genome.fa.s6.2.7.7.80.10.50.1000.59.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:  35726063

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   

This is table  59  of  109  ( 13028 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)
19310005--19310380	44	8.7	43	83	5	406	28	26	17	28	1.97
19310051--19310380	170	1.9	170	89	2	511	28	25	16	29	1.97
19309998--19310340	126	2.7	126	91	3	526	27	26	17	29	1.97
19310347--19310614	88	3.0	88	86	1	376	23	23	24	28	2.00
19310413--19310548	44	3.1	44	74	4	166	25	26	22	25	2.00
19319939--19319971	3	11.0	3	100	0	66	66	33	0	0	0.92
19319974--19320016	9	4.8	9	85	0	50	53	0	0	46	1.00
19325554--19325613	20	3.0	20	97	0	111	30	26	15	28	1.96
19337040--19337163	62	2.0	62	87	3	178	31	25	7	36	1.83
19337959--19338001	22	2.0	21	81	4	50	55	0	0	44	0.99
19338001--19338683	337	2.0	338	99	0	1352	35	11	11	42	1.76
19345876--19345908	16	1.9	18	88	11	52	15	6	0	78	0.93
19346717--19346773	16	3.5	16	77	13	53	42	3	1	52	1.28
19353025--19353113	36	2.4	35	75	14	81	32	1	3	62	1.19
19353054--19353113	10	6.3	10	73	11	54	31	1	0	66	1.01
19353047--19353106	9	6.8	9	75	24	65	28	1	0	70	0.97
19353052--19353106	20	2.9	19	80	19	71	27	1	0	70	0.97
19353056--19353120	27	2.3	28	84	5	78	30	1	1	66	1.10
19357510--19357549	20	2.0	20	100	0	80	30	10	30	30	1.90
19360598--19360626	6	4.8	6	100	0	58	17	48	0	34	1.47
19364095--19364121	14	1.9	14	100	0	54	40	14	14	29	1.86
19377918--19377962	22	2.0	22	95	0	81	24	8	20	46	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19379339--19379416	39	2.0	39	92	0	129	16	10	32	41	1.82
19380735--19380878	78	1.9	76	84	7	193	25	29	15	29	1.96
19382596--19382640	22	2.0	22	95	0	81	24	8	20	46	1.78
19385639--19385675	19	2.1	17	90	10	56	59	2	0	37	1.12
19389519--19389558	21	2.0	20	85	5	53	37	37	10	15	1.80
19391339--19391377	14	2.8	14	84	0	51	56	7	2	33	1.41
19393953--19393993	4	10.2	4	94	0	73	21	0	2	75	0.92
19394216--19394263	20	2.3	22	82	13	57	43	16	0	39	1.48
19401402--19401426	13	1.9	13	100	0	50	72	0	0	28	0.86
19409257--19409326	3	23.3	3	73	5	61	61	1	5	31	1.28
19412119--19412157	19	2.1	19	90	0	60	35	7	7	48	1.61
19412236--19412267	16	2.0	16	93	0	55	53	0	0	46	1.00
19412791--19412819	15	1.9	15	100	0	58	13	0	37	48	1.43
19412992--19413065	36	1.9	37	84	10	96	59	0	2	37	1.12
19413204--19413761	215	2.6	217	93	3	950	34	3	18	43	1.67
19417140--19417178	19	2.1	19	90	0	60	35	7	7	48	1.61
19417257--19417288	16	2.0	16	93	0	55	53	0	0	46	1.00
19417812--19417840	15	1.9	15	100	0	58	13	0	37	48	1.43
19418013--19418086	36	1.9	37	84	10	96	59	0	2	37	1.12
19419169--19419212	23	2.0	22	82	13	54	45	13	4	36	1.64
19419291--19419330	21	1.9	21	89	0	62	5	17	47	30	1.69
19419291--19419337	21	2.2	21	84	0	58	4	23	44	27	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19419592--19419635	18	2.4	18	80	0	52	50	6	25	18	1.71
19420283--19420311	7	4.1	7	100	0	58	58	13	0	27	1.36
19420477--19420514	20	1.9	20	84	10	51	55	7	2	34	1.43
19421341--19421607	134	2.0	133	92	2	446	44	9	11	34	1.74
19421637--19421689	22	2.4	21	82	14	63	47	0	32	20	1.51
19421637--19421698	11	5.5	11	78	16	56	46	0	30	22	1.52
19421838--19422001	41	4.0	41	100	0	328	19	26	26	26	1.99
19422363--19422393	9	3.4	9	90	0	53	25	12	22	38	1.90
19423579--19423608	13	2.3	13	94	0	51	23	3	0	73	0.98
19424264--19424297	18	2.0	18	88	11	54	29	5	5	58	1.45
19426087--19426226	72	1.9	72	83	0	181	25	13	16	44	1.84
19432317--19432362	22	2.1	22	84	8	58	39	13	6	41	1.70
19435548--19435586	18	2.2	18	100	0	78	30	33	15	20	1.94
19440177--19440292	25	4.7	25	78	13	107	17	24	19	38	1.93
19440204--19440318	49	2.3	50	79	10	128	20	24	17	38	1.93
19440278--19440368	25	3.6	26	80	10	100	21	27	15	35	1.94
19440328--19440412	25	3.4	24	75	12	73	23	24	18	32	1.97
19445057--19445436	27	14.0	27	79	4	291	44	18	16	20	1.86
19445058--19445431	81	4.6	80	77	6	344	44	17	16	20	1.86
19445625--19445686	26	2.4	26	83	5	72	19	20	19	40	1.92
19446344--19446386	20	2.2	20	91	0	68	46	11	13	27	1.78
19448065--19448177	40	2.8	41	79	2	120	24	25	14	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19450146--19450183	18	2.1	19	85	5	51	57	10	0	31	1.32
19454572--19454627	24	2.5	23	88	8	80	39	1	0	58	1.08
19455235--19455276	20	2.2	20	82	4	50	45	4	0	50	1.23
19456509--19456555	24	2.0	23	83	4	58	53	10	0	36	1.36
19457343--19457387	22	2.0	23	95	4	83	31	42	0	26	1.56
19457411--19457464	11	4.8	11	81	2	54	25	27	1	44	1.64
19459878--19459915	20	1.9	20	88	0	58	44	26	2	26	1.67
19459913--19460053	22	6.3	22	71	18	85	42	30	0	26	1.60
19463088--19463532	126	3.5	126	86	3	592	28	22	16	31	1.96
19463649--19463699	9	6.2	9	82	13	58	52	33	0	13	1.41
19463675--19463704	15	2.0	15	93	0	51	50	36	0	13	1.42
19466295--19466363	34	2.1	34	83	2	86	33	8	15	42	1.78
19478995--19479029	14	2.5	14	90	9	54	48	8	5	37	1.58
19490323--19490423	43	2.4	43	86	5	134	36	10	30	21	1.88
19491800--19491826	13	2.1	13	100	0	54	25	0	0	74	0.83
19503726--19503781	6	9.3	6	88	0	67	16	26	0	57	1.39
19503722--19503781	12	4.9	12	87	2	84	15	26	0	58	1.37
19503726--19503781	18	3.1	18	84	0	76	16	26	0	57	1.39
19504758--19504795	17	2.2	17	95	0	67	28	10	13	47	1.76
19507763--19507856	6	14.7	6	71	12	62	23	7	11	57	1.59
19507757--19507801	18	2.5	18	88	0	63	24	6	8	60	1.51
19507757--19507815	24	2.5	24	83	10	84	23	6	8	61	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19507827--19507865	18	2.2	18	90	0	60	20	2	15	61	1.45
19507883--19507917	18	1.9	18	88	0	52	20	8	14	57	1.63
19507787--19507898	48	2.3	48	100	0	224	24	8	12	54	1.66
19510392--19510440	25	2.0	25	88	8	73	42	0	6	51	1.27
19511432--19511527	37	2.6	37	77	8	97	42	3	21	32	1.69
19517559--19517584	10	2.6	10	100	0	52	34	0	0	65	0.93
19518120--19518157	20	1.9	20	84	10	51	71	13	7	7	1.31
19526885--19526957	36	2.0	36	94	0	128	45	24	10	19	1.82
19527150--19527197	21	2.3	21	85	3	62	39	4	0	56	1.19
19527752--19527799	3	16.3	3	89	4	71	0	37	0	62	0.95
19532001--19532040	7	5.7	7	100	0	80	42	15	30	12	1.83
19532132--19532179	15	3.4	15	77	16	57	20	2	2	75	1.02
19532138--19532178	6	6.3	6	84	15	55	17	2	2	78	0.98
19548817--19548900	43	2.0	43	85	4	116	19	13	13	54	1.70
19555098--19556003	458	2.0	458	100	0	1812	39	21	13	26	1.90
19557070--19557280	27	7.8	27	79	5	185	23	14	18	43	1.87
19557084--19557280	54	3.6	54	81	0	232	23	14	19	43	1.87
19557085--19557316	54	4.3	54	78	7	213	23	15	17	43	1.87
19557084--19557316	81	2.9	80	78	8	256	23	15	18	43	1.87
19564670--19564753	28	2.8	32	78	17	90	23	23	26	26	2.00
19564698--19564758	28	2.2	28	91	2	97	27	22	26	22	1.99
19564875--19564946	26	2.8	26	84	0	90	40	18	20	20	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19565124--19565500	27	14.1	27	80	3	345	19	15	18	46	1.84
19572215--19572544	27	12.3	27	84	3	407	42	18	16	22	1.89
19575583--19575678	48	2.0	48	95	0	174	52	9	15	22	1.72
19575730--19575795	7	8.6	7	76	18	53	43	1	1	53	1.19
19575733--19575798	8	8.4	8	73	18	50	45	1	1	51	1.19
19575730--19575798	27	2.5	26	76	23	79	44	1	1	52	1.19
19575740--19575808	32	2.2	32	79	7	79	47	1	2	47	1.25
19575811--19575858	20	2.4	21	86	10	66	72	4	14	8	1.23
19577026--19577060	17	2.2	15	90	10	52	28	0	14	57	1.38
19582599--19582630	16	2.0	16	93	0	55	25	0	28	46	1.53

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