genome.fa.s181.2.7.7.80.10.50.1000.5.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: Scaffold181
Parameters: 2 7 7 80 10 50 1000
Length:  968729

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 727 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)
507261--507289	13	2.1	14	93	6	51	27	24	13	34	1.93
507750--507796	24	2.0	24	84	15	64	38	14	10	36	1.81
508286--508349	18	3.7	18	69	12	53	60	1	0	37	1.06
508291--508380	33	2.8	32	74	14	76	56	1	0	42	1.06
508921--508974	22	2.5	24	77	20	64	37	0	0	62	0.95
510764--510792	3	9.7	3	100	0	58	0	0	68	31	0.89
511514--511551	2	19.0	2	100	0	76	50	0	0	50	1.00
511670--511715	23	2.0	23	100	0	92	13	26	13	47	1.78
511747--511847	20	5.1	20	71	16	75	39	0	0	60	0.97
511840--511884	23	1.9	24	90	4	74	22	0	6	71	1.09
513053--513091	2	19.5	2	89	0	60	51	5	0	43	1.24
514895--514931	18	2.1	18	100	0	74	16	24	10	48	1.77
518582--518623	21	1.9	21	90	9	66	54	11	7	26	1.62
518630--518795	20	7.8	20	70	14	116	41	13	14	30	1.84
518579--518806	91	2.5	90	86	2	312	44	12	14	28	1.81
522428--522469	22	1.9	22	90	0	66	54	0	2	42	1.13
523082--523172	34	2.7	35	86	3	123	31	16	10	40	1.83
523740--523832	20	4.6	20	79	14	77	30	8	16	45	1.77
524202--524244	22	2.0	22	85	0	59	25	2	9	62	1.37
525395--525445	18	2.5	21	75	21	54	37	1	1	58	1.20
525402--525442	18	2.2	19	86	8	57	39	2	2	56	1.26
527729--527797	28	2.4	30	76	11	72	55	1	0	43	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
528611--528644	13	2.7	13	90	4	52	41	0	0	58	0.98
531517--531563	14	3.4	14	74	14	53	68	4	0	27	1.08
531678--531702	3	8.3	3	100	0	50	32	0	0	68	0.90
531743--531808	21	3.0	21	82	4	78	42	1	3	53	1.25
532289--532353	33	1.9	32	81	9	76	46	1	0	52	1.10
533087--533120	14	2.4	14	95	0	59	67	0	0	32	0.91
533164--533213	8	5.9	9	79	13	52	34	0	0	66	0.92
533579--533632	26	2.2	26	83	6	67	50	3	5	40	1.44
533617--533661	16	2.6	18	83	16	60	64	0	0	35	0.94
534630--534672	17	2.5	17	88	0	59	51	0	4	44	1.22
542008--542048	18	2.3	18	86	0	55	48	0	0	51	1.00
542038--542080	23	1.9	22	85	4	59	39	2	0	58	1.11
542843--542875	14	2.4	14	94	0	57	15	15	21	48	1.81
543638--543690	27	2.0	27	92	0	88	30	13	16	39	1.87
545637--545663	13	2.1	13	100	0	54	33	14	7	44	1.73
550308--550354	2	23.5	2	95	0	85	51	2	0	46	1.13
551864--551907	22	1.9	23	86	9	63	68	0	2	29	1.02
551889--551924	15	2.5	14	86	4	54	61	0	0	38	0.96
554970--555018	14	3.2	14	76	20	53	53	0	0	46	1.00
559125--559169	22	2.0	22	87	8	65	57	0	0	42	0.98
559375--559419	24	1.9	24	86	4	65	48	0	0	51	1.00
559383--559425	16	2.7	16	82	10	52	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559372--559426	23	2.4	23	81	6	67	50	0	0	49	1.00
560859--561014	34	4.7	33	83	3	195	43	23	6	26	1.77
565420--565534	34	3.4	34	86	1	151	44	20	5	29	1.73
571532--571558	2	13.5	2	100	0	54	48	0	0	51	1.00
571971--572009	2	19.5	2	100	0	78	0	48	0	51	1.00
576449--576482	2	17.0	2	87	0	50	50	5	0	44	1.26
579244--579284	13	3.0	13	89	7	55	58	4	0	36	1.20
579461--579485	2	12.5	2	100	0	50	48	0	0	52	1.00
581250--581306	22	2.7	21	84	13	64	50	3	1	43	1.29
581298--581342	18	2.4	19	85	14	67	66	0	0	33	0.92
582718--582773	29	1.9	29	85	0	76	51	0	0	48	1.00
583790--583818	2	14.5	2	100	0	58	48	0	0	51	1.00
585050--585091	22	1.9	22	90	9	68	38	0	0	61	0.96
585060--585116	28	2.0	29	83	10	73	43	0	0	56	0.99
585012--585124	28	4.1	28	65	20	67	43	0	0	56	0.99
585791--585817	4	6.8	4	100	0	54	22	0	0	77	0.76
588716--588753	2	19.0	2	94	0	67	50	2	0	47	1.15
602126--602189	29	2.2	29	85	0	83	46	3	1	48	1.27
602816--602855	17	2.5	17	88	8	57	25	2	7	65	1.32
603326--603377	22	2.2	24	80	6	63	44	1	0	53	1.11
603573--603608	18	2.0	18	94	0	63	38	13	0	47	1.44
605704--605790	44	2.0	44	84	6	115	48	20	2	28	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
612255--612292	3	12.7	3	94	0	67	28	0	2	68	1.03
616087--616121	2	17.5	2	93	0	61	45	0	2	51	1.16
617566--617598	2	17.0	2	93	6	59	51	0	0	48	1.00
617782--617831	26	2.0	25	88	4	73	50	0	2	48	1.12
620650--620680	12	2.6	12	89	0	53	6	35	16	41	1.74
621326--621399	25	3.1	23	74	14	71	56	0	1	41	1.07
621319--621430	30	3.2	36	69	23	89	57	0	0	41	1.05
621352--621428	32	2.5	31	75	12	61	57	0	1	41	1.07
624124--624163	15	2.5	16	88	8	55	57	0	0	42	0.98
624124--624166	16	2.6	17	85	10	63	55	0	0	44	0.99
626048--626077	2	15.0	2	100	0	60	50	0	0	50	1.00
630993--631029	17	2.2	17	90	0	56	43	0	5	51	1.24
634485--634855	50	7.4	49	81	4	352	33	13	19	33	1.91
634485--634855	100	3.7	98	83	2	409	33	13	19	33	1.91
634516--634837	150	2.1	151	85	3	443	34	14	19	32	1.91
636104--636137	13	2.6	13	90	0	50	32	14	20	32	1.93
636696--636857	51	3.2	51	87	3	222	30	16	20	32	1.95
636723--636879	51	3.1	49	82	9	183	31	16	19	31	1.94
641702--641761	18	3.2	18	75	15	59	61	0	3	35	1.12
643520--643552	15	2.2	15	100	0	66	33	0	18	48	1.48
644686--644834	34	4.4	34	81	0	156	43	24	7	24	1.79
644686--644834	68	2.2	68	85	1	192	43	24	7	24	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
648313--648672	179	2.0	179	99	0	711	25	15	20	38	1.92
649367--649513	34	4.3	34	79	1	159	44	22	5	27	1.74
649819--649854	2	18.0	2	94	0	63	47	0	0	52	1.00
658101--658309	50	4.2	50	91	0	337	30	20	19	30	1.97
662705--662899	50	3.9	50	91	2	320	29	21	18	30	1.97
665464--665527	16	3.9	16	86	8	76	59	4	0	35	1.18
665475--665530	17	3.4	16	74	20	53	62	1	0	35	1.06
665687--665730	3	14.7	3	80	0	52	29	63	2	4	1.26
665672--665719	15	3.2	15	84	0	51	29	62	4	4	1.32
666269--666335	32	2.1	33	85	2	91	31	17	10	40	1.84
669194--669229	18	1.9	19	94	5	65	41	0	0	58	0.98
669267--669308	22	1.9	22	85	9	59	57	0	2	40	1.12
669439--669522	37	2.3	36	82	10	109	64	1	0	34	1.02
669448--669513	29	2.3	29	78	17	84	60	1	0	37	1.06
669678--669746	27	2.6	27	85	0	93	26	5	20	47	1.72
669828--669860	13	2.6	13	85	4	50	18	45	6	30	1.73
674238--674305	27	2.5	27	82	0	73	30	7	13	48	1.69
678988--679014	2	13.5	2	100	0	54	0	51	0	48	1.00
685594--685630	19	2.0	18	89	5	56	62	0	0	37	0.96
685677--685720	21	2.2	19	84	15	54	61	0	0	38	0.96
685729--685762	17	2.0	17	88	0	50	52	5	2	38	1.41
698865--698895	16	1.9	16	100	0	62	38	19	12	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
701416--701452	18	2.0	19	89	5	58	51	0	2	45	1.15
702120--702174	29	1.9	28	85	3	74	50	10	9	29	1.68
704818--704861	21	2.1	21	82	0	52	36	2	22	38	1.67
706745--706801	24	2.5	22	78	13	62	42	0	1	56	1.10
706754--706798	16	2.9	15	80	9	54	46	0	0	53	1.00
707629--707705	37	2.1	36	81	13	88	38	2	1	57	1.21
707724--707761	14	2.6	15	83	8	60	36	0	2	60	1.11
709258--709292	18	1.9	18	88	0	52	45	25	17	11	1.81
710132--710168	2	18.5	2	100	0	74	51	0	0	48	1.00
717863--717919	20	3.0	20	87	5	73	70	7	3	19	1.26

Tables:   1   2   3   4   5   6   7