genome.fa.s1.2.7.7.80.10.50.1000.85.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  85  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)
33025705--33025745	19	2.1	20	86	13	59	41	0	0	58	0.98
33025795--33025826	17	1.9	16	93	6	55	40	0	0	59	0.97
33031755--33031819	30	2.2	30	88	5	96	55	1	3	40	1.25
33032155--33032193	17	2.3	17	86	8	53	48	2	5	43	1.38
33032167--33032199	17	1.9	17	93	0	57	45	3	6	45	1.43
33033519--33033572	2	28.0	2	81	7	67	51	0	0	48	1.00
33033519--33033571	23	2.3	23	86	0	70	52	0	0	47	1.00
33035809--33035858	3	16.7	3	91	0	82	64	0	36	0	0.94
33050186--33050378	95	2.0	95	96	0	359	29	11	19	39	1.86
33053543--33053585	2	21.0	2	95	4	77	48	0	2	48	1.14
33063221--33063253	6	5.5	6	96	0	57	51	27	18	3	1.60
33066320--33066345	2	13.0	2	100	0	52	0	50	0	50	1.00
33072670--33072707	19	2.0	19	100	0	76	21	21	10	47	1.80
33077788--33077824	20	1.9	19	89	10	58	24	5	10	59	1.52
33078370--33078401	1	32.0	1	100	0	64	0	0	0	100	0.00
33079526--33079560	2	17.5	2	93	0	61	45	0	0	54	0.99
33079939--33079965	2	13.5	2	100	0	54	51	0	48	0	1.00
33081017--33081084	35	1.9	35	82	5	84	29	11	10	48	1.73
33081213--33081242	15	2.0	15	93	0	51	36	23	13	26	1.92
33081838--33081948	54	2.0	55	92	1	188	61	7	19	11	1.53
33082419--33082452	14	2.4	14	90	0	50	23	14	0	61	1.33
33083336--33083423	34	2.5	35	79	3	97	46	18	13	21	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33084652--33084712	29	2.1	29	84	6	79	52	9	21	16	1.72
33087555--33087598	3	15.0	3	80	4	54	63	2	29	4	1.26
33087560--33087598	20	2.0	20	89	0	60	64	2	28	5	1.28
33093736--33093825	44	2.0	44	100	0	180	32	13	20	34	1.91
33104698--33104751	24	2.2	24	74	6	56	57	0	0	42	0.98
33107313--33107397	2	42.5	2	85	0	116	42	0	3	54	1.17
33107313--33107397	28	3.0	28	96	3	152	42	0	3	54	1.17
33117686--33117721	3	12.0	3	93	0	63	66	2	0	30	1.06
33126017--33126067	24	2.3	21	86	10	66	3	19	0	76	0.94
33126257--33126292	19	1.9	18	88	5	54	44	22	5	27	1.75
33130074--33130107	3	11.3	3	93	0	59	2	0	32	64	1.08
33139934--33139999	14	4.3	14	74	20	60	0	36	0	63	0.95
33142433--33142480	25	1.9	25	95	0	87	25	10	25	39	1.87
33142465--33142525	32	1.9	32	96	0	113	39	0	31	29	1.57
33142789--33142865	38	2.0	38	97	0	145	14	7	31	46	1.72
33159131--33159194	4	16.2	4	78	15	55	79	0	0	20	0.73
33159131--33159199	18	3.8	18	79	12	79	81	0	0	18	0.70
33159133--33159202	23	3.2	22	86	6	97	81	0	0	18	0.69
33159139--33159202	27	2.5	26	82	7	85	82	0	0	17	0.66
33159137--33159199	9	7.0	9	79	13	67	82	0	0	17	0.67
33159705--33159768	30	2.1	30	94	0	110	32	15	37	14	1.87
33161641--33161671	16	1.9	16	93	0	53	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33173730--33173755	13	2.0	13	100	0	52	53	0	0	46	1.00
33174197--33174224	2	14.0	2	100	0	56	0	50	0	50	1.00
33179177--33179226	26	1.9	26	95	0	91	42	0	4	54	1.19
33179697--33179796	31	3.1	32	84	8	107	66	0	2	32	1.03
33179719--33179808	27	3.1	27	78	17	99	66	0	3	30	1.07
33182926--33182952	2	13.5	2	100	0	54	48	0	0	51	1.00
33183060--33183117	23	2.5	24	78	16	59	20	5	15	58	1.56
33185263--33185320	30	2.0	30	86	3	82	32	8	12	46	1.71
33185338--33185508	76	2.2	76	85	2	236	32	12	12	42	1.81
33189525--33189562	19	2.0	19	85	10	51	65	2	0	31	1.06
33191574--33191630	30	1.9	30	92	0	96	52	1	7	38	1.39
33191851--33191887	18	2.1	18	100	0	74	43	0	10	45	1.39
33198823--33198981	75	2.1	75	100	0	318	13	34	23	28	1.93
33201220--33201263	21	2.0	22	83	12	56	40	18	9	31	1.81
33201966--33202049	44	2.0	43	83	6	109	54	4	32	8	1.51
33202525--33202563	2	19.5	2	100	0	78	48	0	51	0	1.00
33203433--33203549	59	2.0	59	96	0	216	41	10	25	22	1.85
33207042--33207675	216	2.9	211	85	7	840	40	9	5	44	1.60
33210208--33210255	22	2.2	23	85	7	64	52	0	4	43	1.20
33210215--33210269	23	2.5	22	82	11	67	47	0	5	47	1.25
33212676--33212704	2	15.0	2	92	7	51	51	0	0	48	1.00
33219052--33219084	2	17.0	2	93	6	59	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33219127--33219160	2	17.0	2	88	11	52	47	0	2	50	1.16
33219046--33219197	76	2.0	75	96	3	279	39	2	8	48	1.48
33223048--33223150	42	2.4	43	79	10	124	52	0	3	42	1.26
33223193--33223703	148	3.4	150	80	10	490	55	2	2	38	1.28
33223059--33223748	20	35.4	20	64	22	125	55	2	2	38	1.29
33223521--33223559	16	2.4	17	82	8	53	53	0	2	43	1.14
33223188--33223677	158	3.2	152	80	10	518	55	3	2	39	1.28
33223629--33223683	16	3.2	18	73	23	55	60	1	0	38	1.08
33223888--33224056	28	6.2	28	66	19	72	55	2	0	42	1.13
33223689--33224016	156	2.1	155	79	5	340	53	4	2	39	1.33
33223917--33224048	21	6.5	21	70	15	73	57	1	0	40	1.08
33223996--33224046	22	2.4	21	84	9	68	54	0	0	45	0.99
33224011--33224075	27	2.3	28	84	10	80	50	0	0	49	1.00
33253084--33253269	92	2.0	93	95	3	340	33	12	16	37	1.86
33253271--33253319	2	25.5	2	83	8	66	46	2	2	48	1.25
33258256--33258297	2	21.0	2	100	0	84	50	0	0	50	1.00
33264606--33264634	12	2.4	12	100	0	58	0	48	0	51	1.00
33267808--33267832	12	2.1	12	100	0	50	24	0	40	36	1.55
33270659--33270690	2	16.0	2	100	0	64	50	0	0	50	1.00
33270767--33270806	2	21.0	2	90	10	66	52	0	0	47	1.00
33273522--33273549	2	14.0	2	100	0	56	0	50	0	50	1.00
33280233--33280291	2	29.5	2	92	0	100	47	3	0	49	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33282167--33282217	21	2.4	21	77	9	59	70	3	17	7	1.27
33289805--33289866	30	2.1	30	85	11	83	37	1	1	59	1.17
33291047--33291080	2	17.5	2	93	6	61	47	0	0	52	1.00
33291469--33291493	2	12.5	2	100	0	50	52	0	0	48	1.00
33297390--33297429	18	2.2	18	86	0	53	52	2	42	2	1.28
33300114--33300154	2	21.5	2	85	9	59	46	0	53	0	1.00
33308775--33308819	21	2.2	20	84	8	54	71	0	2	26	0.98
33309840--33309900	24	2.6	21	75	25	52	65	1	6	26	1.26
33313594--33313637	22	2.0	21	83	12	54	70	6	0	22	1.11
33322388--33322421	16	2.1	17	88	5	52	26	2	0	70	1.01
33330730--33330759	15	2.0	15	100	0	60	46	13	6	33	1.69
33343027--33343078	27	1.9	27	88	0	77	53	0	1	44	1.11
33343366--33343416	27	1.9	27	84	4	68	47	3	1	47	1.32
33343344--33343495	81	1.9	83	84	8	213	51	3	2	42	1.32
33349035--33349090	23	2.4	23	96	0	103	39	23	21	16	1.92
33358231--33358386	42	3.7	42	93	0	258	26	21	33	17	1.96
33367128--33367155	2	14.0	2	100	0	56	50	0	0	50	1.00
33381286--33381333	2	24.0	2	100	0	96	50	0	0	50	1.00
33401767--33401873	47	2.3	47	95	0	187	23	27	17	31	1.97
33407440--33407685	125	2.0	125	86	6	347	37	19	8	34	1.82
33417377--33417408	8	4.1	8	92	8	57	34	0	0	65	0.93
33417377--33417408	15	2.1	16	94	5	57	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33418669--33418809	74	1.9	74	91	0	228	40	4	7	47	1.52
33426435--33426462	2	14.0	2	100	0	56	0	50	0	50	1.00
33432392--33432448	9	6.3	9	83	0	60	42	19	8	29	1.81
33432499--33432536	14	2.9	14	88	7	53	65	5	0	28	1.14
33436042--33436072	2	16.0	2	93	6	55	48	0	0	51	1.00
33444728--33444766	18	2.1	19	85	4	53	43	2	0	53	1.14
33444908--33444938	15	2.1	15	100	0	62	54	0	0	45	0.99
33444908--33444943	17	2.2	17	90	9	58	52	0	0	47	1.00
33444941--33445006	30	2.2	31	89	10	109	36	0	3	59	1.13
33447044--33447151	50	2.2	49	81	8	128	43	8	3	44	1.52

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