genome.fa.s249.2.7.7.80.10.50.1000.3.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: Scaffold249
Parameters: 2 7 7 80 10 50 1000
Length:  858763

Tables:   1   2   3   4   

This is table  3  of  4  ( 466 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)
464869--464937	27	2.5	27	83	6	77	24	7	21	46	1.77
466389--466423	13	2.7	13	100	0	70	45	0	5	48	1.26
471197--471275	41	1.9	41	89	0	122	13	20	13	51	1.75
478061--478107	18	2.6	18	83	6	51	36	0	4	59	1.17
478071--478107	18	2.0	18	89	5	56	37	0	2	59	1.12
478119--478167	24	2.0	24	92	7	82	36	0	0	63	0.95
478212--478254	22	1.9	23	86	13	63	58	4	0	37	1.19
479089--479124	19	1.9	19	88	5	56	58	0	0	41	0.98
479428--479493	32	2.1	32	82	5	80	60	3	0	36	1.12
481029--481056	4	7.0	4	100	0	56	75	0	0	25	0.81
481162--481265	48	2.1	49	84	5	131	48	1	0	50	1.12
481231--481298	36	1.9	37	82	14	90	52	1	0	45	1.09
481206--481295	17	5.4	17	70	13	62	51	1	0	47	1.08
481338--481376	19	2.1	18	85	4	51	58	0	0	41	0.98
483801--483853	18	3.0	17	81	8	70	39	0	0	60	0.97
490411--490449	4	9.8	4	100	0	78	0	23	0	76	0.78
496086--499520	688	5.0	688	99	0	6834	29	17	18	34	1.94
499634--499667	15	2.3	15	95	5	61	29	8	14	47	1.75
500864--500891	3	9.3	3	100	0	56	67	0	0	32	0.91
502153--502186	2	17.0	2	93	0	59	52	0	0	47	1.00
503126--503202	30	2.6	28	82	10	91	58	0	0	41	0.98
505264--505296	2	16.5	2	93	0	57	48	0	3	48	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
505978--506024	18	2.5	18	86	6	58	42	0	0	57	0.98
506004--506050	21	2.4	19	78	7	58	53	0	0	46	1.00
506587--506621	2	17.5	2	87	0	52	51	0	2	45	1.16
507684--507722	3	13.3	3	94	5	71	69	0	0	30	0.89
508544--508585	3	14.0	3	100	0	84	33	0	0	66	0.92
511240--511268	3	9.7	3	100	0	58	0	31	0	68	0.89
511759--511792	14	2.4	14	90	0	50	0	14	50	35	1.44
518830--518891	30	2.1	30	87	0	88	29	8	9	53	1.62
518837--518900	30	2.1	30	82	5	76	32	6	7	53	1.55
520989--521015	2	13.5	2	100	0	54	51	0	0	48	1.00
521693--521735	18	2.3	18	88	8	59	51	0	0	48	1.00
521659--521743	30	2.8	29	79	13	75	47	1	0	51	1.08
524293--524331	2	19.5	2	100	0	78	48	0	0	51	1.00
524911--524993	34	2.5	32	82	9	103	55	0	0	44	0.99
524911--524999	35	2.6	32	84	12	106	56	0	0	43	0.99
527647--527671	2	12.5	2	100	0	50	48	0	0	52	1.00
527974--528000	3	9.0	3	100	0	54	33	0	0	66	0.92
528906--528945	2	20.0	2	84	0	53	47	0	5	47	1.24
534077--534113	16	2.4	15	91	8	65	45	0	0	54	1.00
536495--536523	2	14.5	2	100	0	58	48	0	0	51	1.00
536590--536619	14	2.1	14	93	0	51	46	6	16	30	1.73
538980--539009	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
542784--542840	20	2.8	20	78	5	51	68	0	1	29	1.00
542786--542837	13	3.7	14	80	10	61	69	0	1	28	0.99
550242--550287	22	2.0	22	84	12	58	69	2	19	8	1.25
553580--553614	2	17.0	2	88	5	52	51	2	0	45	1.16
562011--562042	2	16.0	2	100	0	64	50	0	0	50	1.00
563511--563538	3	9.3	3	100	0	56	32	32	0	35	1.58
570847--570957	15	6.6	18	68	21	55	55	0	0	43	1.05
570864--570904	19	2.1	20	86	4	57	60	0	0	39	0.96
570828--570951	15	8.5	15	67	19	50	55	0	0	43	1.05
570883--570956	24	3.3	22	72	23	57	58	0	1	40	1.07
571360--571403	19	2.1	21	84	12	56	36	0	0	63	0.95
571360--571421	23	2.9	22	83	11	67	41	0	0	58	0.98
571635--571663	9	3.3	9	95	4	51	17	0	0	82	0.66
571633--571664	14	2.4	14	94	5	57	18	0	0	81	0.70
574814--574872	2	29.5	2	79	6	66	49	3	3	44	1.36
578141--578190	25	2.0	25	100	0	100	24	12	20	44	1.85
592859--592901	17	2.5	17	81	11	52	32	0	2	65	1.06
593397--593426	14	2.1	15	93	6	53	66	0	0	33	0.92
593927--593987	21	2.9	22	79	13	67	62	0	0	37	0.96
593943--593993	25	2.1	24	85	10	68	58	0	0	41	0.98
594100--594131	14	2.2	15	94	5	57	37	0	0	62	0.95
594197--594235	20	2.0	20	84	0	51	30	7	0	61	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
594256--594284	14	2.1	14	100	0	58	41	0	6	51	1.28
598537--598607	3	22.7	3	85	5	88	26	0	0	73	0.84
604430--604496	30	2.4	28	85	7	82	43	0	2	53	1.16
607621--607649	2	14.5	2	100	0	58	48	0	0	51	1.00
607690--607845	78	2.0	78	96	0	285	33	17	23	25	1.96
608752--608794	3	14.7	3	95	4	79	34	0	0	65	0.93
610239--610270	2	16.0	2	93	0	55	50	3	0	46	1.17
610746--610782	14	2.7	14	88	12	51	35	8	0	56	1.29
617050--617094	22	2.0	22	86	0	63	44	2	0	53	1.13
617050--617090	21	1.9	22	85	5	57	43	2	0	53	1.13
618251--618277	4	6.8	4	100	0	54	22	0	0	77	0.76
621240--621274	18	1.9	18	88	0	52	57	0	0	42	0.99
624386--624420	18	1.9	18	88	0	52	31	2	0	65	1.07
624370--624421	19	2.5	20	78	9	61	34	1	0	63	1.06
624385--624452	22	3.3	20	73	13	59	39	1	2	55	1.24
629616--629655	19	2.0	20	85	4	55	25	10	5	60	1.49
630831--630873	2	21.5	2	100	0	86	0	51	0	48	1.00
633479--633516	2	19.0	2	100	0	76	0	50	0	50	1.00
635622--635653	5	6.4	5	100	0	64	0	40	0	59	0.97
636452--636479	2	14.0	2	100	0	56	50	0	0	50	1.00
637174--637206	13	2.4	14	85	10	50	45	0	0	54	0.99
646459--646491	13	2.4	14	90	10	59	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
648673--648703	2	15.5	2	100	0	62	48	0	0	51	1.00
657149--657181	2	16.5	2	100	0	66	51	0	0	48	1.00
657935--657968	3	11.0	3	93	6	59	35	0	0	64	0.94
658068--658092	2	12.5	2	100	0	50	48	0	0	52	1.00
659053--659080	4	7.0	4	100	0	56	75	0	0	25	0.81
663425--663449	3	8.3	3	100	0	50	68	0	32	0	0.90
664058--664103	15	3.0	16	84	9	60	47	0	0	52	1.00
664054--664105	16	3.3	16	78	5	61	46	0	0	53	1.00
665707--665768	16	3.5	17	78	18	63	61	4	1	32	1.27
665671--665785	38	3.1	36	73	16	92	60	5	1	33	1.29
665749--665829	33	2.5	31	80	10	81	62	1	0	35	1.03
671846--671878	17	1.9	17	93	0	57	72	3	0	24	0.98
673267--673301	6	6.0	6	96	3	63	48	17	34	0	1.47
675302--675432	27	4.7	27	74	9	93	10	20	37	31	1.87
675314--675532	30	7.4	30	76	11	193	9	20	36	33	1.84
675313--675540	57	3.9	57	78	8	242	9	19	37	33	1.84
675339--675390	3	17.3	3	78	7	52	5	26	36	30	1.80
675446--675480	15	2.3	15	85	0	52	5	22	34	37	1.78
684201--684225	2	12.5	2	100	0	50	48	0	0	52	1.00
685634--685672	17	2.3	17	82	8	53	53	0	0	46	1.00
686765--686796	2	16.0	2	100	0	64	50	0	0	50	1.00
687087--687121	2	17.5	2	100	0	70	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
688610--688666	12	4.8	12	88	0	87	17	5	59	17	1.55
688610--688667	6	9.7	6	82	0	62	17	5	60	17	1.54
697801--697828	2	14.0	2	100	0	56	0	50	0	50	1.00
698101--698128	5	5.6	5	100	0	56	60	0	39	0	0.97
698668--698692	10	2.5	10	100	0	50	48	8	0	44	1.32
698859--698889	6	5.2	6	96	0	53	0	0	29	70	0.87
699528--699568	14	2.9	14	81	3	55	34	2	2	60	1.23
704908--704978	36	2.0	36	88	0	106	39	15	2	42	1.62
704907--705001	32	2.8	34	84	6	113	40	14	2	43	1.58
704912--705006	18	5.5	18	71	18	76	41	12	2	44	1.54

Tables:   1   2   3   4