669460--11669610	43	3.4	43	86	8	198	26	16	33	23	1.96
11671374--11671478	38	2.7	38	84	8	124	24	40	15	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11679674--11679811	43	3.2	43	85	2	197	24	18	34	23	1.96
11693954--11694017	19	3.4	19	65	8	58	21	18	40	18	1.91
11693950--11694052	38	2.6	40	92	3	165	20	18	40	20	1.91
11698272--11698306	16	2.2	16	90	5	54	28	37	0	34	1.58
11703632--11703663	3	11.3	3	87	12	50	28	0	0	71	0.86
11703632--11703663	8	3.8	9	84	16	50	28	0	0	71	0.86
11703632--11703664	11	3.0	11	100	0	66	27	0	0	72	0.85
11709424--11709464	21	1.9	21	85	5	55	51	9	21	17	1.74
11709423--11709470	21	2.2	21	77	3	51	58	8	18	14	1.61
11711708--11711748	5	8.2	5	91	0	64	39	0	24	36	1.56
11721761--11721958	99	2.0	98	94	2	344	31	15	15	36	1.89
11728968--11729080	59	1.9	59	83	3	147	12	23	10	53	1.70
11731910--11731958	2	24.5	2	95	0	89	46	2	0	51	1.12
11733527--11733610	42	2.0	42	92	0	141	33	17	17	30	1.94
11735302--11735377	34	2.2	35	76	19	88	59	7	23	9	1.55
11740346--11740457	54	2.1	54	98	0	215	19	14	41	24	1.88
11744848--11744939	35	2.6	35	87	0	130	29	35	7	27	1.84
11745944--11745980	19	1.9	19	89	10	58	72	2	21	2	1.09
11747614--11747654	21	1.9	22	90	5	66	51	4	24	19	1.66
11747614--11747658	20	2.2	21	84	11	58	55	4	22	17	1.60
11747613--11747661	21	2.3	21	82	3	62	57	4	20	18	1.57
11749907--11749947	22	1.9	21	85	5	55	26	12	24	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11754963--11755007	21	2.1	21	83	4	54	55	4	22	17	1.60
11758979--11759032	27	2.0	27	96	0	99	24	25	24	25	2.00
11761466--11761634	80	2.1	80	88	2	250	27	12	31	28	1.93
11761483--11761621	36	3.6	36	72	17	118	25	12	34	28	1.92
11765753--11765790	19	2.0	19	89	0	58	42	26	0	31	1.56
11767423--11767464	21	2.0	20	95	4	75	42	14	4	38	1.66
11767427--11767472	21	2.2	21	92	0	74	45	15	6	32	1.71
11767542--11767621	35	2.3	35	86	0	115	30	30	10	30	1.90
11775226--11775311	42	2.0	43	88	2	129	22	32	19	25	1.97
11778738--11778910	73	2.4	73	90	0	265	27	28	19	24	1.98
11779124--11779332	55	3.8	55	85	2	278	28	33	13	24	1.93
11786023--11786082	27	2.2	28	85	8	79	43	15	13	28	1.84
11792215--11792250	15	2.4	15	90	0	54	27	27	13	30	1.94
11793392--11793425	17	2.0	17	88	11	52	70	0	29	0	0.87
11795598--11795750	54	2.8	54	93	0	252	22	44	13	19	1.85
11802074--11802108	2	17.5	2	93	0	61	48	0	2	48	1.16
11806082--11806189	35	3.1	35	79	0	126	28	30	12	28	1.92
11812614--11812638	13	1.9	13	100	0	50	48	8	0	44	1.32
11817712--11817772	22	2.8	22	89	0	86	27	4	24	42	1.75
11825502--11825542	19	2.2	19	90	0	64	48	0	2	48	1.14
11825894--11825945	12	4.2	12	90	2	50	55	0	1	42	1.10
11825913--11825946	2	17.0	2	100	0	68	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)
11826111--11826374	138	1.9	137	96	0	492	53	4	26	15	1.62
11826503--11826604	36	2.9	34	76	15	118	22	7	30	39	1.82
11826627--11826737	34	3.2	34	81	11	113	27	14	27	31	1.95
11826883--11826922	5	7.8	5	83	5	53	80	0	20	0	0.72
11826885--11826922	20	2.0	20	89	5	60	78	0	21	0	0.74
11834431--11834496	31	2.2	28	84	10	78	42	19	6	31	1.76
11842869--11842903	15	2.2	16	90	5	54	40	22	5	31	1.78
11845208--11845248	22	1.9	22	85	5	57	29	17	4	48	1.67
11847412--11847461	5	9.8	5	91	4	82	78	0	22	0	0.76
11859814--11859921	35	3.1	35	87	0	162	28	31	12	26	1.93
11864172--11864196	13	1.9	13	100	0	50	48	8	0	44	1.32
11865422--11865468	20	2.3	21	82	10	62	42	14	8	34	1.77
11869639--11869745	38	2.7	39	84	4	126	20	34	19	25	1.96
11884936--11884982	2	23.5	2	100	0	94	48	0	0	51	1.00
11885113--11885196	39	2.1	39	84	4	105	17	16	44	21	1.87
11895428--11895458	2	15.5	2	100	0	62	51	0	0	48	1.00
11895500--11895632	36	3.5	37	72	10	108	23	38	17	21	1.93
11897535--11897565	15	2.0	16	93	6	55	70	9	6	12	1.31
11905572--11905656	27	3.1	27	86	3	107	41	21	10	27	1.85
11922175--11922221	16	3.0	16	84	3	60	10	4	0	85	0.74
11922176--11922210	14	2.5	14	86	13	54	11	0	0	88	0.51
11922776--11922813	20	1.9	20	89	10	60	18	10	10	60	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11924089--11924152	27	2.3	30	81	10	73	28	3	7	60	1.39
11924131--11924173	20	2.2	20	83	8	52	23	2	9	65	1.34
11925243--11925282	21	2.0	21	90	5	64	22	0	5	72	1.04
11936703--11936754	15	3.5	15	75	17	54	73	1	1	23	1.04
11938378--11938502	36	3.5	37	78	10	136	23	16	34	26	1.95
11938374--11938466	33	2.7	33	83	8	107	20	16	35	27	1.94
11938374--11938502	69	1.9	69	83	3	170	23	15	34	27	1.95
11942900--11943087	101	1.9	101	88	0	286	28	30	15	25	1.96
11945010--11945057	25	1.9	25	83	8	62	25	20	31	22	1.98
11946388--11946457	35	2.0	35	83	8	90	60	12	0	27	1.33
11947585--11947700	59	2.0	59	85	0	160	28	13	7	50	1.70
11950314--11950595	141	2.0	142	97	0	530	40	9	14	36	1.78
11955904--11955958	21	2.6	21	94	0	92	65	0	5	29	1.15
11956102--11956174	35	2.1	35	97	0	137	50	4	16	28	1.63
11956425--11956468	17	2.6	17	92	0	70	25	0	2	72	0.96
11957386--11957444	26	2.3	26	85	5	75	47	3	18	30	1.65
11976290--11976335	20	2.3	20	96	0	83	45	21	4	28	1.71
11976967--11977005	18	2.1	18	85	4	51	46	7	0	46	1.31
11977761--11977801	20	2.0	20	86	13	57	48	19	12	19	1.80
11978901--11979024	66	1.9	66	83	6	162	33	25	9	31	1.88
11982373--11982415	14	3.1	14	83	6	61	67	0	30	2	1.03
11982380--11982424	23	2.0	23	86	0	63	73	0	24	2	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11982376--11982434	19	3.1	19	76	9	59	71	0	27	1	0.96
11982373--11982434	27	2.3	27	83	8	74	69	0	29	1	0.98
11999390--11999445	28	2.0	28	82	6	69	28	26	17	26	1.98
12000842--12000905	19	3.3	19	72	8	65	20	10	42	26	1.85
12010774--12010833	25	2.4	25	85	0	75	26	31	13	28	1.94
12011217--12011241	13	1.9	13	100	0	50	40	8	4	48	1.51
12013430--12013554	42	3.0	42	82	4	153	23	20	32	24	1.98
12019065--12019094	15	2.0	15	100	0	60	33	13	20	33	1.91
12021125--12021249	42	3.0	40	83	6	151	22	21	33	22	1.97
12021286--12021329	2	22.0	2	95	0	79	50	2	0	47	1.13

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