genome.fa.s1.2.7.7.80.10.50.1000.33.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: chr1
Parameters: 2 7 7 80 10 50 1000
Length:  37323695

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   

This is table  33  of  93  ( 11113 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)
13044326--13044363	2	19.0	2	100	0	76	50	0	0	50	1.00
13048248--13048287	22	1.9	21	85	10	55	47	0	5	47	1.24
13048269--13048298	15	2.0	15	93	0	51	66	0	3	30	1.07
13048459--13048488	15	2.0	15	100	0	60	73	6	0	20	1.05
13050549--13050575	2	13.5	2	100	0	54	48	0	0	51	1.00
13058443--13058477	17	2.1	17	88	0	52	48	0	51	0	1.00
13066155--13066210	26	2.2	27	78	12	64	32	1	3	62	1.23
13070049--13070102	15	3.1	18	69	17	51	46	11	0	42	1.39
13071836--13071914	40	2.0	40	87	5	115	18	20	24	36	1.95
13081284--13081387	52	2.0	52	90	0	163	32	19	22	25	1.97
13090456--13090493	15	2.5	16	83	12	53	5	2	21	71	1.19
13090444--13090493	24	2.0	24	84	11	64	6	4	22	68	1.29
13107368--13107410	2	22.5	2	90	9	72	48	0	0	51	1.00
13109847--13110015	59	2.9	59	87	5	218	34	14	11	39	1.81
13110069--13110176	26	4.2	26	76	7	103	42	11	17	28	1.83
13110205--13110286	28	2.9	29	76	5	78	42	14	15	26	1.86
13114076--13114278	78	2.6	78	89	1	318	32	18	13	35	1.90
13114862--13114895	14	2.2	16	90	10	54	26	5	5	61	1.42
13119738--13119785	15	3.3	15	86	13	73	75	0	25	0	0.81
13127697--13127733	2	19.0	2	94	5	67	48	0	0	51	1.00
13127786--13127827	13	3.1	14	83	10	52	2	19	4	73	1.12
13127940--13128022	40	2.1	40	93	0	139	26	24	18	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13129878--13129922	23	1.9	24	90	4	74	51	0	2	46	1.13
13130968--13131033	28	2.4	28	82	5	80	43	24	13	18	1.86
13131372--13131460	42	2.1	42	83	4	108	33	19	8	38	1.83
13131678--13131717	21	1.9	21	84	0	53	27	10	17	45	1.80
13132126--13132171	12	3.9	12	78	16	51	78	2	2	17	0.96
13133248--13133279	12	2.5	13	90	10	57	71	6	0	21	1.07
13133609--13133659	7	6.9	7	79	16	50	78	0	0	21	0.75
13133616--13133659	13	3.5	13	87	3	63	77	0	0	22	0.77
13137456--13137538	41	2.0	41	97	0	157	28	18	4	48	1.68
13141906--13143062	38	30.2	36	78	9	741	25	15	18	40	1.89
13141924--13143063	75	14.9	75	77	9	857	25	15	18	40	1.90
13141924--13143063	113	9.9	114	80	8	1032	25	15	18	40	1.90
13143060--13143097	16	2.2	18	86	9	53	86	0	13	0	0.56
13143063--13143091	10	2.7	11	89	10	51	86	0	13	0	0.58
13143060--13143086	14	1.9	14	100	0	54	88	0	11	0	0.50
13143099--13143274	38	4.7	38	78	6	180	20	14	20	44	1.86
13143282--13143350	1	69.0	1	79	0	75	89	8	0	1	0.53
13143488--13143532	24	1.9	24	90	4	74	77	0	4	17	0.92
13145234--13145299	21	3.1	21	86	4	80	80	1	3	15	0.91
13145229--13145277	21	2.4	20	86	6	71	75	0	4	20	0.96
13145253--13145298	17	2.6	17	86	3	65	84	2	0	13	0.71
13152169--13152263	35	2.7	34	77	7	93	26	20	5	48	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13159378--13159424	25	1.9	24	86	4	67	21	6	2	70	1.20
13160190--13160224	3	11.7	3	87	0	52	28	2	0	68	1.04
13162101--13162142	18	2.5	17	88	7	59	69	2	0	28	1.01
13162099--13162144	23	2.0	23	86	0	65	69	2	0	28	1.00
13162103--13162155	18	3.3	16	84	10	56	66	1	0	32	1.03
13162131--13162239	51	2.1	52	84	6	141	47	3	3	44	1.38
13162157--13162242	27	3.3	25	72	18	77	43	4	4	47	1.44
13162256--13162311	23	2.4	23	82	5	69	48	3	7	41	1.48
13162256--13162415	26	6.2	25	71	16	96	46	2	5	45	1.38
13162362--13162403	21	2.0	21	95	0	75	54	0	0	45	0.99
13162756--13162832	39	2.0	39	100	0	154	44	0	33	22	1.53
13171101--13171136	2	18.0	2	100	0	72	50	0	0	50	1.00
13175494--13175528	2	18.0	2	88	5	54	45	0	54	0	0.99
13175382--13175587	103	2.0	102	97	2	387	28	19	33	17	1.95
13175828--13175886	25	2.2	28	85	8	79	33	5	1	59	1.29
13182620--13182669	2	24.5	2	91	4	82	48	4	0	48	1.20
13182925--13182976	2	26.0	2	92	0	86	48	3	0	48	1.20
13211064--13211146	39	2.1	39	82	4	96	15	14	21	48	1.81
13233555--13233657	51	2.0	51	94	0	179	27	20	18	33	1.96
13234645--13234690	21	2.2	21	88	0	65	39	23	15	21	1.92
13240933--13241038	38	2.7	40	86	2	144	22	40	16	20	1.91
13241113--13241239	64	2.0	63	96	1	236	44	17	4	32	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13254923--13256820	964	2.0	965	94	0	3379	34	15	14	34	1.89
13260279--13260316	17	2.2	18	90	4	60	55	7	0	36	1.29
13260638--13260736	2	50.5	2	81	7	87	48	0	7	43	1.30
13261593--13261757	86	1.9	86	87	4	244	35	15	13	35	1.86
13262329--13262409	31	2.6	30	73	9	81	24	24	28	22	1.99
13263944--13264023	31	2.6	30	73	11	90	22	26	22	28	1.99
13265595--13265730	67	2.0	67	87	5	195	36	22	13	27	1.91
13265594--13265706	35	3.3	34	70	17	99	32	21	14	31	1.93
13266114--13266374	73	3.6	72	76	7	240	24	19	16	39	1.92
13275317--13275354	19	2.0	19	100	0	76	42	31	0	26	1.56
13278433--13278465	15	2.3	14	94	5	57	27	0	6	66	1.15
13278958--13279023	33	2.0	33	93	0	114	40	10	19	28	1.85
13284440--13284485	21	2.2	20	88	7	65	15	19	6	58	1.58
13284445--13284485	21	1.9	22	95	5	75	17	21	7	53	1.67
13285318--13285377	21	2.8	22	78	19	72	66	6	1	25	1.25
13285558--13285892	175	1.9	175	88	0	499	34	9	39	16	1.80
13286549--13286610	21	2.9	20	72	11	52	70	1	6	20	1.17
13287778--13287836	31	1.9	31	96	0	109	30	16	11	40	1.85
13287883--13288063	85	2.1	86	86	8	246	25	18	16	39	1.91
13288123--13288156	14	2.4	14	90	0	50	26	5	20	47	1.73
13288357--13288460	34	3.1	34	67	12	97	38	25	9	26	1.86
13288357--13288486	67	2.0	66	89	4	199	39	25	9	26	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13288853--13289129	73	3.8	71	80	7	297	23	22	15	38	1.93
13301630--13301689	30	2.1	29	81	6	68	31	8	21	38	1.83
13315251--13315731	60	8.0	59	81	6	477	32	11	18	37	1.87
13315251--13315731	119	4.0	118	81	6	531	32	11	18	37	1.87
13315928--13315978	6	8.2	6	77	12	50	74	0	3	21	0.98
13315933--13315979	26	1.9	23	87	12	67	70	0	4	25	1.05
13320227--13320262	18	2.0	18	94	0	63	47	11	16	25	1.79
13324982--13325045	30	2.1	30	88	0	92	50	4	6	39	1.49
13331037--13331113	39	2.0	40	86	2	111	25	16	15	41	1.88
13342298--13342347	23	2.1	24	81	3	57	62	6	2	30	1.31
13352717--13352754	2	19.0	2	88	0	58	55	0	0	44	0.99
13355889--13355939	26	1.9	27	92	4	86	52	0	0	47	1.00
13355886--13355951	13	4.4	15	76	22	59	48	0	0	51	1.00
13355887--13355934	7	7.3	7	76	19	50	52	0	0	47	1.00
13364584--13364664	34	2.4	34	89	0	117	39	27	12	20	1.89
13372633--13372672	19	2.2	18	86	4	53	35	10	7	47	1.65
13375478--13375545	28	2.5	28	90	7	104	66	5	0	27	1.15
13375964--13376020	14	4.2	14	78	12	66	63	8	0	28	1.24
13375964--13376028	28	2.3	28	94	0	112	64	7	0	27	1.20
13377650--13377690	14	2.9	14	88	3	55	48	7	4	39	1.52
13377661--13377695	14	2.4	14	90	4	52	54	5	0	40	1.24
13379441--13379519	39	2.1	38	97	2	149	48	10	5	35	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13390944--13391060	55	2.2	54	87	6	166	36	17	12	33	1.87
13390944--13391060	27	4.3	28	83	6	152	36	17	12	33	1.87
13390944--13391068	53	2.3	55	89	5	184	36	16	12	36	1.85
13391108--13391164	28	2.0	28	89	0	87	38	14	10	36	1.80
13391218--13391289	27	2.6	27	84	6	92	41	13	11	33	1.80
13396290--13396467	87	2.0	87	94	0	311	38	12	17	30	1.88
13397582--13397614	17	2.0	17	88	5	50	6	0	18	75	1.00
13424588--13424640	26	2.1	25	82	10	63	22	7	1	67	1.25
13429091--13429120	15	1.9	16	93	6	53	56	23	6	13	1.60
13430153--13430209	24	2.3	24	82	8	62	28	3	1	66	1.18

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