genome.fa.s162.2.7.7.80.10.50.1000.4.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: Scaffold162
Parameters: 2 7 7 80 10 50 1000
Length:  1959167

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  4  of  12  ( 1418 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)
551561--551586	13	2.0	13	100	0	52	38	15	7	38	1.76
553009--553109	51	2.0	50	94	1	175	34	16	17	30	1.93
555515--555821	119	2.5	120	80	9	306	42	3	5	47	1.43
555556--555836	123	2.3	119	78	14	294	43	3	3	49	1.37
555792--555872	28	3.0	26	72	22	67	40	3	1	54	1.26
555804--555869	31	2.2	29	78	13	71	42	3	0	54	1.15
556263--556299	11	3.4	11	84	0	56	37	0	0	62	0.96
559831--560004	93	1.9	92	81	7	210	33	16	6	42	1.75
559955--560217	71	3.7	70	85	4	341	32	17	9	41	1.81
560144--560859	92	8.0	92	85	5	828	34	17	8	39	1.79
560153--560857	86	7.9	86	84	5	689	34	17	8	39	1.79
560807--560916	57	1.9	57	92	0	184	33	16	10	40	1.82
560718--561008	149	2.0	146	84	2	375	35	16	8	40	1.79
560853--561056	92	2.2	92	87	1	302	36	16	7	39	1.77
561645--562002	117	2.9	118	83	8	407	52	2	2	42	1.28
562239--562315	22	3.4	22	70	10	57	27	2	9	61	1.40
562288--562566	111	2.4	113	85	7	359	41	2	2	53	1.26
562478--562502	13	1.9	13	100	0	50	32	0	0	68	0.90
562389--562619	117	2.0	114	81	10	270	43	2	1	53	1.21
562489--562623	68	1.9	71	82	11	172	44	0	0	54	1.10
562920--562967	15	3.1	16	79	11	55	39	0	14	45	1.45
563234--563287	29	1.9	27	85	7	72	51	3	1	42	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565105--565145	22	1.9	21	85	5	55	51	0	2	46	1.14
569147--569203	13	3.9	13	76	24	60	35	14	17	33	1.90
569125--569222	19	5.8	18	71	28	90	34	12	16	36	1.86
569127--569224	32	3.0	32	95	1	169	35	12	16	35	1.86
569265--569289	13	1.9	13	100	0	50	32	16	16	36	1.90
576328--576372	17	2.8	16	87	9	65	82	15	2	0	0.77
576349--576373	13	1.9	13	100	0	50	84	8	8	0	0.79
577751--578069	62	5.0	63	78	12	294	21	31	12	34	1.91
577945--578038	28	3.1	28	75	13	89	21	34	12	31	1.91
577647--578205	34	17.0	34	76	13	494	20	31	13	35	1.90
577647--578200	100	5.6	99	79	12	588	20	31	13	35	1.91
578216--578401	32	5.8	32	82	6	223	30	31	18	19	1.96
578217--578401	97	1.9	98	88	5	286	30	31	18	19	1.96
578215--578397	65	2.8	65	88	2	253	30	31	18	20	1.96
578408--579136	49	15.1	49	79	12	715	25	25	17	32	1.97
578702--579136	92	4.6	92	86	6	568	25	25	18	31	1.98
578705--579070	185	2.0	185	91	3	592	25	26	18	29	1.98
579999--580023	13	1.9	13	100	0	50	36	16	16	32	1.90
579979--580076	32	3.0	32	89	1	151	37	11	15	35	1.83
579977--580074	19	5.8	18	67	28	72	36	11	15	36	1.83
580117--580141	13	1.9	13	100	0	50	32	16	16	36	1.90
586419--586462	14	3.0	15	80	6	54	68	4	0	27	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
586417--586462	15	3.1	16	75	15	53	67	4	0	28	1.10
591133--591172	21	2.0	21	85	5	55	37	7	12	42	1.71
595965--596037	10	7.1	10	74	20	53	43	0	0	56	0.99
596000--596038	19	2.1	19	85	9	53	35	0	0	64	0.94
595954--596039	33	2.5	35	80	12	99	43	0	0	56	0.99
597149--597193	22	2.0	22	83	8	56	55	0	2	42	1.12
598754--598786	10	3.3	10	91	0	57	57	0	0	42	0.98
599427--599468	2	21.0	2	100	0	84	50	0	0	50	1.00
600949--601003	3	18.0	3	84	3	74	70	0	1	27	0.97
602271--602326	28	2.0	28	85	3	76	35	3	1	58	1.26
602128--602634	154	3.3	151	78	10	455	33	7	7	52	1.57
604442--604637	29	6.8	29	76	6	164	40	5	18	34	1.74
606108--606140	2	16.5	2	100	0	66	48	0	0	51	1.00
609030--609081	21	2.6	20	90	6	79	44	15	13	26	1.84
609977--610296	159	2.0	159	100	0	640	30	20	22	25	1.98
613285--613315	15	2.1	15	93	0	53	48	16	22	12	1.80
615399--615436	13	2.9	13	96	0	67	34	18	15	31	1.92
617983--618008	13	2.0	13	100	0	52	38	15	15	30	1.88
617965--618029	34	2.0	33	90	6	105	43	15	13	27	1.85
620413--620475	25	2.5	25	94	0	108	30	14	20	34	1.92
621185--621369	66	2.7	66	79	4	181	28	13	27	30	1.94
621301--621647	132	2.6	133	77	7	367	25	14	28	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
621351--621574	66	3.4	65	74	9	184	21	13	31	33	1.92
621809--621960	71	2.1	72	83	1	198	30	11	26	30	1.92
622347--623373	70	14.7	69	69	13	444	29	13	26	30	1.94
622086--622468	141	2.7	140	71	10	334	30	14	25	30	1.94
622687--622951	145	1.8	145	80	1	325	30	12	26	30	1.93
622852--623013	69	2.3	69	80	1	189	28	15	25	30	1.96
622655--623373	210	3.4	212	77	6	566	29	13	25	31	1.94
622977--623369	212	1.9	210	83	2	509	28	13	26	31	1.94
623344--623656	161	1.9	161	94	0	545	26	17	28	27	1.97
628783--628823	21	2.0	21	85	9	57	39	12	9	39	1.76
628863--628933	20	3.6	19	77	7	70	40	16	12	29	1.86
628903--629039	53	2.6	53	96	1	247	37	18	17	27	1.93
629147--629172	13	2.0	13	100	0	52	30	15	23	30	1.95
633362--633414	22	2.4	21	78	9	61	73	1	20	3	1.08
634567--634592	10	2.6	10	100	0	52	34	0	7	57	1.27
634533--634795	140	1.9	141	92	2	449	33	11	11	43	1.77
634707--634732	10	2.6	10	100	0	52	34	0	7	57	1.27
635229--635467	97	2.5	96	86	2	318	30	28	12	28	1.93
636883--637080	90	2.2	89	75	12	190	39	10	21	28	1.86
636953--637160	90	2.4	83	78	9	195	38	10	19	30	1.86
637015--637179	83	2.0	84	82	5	201	37	10	21	30	1.87
639583--639838	51	4.9	51	70	17	184	34	12	24	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
639684--639757	28	2.6	29	80	8	89	29	16	29	24	1.96
639744--639963	51	4.3	51	81	3	192	35	12	23	29	1.91
642300--642326	13	2.1	13	100	0	54	40	14	14	29	1.86
643647--643703	20	2.8	20	94	0	96	38	15	10	35	1.82
645143--645187	21	2.2	20	84	4	54	11	6	4	77	1.09
647512--647567	27	2.1	27	82	0	67	17	16	19	46	1.84
650419--650448	6	5.0	6	100	0	60	16	0	16	66	1.25
652409--652625	34	6.4	34	82	2	249	25	6	26	41	1.79
652409--652625	102	2.1	101	87	3	310	25	6	26	41	1.79
657032--657251	34	6.5	34	83	3	264	25	7	25	41	1.81
657032--657251	103	2.2	101	88	4	325	25	7	25	41	1.81
657032--657253	69	3.3	66	82	7	268	25	7	25	41	1.81
658181--658212	2	16.0	2	100	0	64	50	0	0	50	1.00
659339--659380	21	2.0	20	82	13	50	57	0	0	42	0.99
659879--659909	14	2.2	14	94	0	53	41	0	0	58	0.98
660000--660125	69	1.9	65	85	9	173	57	2	3	37	1.28
660994--661945	91	10.6	90	81	3	999	38	13	17	30	1.88
660989--661945	179	5.3	178	82	4	1043	38	13	17	30	1.88
665901--666100	80	2.5	79	81	2	204	31	17	27	25	1.97
666055--666126	28	2.6	28	88	0	99	23	19	34	22	1.96
666114--666508	51	7.6	51	70	13	203	32	11	25	30	1.91
666109--666334	103	2.2	102	82	3	256	33	12	25	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
666317--666389	27	2.6	28	83	14	98	23	20	31	24	1.98
666004--666503	262	1.9	263	89	2	781	32	13	26	28	1.93
668933--668993	19	3.6	18	75	25	69	34	14	13	37	1.85
668955--668979	13	1.9	13	100	0	50	32	16	16	36	1.90
669747--670393	61	10.9	61	87	6	886	24	19	30	25	1.98
669747--670414	177	3.8	173	87	8	847	24	20	30	25	1.98
669747--670393	238	2.7	236	88	5	945	24	19	30	25	1.98
671403--671448	13	3.7	13	88	5	60	0	2	13	84	0.71
671403--671447	18	2.6	18	83	13	58	0	2	11	86	0.65
671397--671447	14	3.8	13	82	12	59	0	3	9	86	0.70

Tables:   1   2   3   4   5   6   7   8   9   10   11   12