genome.fa.s1.2.7.7.80.10.50.1000.28.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  28  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)
9346244--9346274	2	15.5	2	93	0	53	48	3	0	48	1.17
9349496--9349546	23	2.3	23	89	3	77	62	5	5	25	1.41
9350306--9350339	16	2.1	16	88	0	50	41	8	0	50	1.34
9351688--9351745	29	2.0	29	83	12	75	72	3	15	8	1.23
9354192--9354344	60	2.6	57	79	8	173	26	14	18	39	1.90
9377036--9377069	16	2.1	16	88	0	50	35	11	26	26	1.91
9379220--9379269	18	2.8	18	71	14	50	28	0	4	68	1.08
9380079--9380143	29	2.2	28	84	10	78	38	7	9	44	1.65
9380103--9380208	31	3.5	29	75	12	88	36	11	7	44	1.69
9380324--9380389	29	2.2	29	83	2	78	50	9	7	33	1.62
9389778--9389806	13	2.1	14	93	6	51	48	3	0	48	1.18
9390203--9390241	16	2.5	16	84	15	55	38	2	0	58	1.12
9390346--9390390	14	3.1	14	83	6	54	40	4	4	51	1.42
9398501--9398849	173	2.0	174	99	0	691	30	9	14	45	1.78
9399308--9399348	19	2.2	19	90	0	64	51	9	14	24	1.72
9409739--9409804	33	2.0	33	81	0	78	45	4	0	50	1.22
9416313--9416508	101	2.0	98	83	6	250	39	6	6	47	1.55
9432626--9432651	7	3.7	7	100	0	52	88	0	0	11	0.52
9436822--9436883	31	2.0	31	87	0	88	46	6	27	19	1.74
9442588--9442620	17	2.0	17	88	5	50	69	6	3	21	1.24
9453257--9453949	344	2.0	344	99	0	1368	36	21	8	33	1.84
9455124--9455148	11	2.3	11	100	0	50	84	0	0	16	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9458766--9458806	21	2.0	20	90	4	64	21	12	9	56	1.65
9470078--9470624	112	4.9	112	83	5	683	23	21	27	28	1.99
9470535--9470723	99	1.9	98	84	1	252	28	21	23	26	1.99
9470912--9470988	21	3.7	20	73	20	68	16	1	38	42	1.57
9471049--9471131	35	2.3	35	79	2	94	26	2	26	44	1.66
9471049--9471095	14	3.4	14	81	0	58	23	2	27	46	1.63
9472976--9473054	25	3.1	25	62	13	61	45	5	18	30	1.71
9472976--9473074	52	1.9	52	97	0	189	44	5	18	32	1.71
9472985--9473067	26	3.2	26	63	13	71	40	4	21	32	1.74
9476494--9476562	21	3.3	21	87	0	93	34	18	43	2	1.65
9477003--9477206	42	4.8	40	84	7	178	25	21	22	30	1.99
9477001--9477206	85	2.4	84	84	9	251	26	21	21	30	1.98
9477389--9477449	21	3.2	21	60	26	53	60	13	0	26	1.33
9477396--9477454	17	3.4	17	68	32	52	59	13	0	27	1.35
9477386--9477459	36	2.1	36	100	0	148	58	14	0	27	1.37
9477618--9477652	18	1.9	18	88	11	54	62	5	0	31	1.18
9479432--9479477	12	3.9	12	75	13	51	21	6	0	71	1.08
9480499--9480559	16	3.8	16	76	20	56	75	1	1	21	0.98
9480499--9480545	10	4.7	10	79	7	51	74	2	0	23	0.93
9482516--9482606	40	2.3	40	90	0	137	42	7	20	28	1.80
9482536--9482619	40	2.1	40	81	0	96	44	11	16	27	1.83
9483216--9483320	40	2.6	40	80	3	113	46	9	19	24	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9483935--9484037	40	2.6	40	92	0	161	41	9	23	25	1.84
9482500--9485385	715	4.0	717	83	5	3273	38	14	23	23	1.92
9484652--9484792	40	3.5	40	96	0	255	42	11	21	24	1.85
9487389--9487436	6	7.7	6	86	6	60	70	0	10	18	1.15
9487953--9487990	20	1.9	20	88	0	58	63	7	0	28	1.23
9488025--9488059	17	2.1	17	100	0	70	48	0	0	51	1.00
9489070--9489150	42	1.9	42	87	5	119	33	18	9	38	1.84
9494364--9494402	19	2.1	19	85	9	53	43	10	2	43	1.52
9494901--9494943	16	2.7	16	85	0	59	32	9	13	44	1.76
9505362--9505449	28	3.2	27	79	6	97	48	6	20	23	1.73
9513710--9513740	13	2.3	14	94	5	55	51	0	6	41	1.27
9513932--9514116	41	4.5	41	81	2	203	19	26	16	37	1.93
9523439--9523477	16	2.4	17	86	4	53	76	0	5	17	0.96
9528472--9528515	22	2.0	22	82	8	54	43	6	11	38	1.67
9529933--9529974	21	2.0	21	85	0	57	42	2	0	54	1.13
9531042--9531085	22	2.0	22	82	8	54	43	6	11	38	1.67
9532503--9532544	21	2.0	21	85	0	57	42	2	0	54	1.13
9538669--9538762	27	3.5	26	72	4	71	39	17	24	19	1.92
9538668--9538786	54	2.2	54	81	3	132	36	19	26	17	1.94
9553330--9553498	60	2.8	59	74	16	193	35	11	3	49	1.57
9559589--9559682	39	2.4	39	83	0	107	30	5	21	42	1.75
9564680--9566216	510	3.0	509	95	0	2772	23	13	21	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9572188--9572229	21	2.0	21	100	0	84	23	14	23	38	1.92
9572213--9572377	43	3.8	43	76	10	167	23	18	27	30	1.97
9574610--9574653	13	3.5	13	75	12	56	56	4	2	36	1.32
9577405--9577441	9	4.1	9	92	0	65	45	13	10	29	1.77
9577712--9577745	7	4.9	7	88	0	50	8	73	0	17	1.08
9578915--9578947	17	1.9	17	100	0	66	27	24	0	48	1.51
9581328--9581373	20	2.3	20	82	17	69	39	0	0	60	0.97
9587065--9587110	18	2.5	18	85	3	56	52	41	0	6	1.27
9587076--9587124	25	1.9	26	91	4	82	53	40	2	4	1.32
9592951--9592980	14	2.1	14	100	0	60	30	6	26	36	1.82
9594593--9594621	7	4.3	7	91	8	51	72	0	0	27	0.85
9594593--9594621	13	2.1	14	93	6	51	72	0	0	27	0.85
9594969--9596007	114	9.1	113	90	1	1499	24	21	24	28	1.99
9596442--9596660	89	2.6	83	83	5	242	28	2	25	43	1.66
9596492--9596660	89	1.9	90	88	1	259	27	2	26	42	1.70
9596687--9596740	21	2.6	21	72	21	51	50	1	5	42	1.36
9596730--9596773	8	5.2	8	82	17	54	56	0	9	34	1.31
9596735--9596783	9	5.4	9	88	9	73	61	0	8	30	1.25
9596735--9596790	27	2.1	27	86	0	76	64	0	7	28	1.20
9596815--9596912	47	2.1	47	88	0	142	44	9	1	44	1.42
9598160--9598206	21	2.2	21	84	0	58	40	12	0	46	1.42
9598937--9599138	58	3.5	58	100	0	404	38	1	13	46	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9599974--9600122	43	3.5	43	88	0	217	29	18	28	22	1.98
9602599--9602810	104	2.0	105	99	0	417	35	10	8	45	1.69
9611787--9611831	22	2.0	22	83	12	56	60	8	2	28	1.39
9612339--9612376	20	2.0	20	89	5	60	42	0	2	55	1.14
9621671--9621724	28	1.9	28	84	0	72	25	11	3	59	1.48
9621706--9621750	7	6.3	7	86	2	54	46	13	0	40	1.43
9621708--9621752	21	2.1	21	87	0	63	44	15	0	40	1.47
9621853--9621952	51	1.9	52	90	6	159	42	1	7	50	1.36
9631862--9631983	28	4.4	28	90	0	172	32	23	21	22	1.98
9632103--9632179	26	3.0	26	82	3	93	37	23	18	20	1.94
9632302--9632406	27	3.9	28	81	6	99	25	15	18	40	1.89
9632329--9632870	54	10.2	53	76	12	336	19	17	19	43	1.88
9632331--9632870	27	20.3	26	75	11	246	19	17	19	43	1.88
9632401--9632435	18	1.9	18	100	0	70	22	14	17	45	1.84
9632348--9632488	71	2.0	72	80	4	160	22	16	18	42	1.89
9632420--9632895	81	5.9	81	81	4	444	17	17	20	44	1.87
9632420--9632870	27	16.7	27	79	5	385	17	17	20	44	1.87
9632420--9632895	54	8.8	54	80	7	441	17	17	20	44	1.87
9633727--9633861	68	2.0	68	94	0	234	29	34	9	25	1.88
9635212--9635375	28	5.9	28	86	0	222	32	24	20	23	1.98
9635496--9635598	26	4.0	26	88	5	154	35	21	23	19	1.96
9635496--9635598	52	2.0	52	92	0	170	35	21	23	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9635743--9636261	27	19.3	26	78	8	359	17	17	21	43	1.88
9645992--9646035	5	8.6	5	85	5	61	75	2	20	2	1.03
9645988--9646025	15	2.6	15	91	4	60	78	0	21	0	0.74
9646075--9646110	11	3.4	11	92	3	56	72	0	8	19	1.10
9646734--9646810	27	2.8	29	79	13	76	63	2	0	33	1.08
9646698--9646844	10	15.6	9	70	16	75	63	4	1	31	1.22
9646752--9646812	19	3.2	19	80	19	65	63	1	0	34	1.04
9646769--9646811	9	4.9	8	81	18	50	62	2	0	34	1.08
9646797--9646872	32	2.5	31	83	14	95	59	3	1	35	1.24
9647584--9647618	18	1.9	18	94	0	61	28	0	0	71	0.86

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