genome.fa.s1.2.7.7.80.10.50.1000.82.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  82  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)
31516708--31516742	17	2.1	17	88	0	52	0	28	25	45	1.54
31519012--31519061	26	1.9	26	83	0	64	58	10	6	26	1.54
31524999--31525043	18	2.4	19	85	3	56	64	6	17	11	1.46
31525788--31526009	81	2.7	82	80	7	227	12	18	21	47	1.82
31526005--31526196	69	2.8	69	94	0	321	11	21	22	43	1.86
31529041--31529118	17	4.9	16	74	10	54	44	5	5	44	1.48
31529260--31529300	20	2.0	20	85	0	55	41	2	7	48	1.44
31529385--31529441	18	3.0	19	80	12	64	47	7	8	36	1.62
31529443--31529556	8	13.8	8	65	26	51	46	3	4	45	1.40
31529419--31529571	34	4.5	33	71	22	113	45	5	5	43	1.50
31529419--31529555	68	1.9	72	89	8	219	46	5	5	43	1.47
31529491--31529574	16	5.0	18	73	21	67	44	4	7	44	1.52
31529881--31529926	20	2.4	20	85	7	60	45	4	4	45	1.43
31529539--31530192	350	1.9	344	88	4	974	39	5	7	46	1.56
31531937--31532129	81	2.3	82	79	8	203	10	18	22	48	1.79
31531937--31532183	78	3.0	80	80	6	248	10	19	20	48	1.78
31532140--31532366	69	3.3	69	90	3	368	11	22	19	46	1.82
31533347--31533402	2	30.0	2	75	13	57	46	1	0	51	1.11
31540546--31540580	15	2.3	15	90	5	52	51	11	17	20	1.75
31540597--31540626	15	2.0	15	93	0	51	36	20	16	26	1.93
31540549--31540652	45	2.3	45	86	6	140	38	18	18	25	1.93
31541254--31541281	2	14.0	2	100	0	56	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)
31541488--31541555	30	2.3	30	89	0	109	13	32	4	50	1.61
31541490--31541547	15	3.8	16	73	11	50	13	31	5	50	1.64
31547569--31547925	157	2.3	157	81	6	400	39	14	35	11	1.82
31548614--31548663	18	2.9	17	75	16	50	42	12	10	36	1.76
31548614--31548677	32	1.9	34	90	6	105	42	12	7	37	1.72
31548697--31548754	2	29.0	2	83	0	71	48	3	3	44	1.36
31555344--31555395	22	2.4	21	81	12	61	32	15	15	36	1.89
31555428--31555467	12	3.2	12	89	3	62	30	7	17	45	1.76
31563849--31563960	44	2.5	44	92	0	179	36	20	4	38	1.73
31585492--31585532	18	2.3	17	87	8	55	70	4	0	24	1.06
31586691--31586738	2	25.0	2	87	8	73	54	0	0	45	0.99
31592367--31592428	30	2.1	30	87	0	88	43	16	24	16	1.87
31595880--31595924	22	2.1	21	84	12	56	53	2	4	40	1.33
31601426--31601471	20	2.2	21	78	17	51	58	8	2	30	1.40
31601880--31601919	18	2.2	18	86	8	55	70	0	0	30	0.88
31601880--31601930	24	2.3	21	80	10	57	70	0	0	29	0.87
31620744--31620783	20	2.0	20	100	0	80	15	30	30	25	1.95
31626485--31626530	20	2.3	20	84	0	56	28	8	19	43	1.80
31632129--31632158	15	2.0	15	93	0	51	26	23	40	10	1.86
31632149--31632198	24	2.1	24	84	0	64	36	20	34	10	1.86
31635903--31635934	15	2.1	15	100	0	64	40	15	31	12	1.85
31643019--31643084	33	2.0	32	91	8	107	71	0	1	27	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31648936--31648967	2	16.0	2	93	0	55	3	46	0	50	1.17
31651795--31651820	6	4.3	6	100	0	52	50	0	34	15	1.45
31668208--31668232	2	12.5	2	100	0	50	0	48	0	52	1.00
31680399--31680510	2	53.5	2	89	10	131	45	0	6	47	1.28
31696716--31696750	15	2.3	15	95	0	61	8	11	60	20	1.57
31719111--31719163	27	2.0	27	100	0	106	37	15	26	20	1.92
31723048--31723097	25	2.0	25	88	7	75	50	0	4	46	1.20
31723075--31723139	24	2.9	22	76	17	69	47	0	1	50	1.10
31723092--31723138	24	1.9	25	91	4	78	46	0	0	53	1.00
31723075--31723146	21	3.2	20	73	19	54	50	0	1	48	1.09
31723130--31723177	21	2.3	20	79	10	53	64	0	2	33	1.05
31731522--31731579	27	2.1	27	84	6	73	24	15	15	44	1.85
31759479--31759573	47	2.0	47	93	0	163	34	25	7	32	1.84
31761882--31761906	2	12.5	2	100	0	50	52	0	48	0	1.00
31764115--31764139	3	8.3	3	100	0	50	64	0	36	0	0.94
31768647--31768763	39	3.0	39	94	0	198	45	24	7	22	1.78
31771653--31771749	29	3.3	29	82	5	108	36	11	13	39	1.81
31771883--31771928	24	1.9	24	95	0	83	19	13	15	52	1.75
31771845--31772052	69	3.0	68	85	4	247	27	16	15	40	1.89
31771881--31771934	24	2.2	24	83	0	81	22	16	14	46	1.84
31771910--31772273	114	3.2	114	78	4	392	28	17	15	38	1.90
31771951--31772057	24	4.6	24	66	15	62	28	14	16	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31771981--31772093	45	2.5	45	78	5	104	28	15	15	39	1.89
31772089--31772181	45	2.1	45	85	0	123	32	19	15	33	1.92
31772133--31772355	69	3.2	69	85	0	284	27	16	17	38	1.91
31772247--31772294	24	2.0	24	87	0	69	25	14	16	43	1.86
31776342--31776371	6	5.0	6	100	0	60	16	66	0	16	1.25
31778659--31778735	39	2.0	39	89	5	120	36	6	15	41	1.73
31779392--31779423	17	1.9	17	93	6	57	9	6	9	75	1.20
31790545--31790574	15	2.0	15	93	0	51	43	0	3	53	1.17
31790635--31790666	15	2.1	15	94	0	55	43	0	0	56	0.99
31796653--31796691	19	2.1	19	90	0	60	58	0	0	41	0.98
31806695--31806762	19	3.6	19	67	15	52	57	0	0	42	0.98
31806907--31807015	41	2.6	43	78	15	129	53	1	5	39	1.35
31806866--31807169	162	1.9	158	83	8	384	53	3	2	39	1.34
31807042--31807088	17	2.8	17	78	12	51	59	2	0	38	1.09
31807113--31807147	16	2.3	15	90	5	52	51	2	2	42	1.31
31807136--31807197	23	2.9	21	81	13	72	54	1	1	41	1.19
31809752--31809821	23	3.1	21	67	15	59	51	4	1	42	1.30
31809890--31809952	24	2.6	25	72	18	62	39	6	1	52	1.37
31812099--31812151	25	2.1	26	83	16	67	69	0	5	24	1.09
31812173--31812235	30	2.1	30	82	5	74	38	12	7	41	1.73
31812603--31812658	23	2.4	23	93	0	94	16	26	10	46	1.79
31820432--31820465	10	3.3	10	88	8	50	44	2	0	52	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31822542--31822581	17	2.4	17	100	0	80	35	0	0	65	0.93
31823070--31823149	41	2.0	39	82	4	97	41	2	10	46	1.51
31823124--31823198	32	2.3	33	83	4	89	49	6	9	34	1.61
31823128--31823217	33	2.8	33	84	1	110	51	6	10	32	1.61
31825631--31825670	21	1.9	21	84	0	53	60	0	0	40	0.97
31839660--31839712	27	2.0	27	88	0	79	58	0	0	41	0.98
31856242--31856279	18	2.1	18	100	0	76	21	42	21	15	1.89
31857208--31857242	2	18.0	2	94	5	63	0	48	0	51	1.00
31874455--31874492	2	19.0	2	100	0	76	50	0	50	0	1.00
31893547--31893606	22	2.8	22	77	7	61	65	1	0	33	1.03
31910956--31911057	51	2.0	51	83	5	127	42	5	5	46	1.52
31912061--31912119	29	2.0	29	100	0	118	6	27	13	52	1.65
31915788--31915818	2	15.5	2	100	0	62	0	48	0	51	1.00
31926282--31926376	31	3.1	31	84	3	138	58	6	0	34	1.23
31926279--31926376	30	3.2	31	85	2	146	58	6	0	35	1.23
31926519--31926597	29	2.7	30	78	7	81	37	5	0	56	1.21
31957242--31957318	25	3.1	25	80	10	104	41	0	1	57	1.07
31997514--31997542	12	2.3	13	94	5	51	37	27	0	34	1.57
31998330--31998755	26	17.6	23	67	22	168	53	2	1	43	1.21
31998443--31998541	42	2.4	41	86	8	130	52	2	2	43	1.24
31998648--31998701	20	2.6	21	80	16	60	48	3	0	48	1.19
31998656--31998843	27	6.8	27	66	18	91	51	2	1	44	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31998949--31999007	27	2.1	28	90	3	93	55	3	0	40	1.16
31998335--31999183	143	5.7	152	82	11	989	53	2	1	42	1.24
31998949--31999014	27	2.4	27	87	5	80	57	3	0	39	1.14
31998965--31999022	27	2.1	27	81	6	64	65	1	0	32	1.03
31999105--31999158	27	2.0	27	92	0	90	51	1	0	46	1.11
31998703--31999210	156	3.3	153	80	10	579	54	2	1	41	1.25
32005912--32005965	21	2.6	21	85	11	67	59	0	0	38	0.98
32005970--32006028	27	2.1	28	87	3	84	47	1	1	49	1.21
32005985--32006043	28	2.1	27	81	3	64	55	1	1	40	1.20
32005994--32006064	33	2.2	33	82	5	81	61	0	1	36	1.05

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