genome.fa.s39.2.7.7.80.10.50.1000.3.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: scaffold165.1
Parameters: 2 7 7 80 10 50 1000
Length:  1724686

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 876 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)
496460--496488	15	1.9	15	100	0	58	20	0	3	75	0.94
496495--496532	13	3.1	13	81	11	53	57	0	0	42	0.98
496511--496553	11	4.1	11	79	11	54	60	0	0	39	0.97
496514--496554	17	2.2	17	87	12	55	58	0	0	41	0.98
496509--496547	20	2.0	20	95	5	71	58	0	0	41	0.98
499260--499292	6	5.7	6	96	3	59	69	0	30	0	0.88
501400--501458	30	1.9	31	86	6	84	54	0	0	45	0.99
507770--507812	22	2.0	22	86	13	63	46	0	2	51	1.13
525973--526115	77	1.9	77	85	2	198	42	28	13	15	1.84
526166--526203	16	2.4	16	86	0	58	47	13	13	26	1.79
532470--532517	25	2.0	24	88	12	71	29	20	2	47	1.61
543378--543469	45	2.0	45	97	0	175	26	4	41	28	1.74
549131--549195	27	2.4	28	94	2	114	41	10	0	47	1.38
550457--550509	27	2.0	27	92	0	88	13	32	20	33	1.91
550460--550518	27	2.2	27	84	0	73	13	28	25	32	1.94
550570--550633	26	2.4	28	94	5	114	45	0	9	45	1.36
553627--553786	46	3.5	46	99	0	311	34	14	22	28	1.93
553749--553894	37	4.0	37	92	1	233	36	16	21	25	1.94
554493--554714	115	1.9	115	93	0	381	16	25	18	40	1.91
555843--555871	12	2.3	13	94	5	51	55	17	0	27	1.42
558648--558722	39	1.9	39	94	0	132	24	9	1	65	1.30
567239--567279	21	1.9	22	85	5	57	24	7	2	65	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
568856--568910	21	2.6	21	88	0	83	23	9	38	29	1.85
572756--573102	30	11.8	30	82	11	432	39	9	0	50	1.40
572768--573102	56	5.8	56	83	10	374	39	10	0	49	1.41
572945--572998	25	2.2	24	100	0	90	44	11	0	44	1.39
573137--573171	15	2.3	15	90	0	52	8	54	2	34	1.46
573207--573306	28	3.4	28	70	15	94	11	51	6	32	1.62
573118--573336	118	1.9	117	94	2	386	14	48	4	32	1.63
573291--573352	6	10.2	6	81	8	72	19	45	1	33	1.60
573291--573352	13	4.5	13	77	18	72	19	45	1	33	1.60
573152--573331	60	3.0	60	76	14	219	14	49	5	31	1.65
575861--575922	21	3.0	20	77	9	63	53	14	27	4	1.61
575883--575919	19	1.9	19	88	0	56	51	16	27	5	1.66
583932--584049	33	3.6	33	98	0	227	37	27	19	15	1.92
586468--586505	19	2.0	20	85	15	53	15	15	0	68	1.22
587893--588749	481	1.8	470	92	3	1437	34	16	11	37	1.85
591614--591837	61	3.7	61	90	0	322	31	20	19	28	1.97
609589--609623	17	2.0	18	94	5	63	22	0	2	74	0.95
609683--609742	18	3.5	18	76	15	56	31	3	0	65	1.09
613062--613097	6	6.0	6	87	12	56	19	50	0	30	1.48
613375--613416	16	2.6	16	85	10	59	26	7	7	59	1.50
615313--615371	20	3.0	19	78	7	64	40	0	3	55	1.16
616956--616993	2	19.0	2	100	0	76	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)
618626--618688	27	2.3	28	86	8	85	58	3	0	38	1.14
618626--618688	28	2.3	27	86	8	83	58	3	0	38	1.14
618685--618737	20	2.6	20	74	11	54	54	0	0	45	0.99
625037--625077	14	2.8	15	82	17	59	43	0	2	53	1.13
630027--630064	20	1.9	20	88	0	58	31	26	26	15	1.96
631537--631594	29	1.9	31	82	6	75	44	5	8	41	1.57
632710--632751	20	2.0	21	86	4	59	66	2	0	30	1.04
632761--632799	19	2.1	19	85	9	53	53	0	2	43	1.14
632758--632804	25	2.0	23	83	8	58	53	2	2	42	1.25
633860--633886	14	1.9	14	100	0	54	29	0	25	44	1.54
633813--633886	21	3.5	21	63	7	51	25	4	28	41	1.73
634379--634417	19	2.0	19	85	5	51	38	20	2	38	1.66
641526--641550	11	2.3	11	100	0	50	32	0	0	68	0.90
650683--650722	20	2.0	20	90	0	62	42	12	32	12	1.80
650897--650953	28	2.0	28	96	0	105	38	7	12	42	1.70
660276--660310	19	1.9	19	88	11	56	60	2	0	37	1.12
661571--661595	12	2.1	12	100	0	50	44	32	16	8	1.76
663096--663140	3	15.0	3	80	0	54	33	24	42	0	1.55
663096--663140	15	3.0	15	96	0	81	33	24	42	0	1.55
663892--663921	16	1.9	16	93	6	53	56	0	0	43	0.99
666347--666386	20	2.0	20	85	0	53	30	2	0	67	1.04
667912--668213	133	2.3	133	82	5	351	38	21	17	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
673250--673292	22	1.9	23	85	4	61	39	0	0	60	0.97
677922--677959	17	2.2	17	90	0	58	50	0	2	47	1.15
678499--679128	315	2.0	315	99	0	1251	36	14	15	33	1.88
679183--679221	20	1.9	21	89	5	62	43	5	20	30	1.73
680790--680867	28	2.8	27	75	14	68	56	1	2	39	1.21
684277--684305	4	7.2	4	100	0	58	24	0	24	51	1.48
686502--686526	12	2.1	12	100	0	50	24	0	8	68	1.16
690532--690608	36	2.2	36	88	4	113	33	27	7	31	1.85
693862--693911	3	16.3	3	91	4	82	2	30	0	68	1.01
696364--696415	24	2.2	24	89	0	77	55	9	1	32	1.43
698334--698385	24	2.2	24	89	0	77	55	9	1	32	1.43
700304--700355	24	2.2	24	89	0	77	55	9	1	32	1.43
702274--702325	24	2.2	24	89	0	77	55	9	1	32	1.43
706841--706873	3	11.0	3	100	0	66	0	33	0	66	0.92
707471--707532	28	2.2	28	91	5	99	50	4	3	41	1.40
707471--707519	14	3.3	16	72	16	52	48	6	4	40	1.47
707513--707546	16	2.1	16	88	0	50	50	2	0	47	1.16
707487--707567	42	1.9	43	85	7	112	46	4	2	45	1.37
709676--709844	69	2.5	66	78	8	176	18	23	11	47	1.80
713909--713943	18	1.9	18	88	0	52	54	2	2	40	1.30
713933--713990	28	2.1	27	84	9	73	44	3	0	51	1.18
713933--713996	27	2.3	28	81	7	78	46	4	0	48	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
722319--722375	27	2.1	27	96	0	105	29	17	19	33	1.95
722326--722388	27	2.3	27	91	0	99	36	15	14	33	1.88
725689--725726	19	2.0	19	94	0	67	36	13	15	34	1.87
750702--750727	7	3.7	7	100	0	52	11	46	15	26	1.80
751731--751777	23	2.0	23	100	0	94	38	31	21	8	1.83
758935--758976	22	2.0	21	85	4	57	23	26	4	45	1.73
759143--759265	40	3.1	40	73	8	126	35	23	15	25	1.94
759842--759877	18	1.9	19	88	5	56	33	22	0	44	1.53
760154--760207	21	2.5	22	85	8	76	5	25	1	66	1.23
760254--760339	38	2.3	38	82	8	104	44	4	2	48	1.36
760729--761056	175	1.9	174	80	1	388	37	17	15	28	1.91
764062--764108	23	2.0	23	91	0	76	42	4	10	42	1.59
764219--764258	13	3.2	13	85	3	55	70	0	30	0	0.88
765120--765224	25	4.3	25	86	3	126	20	22	19	37	1.95
765132--765248	22	5.0	22	80	7	99	20	23	17	37	1.94
767514--767543	7	4.3	7	100	0	60	30	0	26	43	1.55
768521--768598	25	3.2	25	78	8	79	34	19	26	19	1.95
768536--768614	24	3.2	24	74	15	72	31	18	27	21	1.97
769791--770152	176	2.1	176	99	0	715	26	18	9	44	1.81
779087--779113	5	5.4	5	100	0	54	37	22	18	22	1.95
779882--779918	9	4.1	9	92	0	65	29	10	13	45	1.77
793582--793623	22	1.9	22	90	0	66	9	7	14	69	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
794367--794397	8	3.9	8	91	0	53	51	0	0	48	1.00
795456--795522	22	3.0	22	76	8	64	62	1	1	34	1.13
795969--796009	22	2.0	20	85	9	55	63	0	0	36	0.95
805924--806148	117	1.9	118	84	3	301	32	16	17	32	1.93
806737--806783	24	2.0	24	95	0	85	31	12	4	51	1.59
810281--810322	21	2.0	21	95	0	75	14	26	14	45	1.83
818574--818606	17	1.9	17	93	0	57	42	6	3	48	1.43
824694--824756	29	2.2	29	82	5	74	39	1	1	57	1.18
824692--824757	28	2.3	29	74	5	73	42	1	1	54	1.18
825523--825584	32	1.9	32	86	0	88	43	6	22	27	1.77

Tables:   1   2   3   4   5   6   7   8