genome.fa.s72.2.7.7.80.10.50.1000.5.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: Scaffold72
Parameters: 2 7 7 80 10 50 1000
Length:  5928628

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   

This is table  5  of  39  ( 4596 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)
551370--551498	52	2.5	52	93	0	231	27	17	17	36	1.93
551549--551611	19	3.7	18	76	24	73	36	17	12	33	1.88
551542--551622	32	2.5	32	97	0	153	35	16	13	34	1.88
551568--551622	13	3.8	13	75	25	56	32	16	14	36	1.89
554162--554203	15	2.8	16	82	10	61	30	16	2	50	1.58
555971--555996	13	2.0	13	100	0	52	38	15	15	30	1.88
555953--556016	32	2.0	33	90	3	103	39	18	14	28	1.90
557612--557653	21	2.0	21	85	0	57	42	4	28	23	1.74
558039--558199	84	1.9	84	80	9	186	53	3	17	25	1.60
559725--559749	13	1.9	13	100	0	50	36	16	16	32	1.90
561512--561563	19	2.7	20	87	6	79	38	19	13	28	1.89
562001--562067	37	1.9	35	88	11	102	32	11	25	29	1.92
562992--563021	13	2.3	13	100	0	60	36	13	16	33	1.88
562969--563036	33	2.1	33	86	5	93	32	20	13	33	1.91
566237--566288	12	4.6	12	78	21	51	51	0	0	48	1.00
566240--566288	22	2.3	22	82	10	66	51	0	0	48	1.00
566395--566517	20	6.5	19	71	21	71	49	3	3	43	1.34
566412--566479	30	2.3	30	87	5	95	52	1	2	42	1.25
566440--566515	22	3.5	22	85	0	98	51	2	2	43	1.29
566660--566981	105	3.1	104	81	7	395	37	2	6	53	1.40
566660--567011	52	6.8	52	81	7	407	37	2	5	54	1.37
568508--568599	42	2.1	45	90	6	145	35	2	4	57	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
568520--568619	42	2.3	42	83	6	112	35	2	5	58	1.31
568593--568767	54	3.3	52	80	9	180	37	2	5	54	1.35
568726--568835	35	3.1	35	86	0	157	46	1	5	46	1.36
569212--569260	23	2.1	23	81	7	55	44	0	0	55	0.99
570301--570331	2	15.5	2	100	0	62	51	0	0	48	1.00
573566--573592	2	13.5	2	100	0	54	51	0	0	48	1.00
573827--573856	12	2.5	12	94	0	51	90	0	10	0	0.47
573928--573961	12	2.8	12	90	0	50	41	0	8	50	1.34
574447--574495	24	2.0	24	84	7	64	46	0	0	53	1.00
574570--574623	2	29.0	2	75	14	53	46	5	0	48	1.25
574570--574630	21	2.8	20	80	11	68	47	4	0	47	1.23
574577--574632	27	2.0	28	89	3	87	48	3	0	48	1.19
574789--574874	43	2.0	42	86	2	118	32	9	1	56	1.38
575240--575324	36	2.3	37	92	6	138	28	8	3	60	1.42
575298--575364	24	2.8	25	69	13	59	40	4	1	53	1.30
581533--581585	13	4.5	13	73	26	64	37	16	13	32	1.88
581533--581602	33	2.1	33	89	10	108	37	18	14	30	1.90
581635--581685	19	2.6	20	81	6	68	37	15	13	33	1.87
581671--581697	13	2.1	13	100	0	54	40	14	14	29	1.86
584042--584084	21	2.0	22	86	4	61	51	0	20	27	1.48
584193--584231	13	3.0	13	84	0	60	38	10	15	35	1.81
590445--590500	19	2.9	19	86	2	76	37	17	14	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
594733--594767	15	2.3	15	90	0	52	25	28	2	42	1.69
596528--596554	13	2.1	13	100	0	54	40	14	14	29	1.86
608649--608908	52	5.0	52	79	3	272	36	15	23	24	1.93
608655--608908	104	2.4	103	81	5	305	37	15	22	24	1.93
608987--609421	31	13.7	31	77	6	282	22	14	30	32	1.94
609018--609422	64	6.4	62	76	4	279	23	14	29	32	1.95
608987--609216	127	1.8	126	80	0	280	21	14	30	34	1.93
608981--609422	189	2.3	189	82	3	485	22	14	30	32	1.94
609017--609422	97	4.3	93	77	6	285	23	14	29	32	1.95
609474--609530	30	1.9	30	92	0	96	24	8	36	29	1.86
609533--609738	31	6.5	31	76	13	177	37	12	25	24	1.90
609533--609750	33	6.8	32	79	10	214	36	12	26	24	1.91
609416--609746	64	5.1	64	77	9	262	35	11	27	25	1.91
609578--609762	98	1.9	97	80	7	214	34	13	27	24	1.93
609747--609844	30	3.3	30	76	9	92	28	15	30	25	1.96
611896--612201	165	1.9	165	86	4	440	49	7	12	30	1.68
612065--612309	129	1.9	130	86	4	352	51	7	11	30	1.65
612065--612337	129	2.1	129	83	5	329	49	8	11	30	1.68
612159--613629	487	3.0	487	98	0	2798	46	10	13	28	1.77
616027--616092	33	2.0	33	96	0	123	36	16	18	28	1.93
617500--617552	20	2.7	19	83	13	63	30	13	16	39	1.87
618658--618710	20	2.7	20	79	2	63	32	16	15	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
618760--618784	13	1.9	13	100	0	50	36	16	16	32	1.90
620380--620414	15	2.3	15	95	0	61	42	0	28	28	1.56
621681--621718	14	2.7	14	100	0	76	34	26	7	31	1.85
627410--627436	13	2.1	13	100	0	54	29	7	14	48	1.71
635589--635639	20	2.5	20	96	0	93	37	15	17	29	1.91
640116--641189	156	6.9	157	77	5	863	25	16	19	39	1.92
640141--641055	314	2.9	307	80	6	968	25	15	19	38	1.92
644804--644908	6	17.5	6	73	13	83	77	1	17	3	1.01
644794--644861	35	1.9	35	93	0	118	85	1	13	0	0.67
644798--644908	11	9.3	12	72	20	65	77	2	16	3	1.02
645146--645170	10	2.5	10	100	0	50	84	0	8	8	0.79
645488--645588	53	1.9	53	84	8	134	26	20	17	34	1.95
648602--648626	13	1.9	13	100	0	50	36	16	16	32	1.90
648688--648712	13	1.9	13	100	0	50	32	16	16	36	1.90
648701--648849	52	2.9	51	87	4	217	32	18	18	31	1.94
653916--653954	13	3.0	13	92	0	69	35	17	15	30	1.91
653990--654046	21	2.6	22	86	5	89	36	8	22	31	1.85
654088--654275	53	3.6	53	97	0	351	27	18	18	36	1.94
654247--654315	20	3.5	20	77	14	74	30	13	15	40	1.86
654355--654395	21	2.0	21	85	9	57	39	9	12	39	1.76
657985--658012	13	2.2	13	100	0	56	39	17	14	28	1.89
657967--658032	33	2.0	33	85	5	89	42	13	13	30	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
658413--658579	90	1.9	90	89	0	262	28	28	13	29	1.94
658825--659264	48	9.1	48	85	2	542	18	20	17	43	1.88
658825--659264	97	4.6	97	84	4	543	18	20	17	43	1.88
658828--659264	145	3.0	144	84	2	563	17	20	17	44	1.87
659522--660001	42	11.4	41	72	9	223	18	28	18	33	1.95
659522--660001	84	5.7	84	75	3	311	18	28	18	33	1.95
659601--660001	127	3.2	127	77	4	344	19	29	18	32	1.96
659711--659917	85	2.5	85	77	1	211	18	29	18	32	1.96
661235--661286	17	3.0	16	88	11	68	26	3	0	69	1.06
661235--661298	18	3.6	17	81	14	67	28	3	0	68	1.04
663514--664195	309	2.2	310	80	4	759	24	16	20	38	1.92
663479--664275	155	5.1	155	80	3	723	24	16	20	38	1.93
665059--665088	15	2.0	15	100	0	60	33	6	26	33	1.83
667046--667088	20	2.1	20	82	4	50	9	27	44	18	1.80
667519--667557	13	3.0	13	92	0	60	35	12	17	33	1.88
669750--669775	13	2.0	13	100	0	52	30	15	15	38	1.88
669730--669793	32	2.0	33	90	3	103	28	14	15	42	1.86
672712--672765	20	2.7	20	82	8	65	35	11	22	31	1.89
672806--672923	52	2.3	53	83	2	150	28	15	14	41	1.86
683259--683314	25	2.2	26	79	20	66	64	0	3	32	1.11
683738--683906	72	2.3	72	86	4	243	44	15	24	15	1.85
683937--684129	83	2.4	83	82	2	248	42	12	22	22	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
684411--684476	23	3.0	23	88	4	100	65	22	7	4	1.37
685859--686795	153	6.1	152	81	6	1027	25	17	18	38	1.93
685859--686795	307	3.1	303	84	4	1213	25	17	18	38	1.93
685763--686792	460	2.2	459	84	5	1269	25	16	19	38	1.92
687464--687555	48	1.9	48	84	4	123	11	18	32	36	1.87
687522--687649	32	4.0	31	79	6	130	7	14	33	43	1.75
687480--687649	48	3.5	48	77	10	150	10	15	31	42	1.80
687469--687649	16	11.3	17	75	9	105	9	16	32	41	1.80
687761--687816	29	1.9	29	82	7	69	35	1	1	60	1.17
687843--687882	18	2.2	18	86	8	55	50	2	2	45	1.28

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