genome.fa.s1.2.7.7.80.10.50.1000.3.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  3  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)
499526--499555	15	2.0	15	93	0	51	80	0	16	3	0.85
503844--503922	28	2.9	28	76	1	79	36	29	8	25	1.86
504612--504716	37	2.9	36	85	10	128	43	10	9	36	1.72
504682--504736	20	2.7	20	83	10	67	32	14	14	38	1.87
504682--504729	21	2.3	21	86	10	64	31	12	12	43	1.80
504651--504770	58	2.1	57	83	7	145	42	12	10	35	1.76
504739--504779	22	2.0	20	85	9	55	46	7	4	41	1.53
504806--505109	18	16.8	18	69	13	171	43	9	14	32	1.78
504806--505078	36	7.7	35	77	9	232	42	9	14	32	1.78
505003--505107	37	2.8	37	85	8	131	40	10	11	37	1.76
504806--505109	17	16.8	17	68	15	157	43	9	14	32	1.78
505003--505117	39	3.1	36	82	8	142	38	9	11	40	1.74
505821--505877	4	13.8	4	75	14	53	1	28	0	70	0.98
505840--505877	19	2.0	19	89	0	58	2	21	0	76	0.91
505981--506042	28	2.2	28	79	0	70	1	19	4	74	1.09
506408--506560	30	5.2	29	74	15	98	39	5	20	34	1.75
506417--506530	59	2.0	57	79	10	124	40	5	21	33	1.75
506492--506560	30	2.3	30	92	5	113	39	4	17	39	1.69
508668--508779	55	2.0	56	91	1	181	43	8	8	38	1.67
510868--510917	17	2.9	16	80	11	55	38	20	12	30	1.88
510870--510916	18	2.7	17	80	9	51	40	21	12	25	1.89
511537--511568	11	2.8	12	86	13	50	12	6	0	81	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
512186--512235	3	16.7	3	100	0	100	34	0	0	66	0.92
516362--516400	8	5.0	8	87	6	53	84	5	0	10	0.76
516363--516412	23	2.1	23	88	3	73	78	10	0	12	0.98
519111--520245	46	25.6	46	77	9	813	29	21	22	27	1.99
518991--519935	174	5.4	174	88	3	1173	29	21	22	26	1.99
519285--520245	133	7.2	134	82	6	802	29	21	22	27	1.99
520179--520493	140	2.2	140	85	6	431	32	16	21	29	1.95
521889--521938	3	16.7	3	100	0	100	34	0	0	66	0.92
523137--523186	3	16.7	3	100	0	100	34	0	0	66	0.92
523643--523861	110	2.0	112	90	5	347	33	13	17	35	1.89
523678--523886	110	1.9	108	86	4	287	29	14	18	37	1.90
528513--528546	17	2.0	17	88	0	50	32	8	11	47	1.71
531786--531840	3	18.7	3	82	17	71	34	0	1	63	1.05
535721--535750	12	2.6	12	94	5	53	66	16	0	16	1.25
536695--536722	5	5.6	5	100	0	56	42	17	17	21	1.89
537595--537631	9	4.1	9	85	0	56	29	8	13	48	1.71
540154--540229	3	25.3	3	100	0	152	67	0	0	32	0.91
541442--541488	23	2.0	24	95	4	87	21	27	21	29	1.98
541768--541956	44	4.3	44	95	0	333	29	25	12	32	1.93
541964--542407	44	10.1	43	64	18	150	28	22	19	29	1.98
541962--542422	132	3.5	131	91	1	730	28	23	19	28	1.98
542459--542596	45	3.1	45	67	16	126	23	20	22	34	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
546851--546999	73	2.0	74	98	1	291	21	17	16	44	1.87
548326--548363	17	2.2	17	86	9	51	60	0	7	31	1.25
548502--548553	3	17.3	3	95	0	95	65	0	1	32	1.04
549688--549718	16	1.9	16	93	0	53	51	9	3	35	1.51
549734--549802	27	2.4	29	77	18	81	62	4	2	30	1.29
549737--549802	31	2.2	31	83	8	82	63	4	3	28	1.29
554674--554834	43	3.8	43	79	6	159	32	22	16	29	1.95
555990--556038	26	1.9	26	88	12	75	57	10	18	14	1.65
567514--567579	29	2.2	31	78	7	75	62	7	3	27	1.37
567574--567611	20	1.9	20	100	0	76	60	7	0	31	1.25
567603--568228	310	2.0	314	92	2	1046	46	15	16	22	1.84
569129--569177	25	2.0	25	95	0	89	26	2	8	63	1.34
569131--569187	25	2.3	25	87	0	78	26	3	5	64	1.30
569226--569266	3	13.7	3	100	0	82	31	0	0	68	0.90
569428--569454	4	6.8	4	100	0	54	22	0	0	77	0.76
571678--571707	6	5.0	6	91	0	51	33	46	0	20	1.51
576615--576640	13	2.0	13	100	0	52	53	0	46	0	1.00
576619--576661	13	3.4	13	87	3	52	69	0	30	0	0.88
576641--576680	16	2.5	16	88	8	55	82	2	12	2	0.87
576806--576859	24	2.4	23	84	9	67	24	40	31	3	1.72
583109--584207	80	13.8	80	85	6	1376	29	16	18	35	1.93
584418--584514	30	3.2	30	88	0	140	36	20	3	40	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584418--584555	60	2.3	60	83	5	163	31	21	4	42	1.73
584418--584565	30	4.9	30	74	6	120	32	20	4	42	1.71
584913--584968	3	18.7	3	96	0	103	69	0	30	0	0.89
585811--586102	19	15.6	19	73	16	123	35	13	9	42	1.76
585800--586050	39	6.7	38	85	5	298	35	13	9	41	1.77
585796--586119	18	17.5	18	71	13	162	34	13	9	42	1.76
598240--598295	3	18.7	3	96	0	103	69	0	30	0	0.89
599099--599277	38	4.7	38	78	8	166	36	12	8	41	1.75
599116--599207	19	4.8	20	74	12	84	40	14	7	38	1.74
599219--599347	18	7.2	18	74	11	122	34	13	7	44	1.72
599136--599347	38	5.8	34	76	13	147	34	13	8	43	1.73
599114--599357	35	6.6	36	74	13	124	35	12	7	44	1.71
599136--599348	18	11.6	18	65	17	89	35	13	7	43	1.73
599770--599922	26	5.7	26	72	6	108	60	3	6	29	1.40
600787--600813	1	27.0	1	100	0	54	0	0	0	100	0.00
605288--605338	23	2.2	23	80	13	61	39	0	1	58	1.09
607195--607299	29	3.6	29	79	5	113	32	18	3	45	1.67
607563--607622	21	3.1	20	77	13	63	63	0	36	0	0.95
607564--607619	20	2.7	21	80	5	69	66	0	33	0	0.92
607575--607624	18	2.6	19	79	17	59	60	0	40	0	0.97
607999--608041	10	4.0	10	80	16	50	81	0	18	0	0.69
607994--608037	18	2.4	18	88	7	63	81	0	18	0	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
607998--608041	23	2.0	21	91	8	70	81	0	18	0	0.68
608183--608223	17	2.3	18	83	8	57	29	0	0	70	0.87
608177--608235	25	2.1	30	82	14	74	28	0	1	69	0.98
608354--608456	38	2.7	38	76	10	102	35	10	11	41	1.76
608357--608458	18	5.4	18	68	16	55	37	9	11	41	1.75
608564--608806	17	13.9	18	81	7	252	30	11	11	46	1.75
608564--608795	35	6.6	35	82	8	267	31	11	11	45	1.76
611777--611822	23	2.0	23	95	0	83	54	13	2	30	1.50
612060--612101	20	2.2	20	82	4	50	7	19	19	54	1.66
618567--618606	22	2.0	20	85	14	55	50	22	0	27	1.50
621912--621993	36	2.2	37	78	6	96	26	0	3	69	1.05
627334--627386	6	9.0	6	89	2	81	1	18	32	47	1.60
627994--628051	30	1.9	30	89	0	89	50	10	10	29	1.70
629066--629225	27	5.8	27	85	4	158	0	16	33	49	1.46
629055--629222	12	14.0	12	87	0	183	0	17	34	48	1.47
629077--629228	6	25.3	6	84	0	97	0	15	33	51	1.43
629266--629329	12	5.1	12	78	10	56	4	17	35	42	1.70
631285--631329	1	45.0	1	81	0	54	0	8	0	91	0.43
631284--631329	15	3.0	15	90	3	74	0	10	0	89	0.50
635012--635134	31	4.0	31	78	6	101	38	17	10	34	1.84
636473--636595	31	4.0	31	78	6	101	38	17	10	34	1.84
643379--643417	18	2.2	18	95	0	69	51	0	2	46	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
646581--646613	17	1.9	17	93	0	57	60	0	6	33	1.21
662003--662090	21	4.2	21	82	8	108	28	1	12	57	1.42
662194--662251	22	2.9	19	76	14	62	34	1	12	51	1.49
665919--665943	2	12.5	2	100	0	50	52	0	0	48	1.00
674666--674848	101	1.8	101	83	2	242	29	13	20	36	1.91
676451--676488	19	2.0	19	85	10	51	18	13	13	55	1.69
681145--681188	22	2.0	23	86	4	63	65	0	0	34	0.93
681307--681350	6	7.3	6	85	10	63	79	0	0	20	0.73
687531--687578	25	1.9	25	91	0	78	60	0	4	35	1.16
690061--690105	24	2.0	22	83	12	56	77	2	15	4	1.02

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