genome.fa.s1.2.7.7.80.10.50.1000.41.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  41  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)
15732343--15732404	30	2.1	30	90	3	99	43	9	17	29	1.81
15732375--15732711	121	2.8	121	77	6	326	43	10	14	31	1.80
15734401--15734461	21	2.8	22	77	5	70	24	4	22	47	1.71
15734513--15734702	26	7.7	26	68	13	132	37	24	13	24	1.91
15734547--15734676	47	2.8	47	85	0	170	36	25	14	23	1.93
15734687--15734743	21	2.7	21	75	0	69	36	26	15	21	1.93
15734898--15734938	19	2.0	21	86	9	59	51	19	4	24	1.66
15742218--15742416	101	2.0	99	89	3	301	46	9	13	31	1.75
15745848--15745895	2	24.0	2	100	0	96	50	0	0	50	1.00
15745935--15746083	42	3.5	43	88	5	223	20	36	20	22	1.95
15745922--15746083	43	3.8	42	87	4	220	20	35	20	22	1.96
15745922--15746084	85	1.9	85	88	5	249	20	36	20	22	1.95
15748659--15748695	2	18.5	2	94	0	65	0	45	0	54	1.00
15748865--15748900	2	18.5	2	94	5	65	0	47	0	52	1.00
15750413--15750480	21	3.2	21	89	0	100	25	19	22	33	1.97
15758982--15759096	46	2.4	46	86	5	149	25	16	1	56	1.50
15758996--15759096	46	2.1	48	89	3	152	23	15	1	58	1.48
15759088--15759114	14	1.9	14	100	0	54	18	7	0	74	1.05
15760809--15760926	49	2.4	50	79	2	130	44	20	5	28	1.74
15763757--15763904	32	4.4	34	71	16	121	27	12	25	35	1.92
15763737--15763885	35	4.5	32	73	15	122	24	12	26	36	1.91
15763737--15763912	67	2.6	67	88	3	257	25	12	26	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15772756--15772850	35	2.9	32	75	17	95	27	10	24	37	1.88
15777309--15777351	19	2.3	19	80	11	54	18	32	4	44	1.71
15780283--15780371	46	1.9	48	84	11	123	23	16	4	55	1.60
15780281--15780381	46	2.1	48	78	10	111	24	19	3	51	1.64
15785647--15785706	28	2.1	30	84	6	79	40	21	6	31	1.79
15796205--15796257	20	2.7	20	93	0	88	41	7	7	43	1.61
15796206--15796257	14	3.7	14	78	0	50	42	7	7	42	1.62
15801873--15801944	27	2.7	27	100	0	144	20	9	20	48	1.78
15803059--15803238	73	2.5	73	81	5	177	22	19	17	40	1.92
15803113--15803272	73	2.2	73	83	4	207	23	17	19	40	1.92
15803113--15803302	73	2.6	72	76	9	181	22	18	18	41	1.91
15823244--15823403	73	2.2	73	86	2	214	23	19	16	40	1.91
15823277--15823433	73	2.2	73	81	4	183	21	17	18	42	1.89
15826225--15826313	45	2.0	45	82	8	110	29	19	12	39	1.88
15829093--15829138	24	1.9	24	91	8	76	54	26	0	19	1.44
15835766--15835790	13	1.9	13	100	0	50	24	0	8	68	1.16
15835769--15835810	19	2.2	20	83	8	52	33	0	7	59	1.25
15844843--15844928	33	2.6	33	83	1	109	63	1	5	29	1.24
15844920--15844969	16	3.3	15	78	16	50	60	2	4	34	1.27
15845143--15845200	15	3.9	15	83	0	80	32	17	10	39	1.83
15845143--15845209	30	2.2	31	83	2	82	32	16	11	38	1.85
15848959--15848984	13	2.0	13	100	0	52	46	7	0	46	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15856544--15856828	143	2.0	142	97	0	534	34	23	6	35	1.80
15862953--15862981	3	9.7	3	100	0	58	68	0	0	31	0.89
15863401--15863442	22	2.0	20	86	9	57	50	9	9	30	1.67
15869914--15870060	35	4.3	35	89	5	212	27	12	27	33	1.92
15869894--15870027	67	2.0	67	86	2	189	25	12	25	36	1.91
15869914--15870104	67	2.8	67	81	10	194	26	12	27	34	1.91
15869914--15870104	102	1.9	102	89	4	296	26	12	27	34	1.91
15869914--15870131	102	2.1	102	85	5	289	26	12	26	33	1.93
15874643--15874684	21	2.0	21	95	0	75	35	19	26	19	1.95
15878565--15878731	35	4.9	35	74	11	143	24	14	25	35	1.93
15878567--15878739	67	2.6	67	86	3	251	24	13	26	35	1.93
15880031--15880055	12	2.1	12	100	0	50	24	16	32	28	1.96
15880437--15880480	23	1.9	23	90	0	70	36	13	15	34	1.87
15880622--15880731	37	3.0	37	82	0	112	27	35	10	27	1.89
15885339--15885395	30	1.9	30	100	0	114	31	24	15	28	1.96
15892722--15892754	17	1.9	17	88	11	50	42	12	3	42	1.57
15892897--15893117	29	7.6	29	78	5	232	35	13	11	39	1.81
15892907--15893249	57	5.8	56	78	14	321	38	12	10	38	1.78
15893077--15893157	40	2.0	40	95	0	144	44	14	6	34	1.71
15893117--15893246	29	4.5	29	85	1	181	40	11	9	39	1.74
15893022--15893219	97	2.0	99	86	3	276	39	12	8	39	1.74
15893002--15893243	126	1.9	128	88	5	375	37	12	9	40	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15899317--15899360	13	3.5	12	76	11	52	77	0	2	20	0.88
15899981--15900013	13	2.6	13	85	4	50	18	12	0	69	1.18
15901427--15901457	15	2.1	15	93	0	53	48	16	29	6	1.70
15902338--15902478	65	2.2	65	93	3	239	53	1	24	20	1.54
15903204--15903242	18	2.2	18	95	0	69	48	5	20	25	1.70
15920511--15920695	35	5.3	34	78	4	145	31	15	22	30	1.94
15920542--15920695	70	2.2	69	81	5	175	31	14	21	32	1.93
15925640--15925796	73	2.2	73	88	0	233	40	14	21	24	1.90
15926644--15926675	2	16.0	2	93	0	55	46	0	3	50	1.17
15934834--15934938	54	1.9	54	96	0	192	26	41	13	18	1.87
15935044--15935068	2	12.5	2	100	0	50	48	0	0	52	1.00
15944533--15944635	54	1.9	54	91	0	170	24	37	16	21	1.93
15955982--15956153	35	4.9	35	77	4	150	36	18	19	26	1.94
15955995--15956153	70	2.3	69	81	6	178	37	16	19	26	1.93
15957761--15957898	37	3.8	37	78	7	129	21	2	22	53	1.59
15957757--15957899	75	1.9	75	82	2	180	20	2	23	53	1.58
15959352--15959480	32	3.9	33	73	10	104	24	12	27	35	1.91
15959334--15959499	67	2.5	67	88	4	246	22	14	27	35	1.93
15962950--15963108	42	3.8	41	86	5	210	23	32	18	25	1.97
15962948--15963108	84	1.9	84	90	0	259	23	32	18	26	1.97
15963144--15963175	2	16.0	2	93	0	55	46	0	3	50	1.17
15970118--15970156	2	19.5	2	83	0	51	43	2	5	48	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15970215--15970373	42	3.8	42	79	3	185	23	33	18	24	1.97
15970173--15970364	84	2.3	84	83	1	244	23	34	18	23	1.96
15970412--15970478	2	34.0	2	90	3	109	46	0	2	50	1.16
15974589--15974627	20	2.0	20	89	0	60	38	2	20	38	1.66
15977113--15977185	37	2.0	37	100	0	146	41	30	9	19	1.83
15978944--15978999	23	2.5	22	75	13	60	44	1	3	50	1.29
15983366--15983396	16	1.9	16	100	0	62	38	19	0	41	1.51
15984531--15984597	30	2.2	30	81	0	80	35	11	2	49	1.55
15985856--15985880	12	2.1	12	100	0	50	24	16	8	52	1.70
15991236--15991260	13	1.9	13	100	0	50	48	0	0	52	1.00
15991668--15991731	29	2.2	29	83	2	76	48	18	4	28	1.68
16003923--16004200	29	9.7	29	83	6	323	38	10	12	38	1.76
16003930--16004200	57	4.7	57	86	3	330	38	9	12	39	1.77
16003923--16004155	86	2.7	86	85	4	308	39	10	12	36	1.79
16006199--16006267	2	34.0	2	85	2	93	44	0	1	49	1.11
16012206--16012417	29	7.3	29	81	8	227	39	9	12	38	1.76
16012206--16012417	87	2.4	88	83	7	265	39	9	12	38	1.76
16013127--16013166	19	2.2	19	86	4	55	50	0	2	47	1.14
16013139--16013180	14	3.0	14	79	6	50	47	0	0	52	1.00
16013947--16014020	22	3.0	25	82	11	73	62	0	37	0	0.96
16013945--16014024	18	4.2	18	73	17	63	63	0	36	0	0.94
16015366--16015411	19	2.4	20	82	10	60	54	0	2	43	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16022132--16022244	59	1.9	60	87	1	165	30	9	11	48	1.71
16022681--16022740	27	2.2	28	87	3	86	40	16	18	25	1.91
16024036--16024087	20	2.5	20	81	3	59	34	13	15	36	1.87
16024676--16024738	25	2.5	25	89	0	99	34	11	22	31	1.89
16030565--16030657	40	2.3	40	83	3	125	38	26	15	19	1.91
16041436--16041496	31	2.0	31	96	0	113	21	31	19	27	1.97
16041630--16041812	68	2.7	68	83	7	207	34	15	11	37	1.84
16042745--16042800	21	2.7	21	100	0	112	37	14	14	33	1.86
16043582--16043631	20	2.5	20	80	6	57	40	8	16	36	1.77
16045789--16045975	66	2.8	65	78	4	194	34	25	14	25	1.94

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