genome.fa.s115.2.7.7.80.10.50.1000.5.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: Scaffold115
Parameters: 2 7 7 80 10 50 1000
Length:  1475684

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  5  of  10  ( 1122 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)
627344--627386	20	2.1	21	87	8	63	16	20	27	34	1.94
627423--627908	27	17.7	27	82	5	600	29	14	31	24	1.95
627423--627908	55	8.9	55	83	4	590	29	14	31	24	1.95
627423--627916	83	6.0	81	84	3	639	30	14	31	24	1.94
634053--634440	103	3.9	100	78	6	321	33	16	24	25	1.96
634049--634441	51	7.9	50	80	7	331	33	16	24	25	1.95
634322--634441	43	2.6	45	83	7	145	35	19	20	24	1.95
634207--634441	92	2.4	95	82	6	278	34	17	23	25	1.96
634461--634875	29	14.6	28	83	8	432	20	16	31	31	1.95
634444--634870	86	5.0	86	86	5	496	20	17	30	31	1.96
635235--635319	37	2.3	37	97	0	161	43	15	16	24	1.86
636323--636369	15	3.1	15	85	8	69	0	0	12	87	0.55
636323--636371	11	4.7	11	82	12	68	0	0	14	85	0.59
636322--636380	11	5.6	11	78	9	52	0	5	11	83	0.81
636323--636382	14	4.4	13	78	17	59	0	3	11	85	0.72
641966--643847	625	3.0	626	92	0	3185	21	16	27	34	1.95
647835--647885	22	2.2	24	83	13	63	43	13	1	41	1.55
652084--652178	30	3.2	30	79	5	111	30	17	4	47	1.67
653209--653368	84	1.9	84	85	5	225	31	4	20	43	1.71
653523--653564	22	1.9	22	85	9	59	38	2	0	59	1.10
658799--658926	62	2.1	62	95	0	229	26	21	21	30	1.98
665109--665230	48	2.5	48	89	0	181	36	17	26	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
665355--666028	28	23.1	28	80	9	565	23	16	30	29	1.96
665697--665871	64	2.7	64	90	0	269	19	16	30	33	1.93
665697--665871	96	1.8	96	85	2	244	19	16	30	33	1.93
665873--666356	27	17.8	27	79	11	289	28	14	32	25	1.94
666114--666158	22	2.0	22	100	0	90	24	8	44	22	1.81
666136--666333	28	7.1	28	86	3	276	28	13	33	24	1.93
665900--666326	82	5.3	81	83	5	501	28	13	33	25	1.94
667613--667685	23	3.3	22	70	18	62	8	12	8	71	1.31
667590--667686	45	2.2	45	82	12	112	7	12	8	72	1.28
672405--672472	27	2.5	27	95	0	118	20	13	41	25	1.88
673983--674033	16	3.0	16	77	13	50	50	1	3	43	1.31
674710--674751	14	3.0	15	83	13	54	38	0	0	61	0.96
675001--675056	20	2.9	19	82	10	69	48	0	0	51	1.00
674988--675042	18	2.9	18	81	10	58	47	1	0	50	1.11
675002--675100	32	3.2	32	73	11	89	42	0	0	57	0.98
675048--675099	23	2.2	24	80	10	63	38	0	0	61	0.96
675059--675105	22	2.2	22	81	14	62	31	0	0	68	0.90
675063--675105	21	2.0	21	86	8	61	32	0	0	67	0.91
675393--675432	2	20.0	2	94	0	71	47	0	0	52	1.00
677477--677682	79	2.6	79	79	6	229	30	24	8	36	1.86
677633--677743	51	2.1	52	87	9	156	28	21	8	41	1.82
677536--677810	129	2.1	129	84	6	351	30	21	10	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
677536--677810	130	2.1	130	84	6	353	30	21	10	38	1.86
677667--677859	78	2.5	78	81	0	242	28	21	12	37	1.90
678823--678876	21	2.7	20	83	13	67	29	16	16	37	1.91
681409--681445	13	2.8	13	91	0	65	35	13	18	32	1.90
683594--683648	27	2.0	27	100	0	110	41	18	3	36	1.68
687606--687674	34	2.1	32	86	10	95	33	17	15	33	1.92
687743--687767	13	1.9	13	100	0	50	36	16	16	32	1.90
687726--687788	33	1.9	32	87	3	90	30	15	20	33	1.94
689132--689491	162	2.3	150	80	9	388	38	13	11	36	1.80
689180--689511	162	2.1	161	84	5	431	40	12	10	36	1.77
690380--690415	14	2.6	14	100	0	72	13	0	41	44	1.44
690557--690582	13	2.0	13	100	0	52	30	15	15	38	1.88
690537--690600	32	2.0	33	87	3	94	28	15	17	39	1.90
691597--691640	23	1.9	23	86	9	63	13	18	2	65	1.36
691597--691670	22	3.4	21	81	9	60	9	17	2	70	1.26
692283--692593	164	1.9	166	84	6	427	53	8	9	28	1.64
692589--692628	16	2.5	16	100	0	80	57	0	10	32	1.32
692546--692869	171	1.9	169	83	5	422	55	7	10	26	1.59
696120--696145	13	2.0	13	100	0	52	30	15	15	38	1.88
696853--696896	21	2.1	21	83	8	54	25	31	4	38	1.76
700769--700799	15	2.1	15	93	0	53	12	22	16	48	1.80
702603--702647	21	2.1	21	84	8	56	22	20	4	53	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
704863--704888	13	2.0	13	100	0	52	30	15	15	38	1.88
711011--711074	8	7.5	8	73	13	56	20	1	4	73	1.09
711004--711080	17	4.4	17	70	15	59	20	1	3	74	1.06
711180--711229	26	1.9	26	84	8	66	46	0	0	54	1.00
711187--711240	13	4.2	13	70	25	51	42	0	0	57	0.98
712050--712078	2	14.5	2	100	0	58	51	0	0	48	1.00
712078--712108	2	15.5	2	100	0	62	51	0	48	0	1.00
714925--714964	21	1.9	21	84	0	53	47	0	0	52	1.00
715115--715179	33	1.9	33	84	9	87	63	4	0	32	1.15
716014--716056	16	2.8	16	86	13	63	46	13	6	32	1.71
717302--717389	15	5.5	16	68	25	53	37	2	3	56	1.28
719946--720020	31	2.3	32	82	13	91	61	4	0	34	1.15
720406--720449	20	2.2	20	84	12	54	65	0	0	34	0.93
720934--720989	28	2.0	29	85	3	78	53	0	1	44	1.11
720971--721004	15	2.2	16	89	5	52	55	0	0	44	0.99
722171--722197	13	2.1	13	100	0	54	37	0	0	62	0.95
722205--722269	18	3.6	19	74	17	66	55	0	0	44	0.99
722179--722269	19	4.9	18	69	25	57	51	0	0	48	1.00
722460--722492	11	3.0	11	95	0	57	66	0	0	33	0.92
722482--722562	31	2.9	28	81	13	103	53	0	0	46	1.00
723370--723405	16	2.3	16	90	4	56	22	0	0	77	0.76
723621--723655	15	2.3	15	90	0	52	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
724434--724502	24	3.0	23	68	17	63	50	0	7	42	1.30
725199--725267	12	5.6	12	76	6	66	40	0	0	59	0.97
725201--725271	13	5.6	13	78	6	74	39	0	0	60	0.97
725196--725236	17	2.4	17	84	8	57	34	0	0	65	0.93
725201--725271	25	2.8	25	82	0	97	39	0	0	60	0.97
725190--725278	13	7.2	13	77	8	60	38	0	0	61	0.96
727257--727323	33	2.0	33	88	0	98	34	11	13	40	1.81
727277--727301	13	1.9	13	100	0	50	36	16	16	32	1.90
727367--727391	13	1.9	13	100	0	50	32	16	16	36	1.90
727399--727519	52	2.3	52	97	0	224	34	18	18	28	1.94
731105--731152	25	1.9	25	95	0	87	39	0	6	54	1.26
732980--733006	13	2.1	13	100	0	54	44	7	7	40	1.60
733475--733761	153	1.9	153	85	4	400	25	17	18	39	1.92
733457--733776	153	2.1	153	81	3	394	24	16	19	40	1.91
735564--735594	2	15.5	2	100	0	62	48	0	0	51	1.00
737273--737305	3	10.7	3	93	6	57	0	30	0	69	0.88
737312--737349	6	6.3	6	96	0	67	0	34	18	47	1.49
744582--744663	41	2.0	41	95	0	146	14	19	18	47	1.82
750331--750378	24	2.0	25	83	4	62	25	10	16	47	1.78
750582--750626	21	2.1	22	88	12	67	35	2	26	35	1.69
750542--750685	76	1.9	76	92	0	243	36	3	27	32	1.74
750774--750821	25	1.9	25	86	0	69	35	2	25	37	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
751465--751529	33	2.0	33	87	3	96	33	13	10	41	1.80
751576--751657	38	2.3	34	84	13	112	39	9	9	41	1.71
751596--751660	21	3.3	21	75	16	84	40	10	7	41	1.69
751587--751680	38	2.4	39	92	5	154	39	10	10	39	1.75
751587--751646	18	3.2	18	73	17	68	43	11	6	38	1.68
751587--751682	20	4.9	20	74	14	76	38	10	11	39	1.76
752035--752070	15	2.4	15	95	0	63	19	5	8	66	1.38
755027--755058	16	2.0	17	88	11	50	43	6	6	43	1.54
755447--755481	18	1.9	18	94	0	61	91	0	2	5	0.50
755446--755484	19	2.0	20	90	5	62	89	0	2	7	0.56

Tables:   1   2   3   4   5   6   7   8   9   10