genome.fa.s9.2.7.7.80.10.50.1000.4.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: Scaffold9
Parameters: 2 7 7 80 10 50 1000
Length:  3883850

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   

This is table  4  of  24  ( 2830 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)
510334--510390	13	3.9	13	74	24	51	26	15	19	38	1.92
510314--510378	19	3.7	18	73	26	68	26	15	18	40	1.90
510313--510408	32	3.0	32	93	1	156	25	14	19	40	1.90
510816--510889	20	3.7	20	81	3	103	35	13	20	31	1.91
510834--510909	21	3.7	21	82	3	109	40	11	18	28	1.86
510816--510909	41	2.3	41	100	0	188	38	12	19	29	1.89
510948--510973	13	2.0	13	100	0	52	38	15	15	30	1.88
513187--513231	21	2.1	21	84	8	56	53	4	20	22	1.63
516667--516733	36	1.9	35	85	11	93	28	25	13	32	1.93
517182--517206	13	1.9	13	100	0	50	32	16	16	36	1.90
517913--517956	21	2.1	21	83	8	54	25	31	4	38	1.76
522339--522405	36	1.9	35	85	11	93	28	25	13	32	1.93
522854--522878	13	1.9	13	100	0	50	32	16	16	36	1.90
531620--531685	1	66.0	1	75	0	60	87	9	3	0	0.63
531621--531683	18	3.5	17	85	14	83	87	9	3	0	0.65
531620--531685	10	6.8	10	80	11	75	87	9	3	0	0.63
532654--533497	61	14.4	60	85	7	996	25	29	20	24	1.99
532658--533497	232	3.6	231	88	3	1130	25	29	20	24	1.99
534105--534148	14	3.0	16	81	18	60	72	0	0	27	0.85
534250--534344	19	5.7	18	71	27	84	30	12	17	38	1.87
534268--534326	13	4.1	13	76	23	64	30	13	16	38	1.88
534250--534352	32	3.2	32	95	0	179	30	12	18	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
536576--536613	11	3.2	12	85	14	60	34	15	13	36	1.87
536577--536613	13	3.0	13	88	11	60	32	16	13	37	1.87
540546--540695	61	2.5	60	90	4	221	24	29	19	27	1.98
540596--540778	94	1.9	93	83	9	233	25	30	18	25	1.98
540696--541057	55	6.5	55	83	5	449	27	28	21	23	1.99
540929--541014	28	3.1	28	63	6	66	29	20	22	27	1.99
540725--541057	172	1.9	170	87	2	479	27	28	21	23	1.99
540696--541057	116	3.2	109	84	6	456	27	28	21	23	1.99
541100--541338	61	3.9	63	81	5	294	25	26	19	28	1.99
540630--541344	375	1.9	368	85	5	923	25	27	20	26	1.99
541315--541480	42	3.9	42	77	4	170	21	25	13	39	1.90
541516--541615	42	2.4	42	78	8	107	19	29	11	41	1.85
542331--542368	11	3.2	12	85	14	60	34	15	13	36	1.87
542332--542368	13	3.0	13	88	11	60	32	16	13	37	1.87
542332--542389	20	2.7	21	86	10	73	29	18	13	37	1.90
545686--545747	11	5.2	12	85	14	92	33	16	12	37	1.87
545687--545747	13	5.0	13	86	13	94	32	16	13	37	1.87
545687--545767	24	3.5	24	88	9	125	30	17	13	38	1.88
548089--548270	51	3.6	51	87	3	267	30	24	10	34	1.89
548257--548328	28	2.6	28	89	8	103	23	30	22	23	1.99
548285--548487	79	2.6	79	93	0	343	24	30	17	28	1.97
548442--548516	28	2.7	28	93	0	123	20	30	22	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
548472--548646	78	2.2	79	85	3	228	26	24	16	33	1.96
556438--556562	48	2.6	48	87	0	169	40	13	24	21	1.90
556794--556965	90	1.9	91	90	3	276	29	12	28	29	1.93
558374--558404	11	2.7	11	95	5	53	0	12	0	87	0.55
558663--558711	25	2.0	24	88	7	73	10	20	0	69	1.17
565249--565288	13	3.1	13	85	0	62	32	12	15	40	1.84
567792--567879	20	4.8	19	72	18	71	36	13	15	34	1.87
567821--567879	19	3.1	19	82	2	73	35	15	15	33	1.89
567772--567876	52	2.0	53	88	5	160	33	14	15	37	1.87
567923--567955	13	2.6	13	95	4	59	39	15	15	30	1.88
567909--567971	33	1.9	33	87	6	92	38	15	15	30	1.89
572108--572660	157	3.5	158	80	3	514	40	19	16	23	1.91
574416--574460	10	4.5	10	83	8	56	0	17	0	82	0.68
574416--574462	11	4.4	11	78	5	51	0	17	0	82	0.66
574773--575019	122	2.0	124	93	1	426	56	10	6	25	1.59
575160--575881	165	4.4	163	78	8	622	53	8	11	26	1.65
575229--575881	331	2.0	335	85	3	888	54	7	11	26	1.63
575229--575869	166	3.9	168	82	4	721	54	7	10	26	1.62
579515--579741	83	2.7	82	81	5	249	32	25	12	29	1.93
580452--580823	44	8.4	43	72	16	219	19	20	16	42	1.89
580492--580830	88	3.9	86	73	13	271	19	21	15	42	1.89
583970--583995	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584055--584127	20	3.6	20	81	3	101	31	19	13	35	1.91
584034--584127	41	2.3	41	96	0	170	30	18	12	38	1.88
584034--584109	21	3.7	21	78	3	91	30	17	11	40	1.85
586552--586578	13	2.1	13	100	0	54	29	14	14	40	1.86
586533--586597	32	2.0	32	87	3	94	27	16	15	40	1.89
586562--586619	19	2.9	19	82	5	71	34	15	15	34	1.89
586651--586713	32	2.0	31	87	12	92	38	12	15	33	1.86
592861--592885	13	1.9	13	100	0	50	36	16	16	32	1.90
594072--594113	19	2.3	18	88	8	59	38	0	38	23	1.55
594047--594176	65	2.0	65	93	0	224	40	2	26	31	1.69
594737--594763	13	2.1	13	100	0	54	29	14	14	40	1.86
594718--594782	32	2.0	32	90	3	103	27	16	15	40	1.89
594836--594898	32	2.0	31	87	12	92	38	12	15	33	1.86
602112--602144	2	16.5	2	100	0	66	48	0	0	51	1.00
604050--604091	2	21.0	2	100	0	84	0	50	0	50	1.00
605907--606004	31	3.2	31	100	0	196	29	6	24	39	1.79
606614--606657	2	22.0	2	100	0	88	50	0	0	50	1.00
607844--607908	27	2.5	28	72	20	68	33	4	0	61	1.16
610206--610245	16	2.6	16	85	14	57	60	0	0	40	0.97
610335--610365	11	2.8	11	95	0	53	58	0	0	41	0.98
610335--610365	16	1.9	16	93	0	53	58	0	0	41	0.98
611216--611278	16	4.0	16	81	2	65	44	1	11	42	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
611217--611299	16	5.2	16	75	7	62	48	2	10	38	1.51
611998--612040	2	22.0	2	95	4	79	48	0	0	51	1.00
613239--613297	17	3.5	17	81	2	57	40	27	20	11	1.87
613304--613351	16	3.0	16	76	11	53	33	22	22	20	1.97
617289--617839	166	3.3	163	79	9	485	30	11	10	47	1.73
622775--623040	96	2.8	96	85	5	324	36	11	21	30	1.89
625984--626051	33	2.1	32	88	2	100	33	14	16	35	1.89
626006--626031	13	2.0	13	100	0	52	38	15	15	30	1.88
626084--626134	20	2.5	20	90	0	75	31	15	13	39	1.87
626122--626150	13	2.2	13	100	0	58	37	13	17	31	1.89
626136--626186	20	2.5	20	87	0	66	33	15	15	35	1.90
626703--626747	22	2.0	22	91	8	74	35	28	0	35	1.58
628451--628491	22	2.0	21	86	13	59	41	4	21	31	1.74
628623--628660	13	2.9	13	88	0	58	31	15	15	36	1.90
630633--630705	20	3.6	20	81	3	101	35	13	19	31	1.91
630633--630727	41	2.3	42	94	1	165	38	12	17	30	1.87
630766--630791	13	2.0	13	100	0	52	38	15	15	30	1.88
634851--634881	15	2.1	15	100	0	62	51	16	19	12	1.76
636887--636965	20	3.7	21	75	15	72	26	13	15	44	1.84
636952--636990	13	3.0	13	96	0	69	30	17	15	35	1.91
638774--638820	23	2.0	23	100	0	94	31	4	12	51	1.59
639457--639529	20	3.6	20	81	3	101	35	13	19	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
639457--639551	41	2.3	42	94	1	165	38	12	17	30	1.87
639590--639615	13	2.0	13	100	0	52	38	15	15	30	1.88
640843--640876	18	1.9	17	94	5	59	17	14	20	47	1.83
641047--641089	21	2.0	22	90	4	70	55	0	4	39	1.20
643977--644010	16	2.1	16	100	0	68	76	0	5	17	0.98
644013--644069	21	2.7	21	97	0	105	33	10	19	36	1.86
644125--644192	19	3.9	19	76	21	76	36	11	13	38	1.81
644146--644170	13	1.9	13	100	0	50	36	16	16	32	1.90
644127--644189	32	2.0	32	93	0	108	36	12	14	36	1.84
644232--644257	13	2.0	13	100	0	52	30	15	15	38	1.88

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