genome.fa.s1.2.7.7.80.10.50.1000.38.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: Chr13
Parameters: 2 7 7 80 10 50 1000
Length:  46006518

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   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   

This is table  38  of  141  ( 16825 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)
12469505--12469567	6	10.3	6	91	3	72	0	23	0	76	0.79
12469495--12469535	12	3.6	12	90	6	59	0	19	0	80	0.71
12469494--12469567	22	3.5	21	80	8	69	0	22	0	77	0.78
12469505--12469555	19	2.7	19	87	3	68	0	21	0	78	0.75
12469495--12469570	34	2.2	34	81	4	91	0	25	0	75	0.81
12469514--12469568	3	19.0	3	84	3	69	0	25	0	74	0.82
12469927--12470052	29	4.2	28	81	9	144	40	3	19	37	1.67
12469927--12470052	59	2.1	59	86	4	173	40	3	19	37	1.67
12470245--12470544	76	3.9	76	98	0	573	37	23	14	25	1.92
12471845--12472007	76	2.1	77	98	1	319	33	15	13	36	1.87
12474423--12474449	14	1.9	14	100	0	54	14	0	33	51	1.43
12475175--12475287	56	2.0	56	93	3	192	35	23	7	33	1.82
12475586--12475628	2	21.0	2	95	4	77	48	2	0	48	1.14
12481590--12481615	3	8.7	3	100	0	52	30	0	0	69	0.89
12481958--12482044	44	2.0	43	95	2	156	21	4	10	63	1.44
12481969--12482060	44	2.1	44	91	4	150	22	4	8	64	1.40
12488827--12488883	21	2.8	21	89	5	91	68	3	0	28	1.06
12489615--12489694	10	8.6	9	71	16	56	67	0	2	30	1.04
12489622--12489703	19	4.3	20	72	17	75	63	0	2	34	1.08
12489615--12489741	56	2.2	57	82	9	154	63	1	5	29	1.26
12490018--12490076	27	2.3	24	82	11	64	44	1	1	52	1.21
12490043--12490089	19	2.5	20	80	16	55	44	2	0	53	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12490043--12490095	19	2.8	18	77	11	54	41	1	0	56	1.10
12490176--12490356	96	1.9	96	82	7	226	34	8	18	38	1.82
12493065--12493101	19	1.9	19	88	0	56	59	10	2	27	1.44
12494856--12495248	45	8.8	45	75	9	349	22	23	25	27	1.99
12494837--12495248	89	4.6	88	89	3	585	22	23	25	28	1.99
12495524--12495565	22	1.9	22	90	0	66	26	19	14	40	1.89
12500240--12500270	9	3.4	9	90	0	53	25	12	22	38	1.90
12502669--12502697	9	3.3	9	95	4	51	72	0	0	27	0.85
12502669--12502734	17	3.8	17	71	13	53	63	0	6	30	1.18
12502678--12502746	35	2.0	35	82	5	86	57	2	8	30	1.43
12503106--12503142	19	1.9	19	88	0	56	59	10	2	27	1.44
12506066--12506098	16	1.9	17	88	11	50	66	0	0	33	0.92
12506066--12506113	13	3.0	18	75	25	54	62	0	0	37	0.95
12519097--12519133	19	1.9	19	88	0	56	18	24	10	45	1.81
12519308--12519334	10	2.7	10	100	0	54	33	0	0	66	0.92
12527779--12527938	64	2.5	64	90	0	248	47	8	18	25	1.76
12528098--12528159	7	9.0	7	91	3	99	12	43	0	43	1.43
12528189--12528236	14	3.4	14	85	2	60	33	2	0	64	1.05
12528183--12528253	28	2.6	27	82	10	83	35	1	0	63	1.03
12528183--12528228	7	6.6	7	85	5	58	30	0	0	69	0.89
12531442--12531511	21	3.4	21	70	7	54	37	24	17	21	1.94
12531958--12531991	17	1.9	18	88	5	52	35	23	0	41	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12532435--12532469	17	2.0	18	88	5	54	14	8	5	71	1.29
12532439--12532482	23	1.9	23	86	9	63	18	6	4	70	1.27
12533184--12533233	13	3.9	12	82	10	55	2	18	2	78	0.95
12533184--12533233	6	7.8	6	78	12	55	2	18	2	78	0.95
12534154--12534215	10	5.5	11	76	19	58	74	3	1	20	1.05
12534173--12534205	16	2.1	16	88	11	50	75	0	3	21	0.93
12534666--12534697	12	2.7	12	95	0	55	18	9	0	71	1.12
12537580--12538303	361	2.0	361	100	0	1448	29	9	21	38	1.85
12540085--12540135	25	2.0	26	88	3	77	41	9	7	41	1.67
12540128--12540394	141	1.9	142	89	3	423	35	14	11	38	1.83
12542115--12542146	16	2.0	16	93	0	55	65	6	12	15	1.44
12544246--12544293	14	3.4	14	76	2	51	70	0	4	25	1.04
12547852--12548022	86	2.0	86	88	4	256	24	25	28	21	1.99
12549929--12549996	31	2.2	31	86	5	93	41	23	7	27	1.81
12549994--12550047	27	1.9	29	85	7	76	46	11	1	40	1.50
12551420--12551460	2	20.0	2	95	5	73	48	2	0	48	1.14
12554403--12554427	12	2.1	12	100	0	50	48	0	28	24	1.52
12556367--12556419	23	2.3	23	83	9	63	30	13	11	45	1.78
12576066--12576133	21	3.2	21	77	8	75	30	2	13	52	1.55
12576045--12576127	42	2.0	42	81	9	98	32	2	12	53	1.51
12575873--12576218	173	2.0	173	99	0	683	33	4	7	54	1.49
12584468--12584522	21	2.6	21	72	11	58	12	27	21	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12585371--12585426	20	2.7	21	81	10	62	39	12	12	35	1.81
12585406--12585442	17	2.3	17	86	9	51	43	10	5	40	1.63
12585367--12585451	37	2.2	39	87	6	120	38	10	9	41	1.72
12585492--12585729	17	13.3	17	69	12	129	42	10	14	31	1.80
12585492--12585739	18	13.8	18	68	14	129	43	10	14	31	1.80
12585490--12585622	36	3.6	37	82	4	171	41	8	15	35	1.77
12585490--12585628	73	1.9	72	89	2	215	41	8	15	34	1.77
12585565--12585729	54	3.1	53	77	8	158	44	11	13	30	1.80
12586607--12586659	19	2.7	20	82	8	72	3	24	0	71	1.02
12586606--12586674	29	2.4	29	80	9	70	4	24	0	71	1.05
12586777--12586814	19	2.0	20	89	5	60	2	21	0	76	0.91
12587188--12587243	29	1.9	29	85	7	78	39	3	25	32	1.73
12587260--12587372	34	3.7	30	82	14	133	36	0	28	34	1.64
12587217--12587386	29	5.6	29	76	14	139	37	2	25	34	1.71
12587261--12587386	63	2.0	64	84	7	168	36	2	26	34	1.70
12587755--12588305	157	3.4	155	82	8	585	32	19	17	30	1.95
12587756--12588324	80	7.1	79	82	8	597	33	19	17	29	1.95
12587856--12588318	248	1.9	236	88	5	701	32	19	18	28	1.96
12589954--12590016	1	63.0	1	77	0	54	4	3	4	87	0.75
12589944--12589984	8	5.0	8	90	3	64	9	4	0	85	0.73
12589945--12590017	20	3.8	20	79	12	66	5	5	4	84	0.85
12596397--12596481	20	4.4	20	70	16	63	38	10	8	42	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12596436--12596472	17	2.3	17	86	9	51	43	10	5	40	1.63
12596520--12597106	17	32.8	17	66	17	185	42	10	14	32	1.79
12596505--12597115	36	16.4	36	72	16	287	42	10	14	32	1.80
12596558--12596756	54	3.8	51	73	12	163	44	10	14	31	1.79
12596718--12596848	20	6.8	21	72	20	99	45	9	9	35	1.69
12596385--12597106	341	2.1	337	88	4	1101	43	10	13	33	1.78
12597657--12597702	14	3.3	14	90	0	65	8	23	45	21	1.80
12597873--12597950	28	2.6	30	82	12	88	6	21	0	71	1.08
12597883--12597934	18	2.7	20	82	14	72	3	25	0	71	1.03
12598053--12598096	20	2.1	21	87	4	63	0	20	4	75	0.98
12598470--12598526	30	1.9	29	86	10	80	40	3	24	31	1.72
12598500--12598666	59	2.8	57	74	9	156	37	4	25	32	1.75
12598500--12598650	29	5.1	30	79	7	148	37	2	27	32	1.71
12600547--12600622	3	25.3	3	87	0	107	32	3	1	61	1.22
12612877--12613533	50	13.1	50	68	10	403	32	24	20	22	1.98
12612889--12613533	100	6.4	100	92	0	1056	32	25	20	22	1.98
12615029--12615063	3	11.7	3	100	0	70	31	0	0	68	0.90
12615105--12615152	2	24.5	2	78	4	53	41	0	4	54	1.20
12615425--12615459	17	2.1	16	89	5	52	17	2	5	74	1.14
12616538--12616568	3	10.3	3	92	0	53	64	3	0	32	1.09
12616716--12618033	330	4.0	329	89	2	1785	41	12	12	32	1.81
12621237--12621278	18	2.3	18	80	8	50	45	4	0	50	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12621334--12621401	34	2.0	34	85	0	91	54	14	11	19	1.70
12622204--12622255	26	2.0	26	82	17	63	28	7	25	38	1.83
12622780--12622864	27	3.1	27	77	3	82	21	18	32	27	1.97
12622929--12622965	16	2.4	16	95	4	67	56	5	2	35	1.36
12623106--12623268	19	8.2	19	76	18	154	55	14	0	30	1.39
12623043--12623329	101	2.8	101	98	0	556	57	13	0	29	1.37
12623243--12623389	61	2.4	61	96	1	269	59	11	0	29	1.33
12623364--12623411	21	2.2	22	88	7	80	56	12	0	31	1.37
12623419--12623480	27	2.3	27	82	0	79	17	27	27	27	1.98
12624996--12625027	2	16.0	2	100	0	64	50	0	0	50	1.00

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   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141