genome.fa.s79.2.7.7.80.10.50.1000.5.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: Scaffold79
Parameters: 2 7 7 80 10 50 1000
Length:  4189514

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   

This is table  5  of  26  ( 3105 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)
628827--628856	3	10.0	3	100	0	60	66	0	0	33	0.92
631422--631472	24	2.2	21	77	16	57	62	0	1	35	1.06
631425--631472	23	2.0	24	88	8	71	60	0	2	37	1.09
632777--632846	19	3.7	19	70	25	58	44	5	8	41	1.59
634238--634801	282	2.0	282	97	0	1065	32	15	14	38	1.87
639580--639614	17	2.2	15	90	10	52	71	0	8	20	1.11
640198--640283	28	3.2	27	72	16	81	23	3	1	72	1.07
640214--640292	9	8.8	9	73	4	52	21	1	1	75	0.94
640224--640281	20	2.9	20	80	12	66	22	1	1	74	1.01
640249--640292	20	2.2	20	83	0	52	18	2	0	79	0.83
640909--640934	2	13.0	2	100	0	52	50	0	0	50	1.00
641247--641271	2	12.5	2	100	0	50	52	48	0	0	1.00
642413--642441	2	14.5	2	100	0	58	0	0	48	51	1.00
642608--642825	110	2.0	110	97	0	409	42	16	11	29	1.84
647501--647542	13	3.3	13	76	6	50	59	0	0	40	0.97
647529--647588	22	2.8	21	82	7	59	41	1	0	56	1.09
647788--647856	34	2.0	35	88	2	104	24	11	31	31	1.91
648250--648291	19	2.2	19	91	0	66	45	0	2	52	1.13
648257--648303	19	2.5	19	86	3	60	46	0	2	51	1.13
656951--656986	18	2.1	18	89	5	56	38	0	0	61	0.96
656945--656996	15	3.3	15	81	7	59	40	0	0	59	0.97
658218--658247	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)
659007--659046	10	4.0	10	93	0	62	50	0	0	50	1.00
659234--659258	13	1.9	13	100	0	50	88	0	0	12	0.53
661391--661423	2	16.5	2	100	0	66	51	0	0	48	1.00
661688--661755	30	2.3	30	82	2	84	38	1	4	55	1.29
662335--662379	13	3.3	13	87	6	63	82	2	15	0	0.77
662988--663033	15	3.1	15	79	17	51	36	2	10	50	1.50
662996--663033	14	2.5	15	83	12	51	36	2	10	50	1.51
663064--663102	16	2.4	16	95	0	69	30	2	10	56	1.46
668724--668766	18	2.2	20	88	8	63	27	0	0	72	0.85
668724--668766	19	2.2	20	88	8	63	27	0	0	72	0.85
668960--669054	33	2.9	33	78	9	95	51	3	6	38	1.43
668992--669038	11	4.3	11	76	10	51	53	2	2	42	1.25
670016--670062	2	23.5	2	91	8	78	48	2	0	48	1.13
670390--670493	29	3.6	29	75	12	106	41	9	1	47	1.47
671167--671225	17	3.4	17	73	13	57	50	1	1	45	1.21
671114--671186	27	2.7	27	83	10	96	52	0	2	45	1.15
671167--671241	35	2.1	36	87	4	109	50	1	1	46	1.18
671215--671267	26	2.0	26	88	3	79	47	1	0	50	1.12
671615--671662	14	3.4	14	77	11	53	52	0	2	45	1.12
671647--671719	8	8.3	9	73	22	50	45	0	0	54	0.99
671628--671686	11	5.7	10	71	28	52	50	0	0	49	1.00
671647--671701	17	3.1	19	82	17	73	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
673763--673875	46	2.5	46	82	4	138	46	3	14	36	1.62
674999--675063	12	5.3	12	77	15	71	80	1	15	3	0.92
675009--675059	17	2.8	18	82	5	59	80	1	15	1	0.89
675710--675952	114	2.1	114	99	0	477	31	9	8	50	1.65
675733--675920	58	3.3	58	74	8	213	33	9	6	50	1.61
675771--675959	57	3.3	57	74	8	213	31	9	8	50	1.65
676150--676293	58	2.5	57	79	6	155	28	11	9	50	1.71
676216--676293	29	2.7	28	72	21	72	28	7	11	52	1.65
676245--676287	20	2.2	20	83	4	52	25	11	9	53	1.67
676197--676358	58	2.8	57	82	4	157	29	10	11	49	1.71
679718--679770	1	53.0	1	80	0	61	0	1	7	90	0.52
679718--679770	17	3.1	17	94	2	88	0	1	7	90	0.52
679721--679770	12	4.3	12	87	7	68	0	2	8	90	0.54
679718--679770	28	1.9	27	92	3	88	0	1	7	90	0.52
688942--688973	16	2.0	17	88	11	50	21	9	0	68	1.17
689000--689095	29	3.5	27	77	17	101	60	1	1	37	1.11
689179--689228	15	3.1	16	80	8	57	48	0	0	52	1.00
689200--689269	22	3.1	23	74	21	69	48	1	0	50	1.09
690719--690755	18	2.1	19	85	10	51	32	5	0	62	1.18
691008--691045	2	19.0	2	100	0	76	50	0	0	50	1.00
691462--691503	22	1.9	22	90	0	66	38	0	0	61	0.96
691762--691837	26	2.8	26	68	18	66	55	1	1	42	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
692351--692395	16	2.9	16	87	9	67	53	0	0	46	1.00
695467--695561	49	1.9	50	83	10	124	26	14	26	32	1.95
696129--696155	2	13.5	2	100	0	54	51	48	0	0	1.00
697723--697759	16	2.4	16	90	4	58	21	27	5	45	1.73
698680--698709	1	30.0	1	93	0	51	0	0	3	96	0.21
702981--703163	90	2.0	90	89	0	276	29	13	21	36	1.91
703311--703351	21	2.0	21	85	4	57	12	4	36	46	1.63
712771--712804	2	17.0	2	100	0	68	50	0	0	50	1.00
732021--732274	84	3.0	84	86	1	328	18	25	18	37	1.93
732133--732376	126	1.9	126	80	3	285	19	29	17	34	1.94
732022--733591	42	37.5	42	68	10	213	18	26	18	36	1.93
732440--732673	83	2.8	83	81	5	265	20	25	16	37	1.93
732246--733609	84	16.3	83	76	5	695	18	26	18	36	1.94
732171--733104	126	7.4	125	74	6	427	18	26	18	36	1.94
733037--733422	85	4.7	79	77	8	229	15	27	19	37	1.93
733121--733563	127	3.5	123	73	6	359	16	27	19	36	1.93
734166--734229	3	22.0	3	78	12	71	70	0	1	28	0.97
734166--734228	11	5.7	12	70	24	57	71	0	1	26	0.95
734166--734229	15	4.4	14	86	9	85	70	0	1	28	0.97
734545--734578	12	2.8	12	91	8	52	20	23	14	41	1.89
734675--734705	15	2.1	15	100	0	62	67	6	25	0	1.14
740236--740833	28	21.5	28	83	4	570	25	30	14	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
740212--740805	82	7.1	82	81	4	595	25	30	14	29	1.95
740224--741145	56	16.2	56	79	10	391	26	29	15	27	1.96
740801--741021	32	7.1	32	84	3	272	30	28	19	22	1.97
740732--741045	64	5.2	64	82	6	288	30	27	18	23	1.98
740761--741045	96	3.1	95	81	7	299	30	28	18	23	1.98
740739--741156	28	14.1	28	81	7	289	30	27	17	24	1.97
742077--742130	20	2.7	20	85	0	63	35	14	12	37	1.85
752543--752598	20	2.8	20	86	8	78	30	10	17	41	1.84
754775--755023	97	2.6	97	91	0	399	26	29	13	30	1.94
765005--765065	23	2.6	23	74	10	61	47	8	0	44	1.33
769803--769827	13	1.9	13	100	0	50	36	16	16	32	1.90
769783--769849	33	2.0	33	88	0	98	32	11	14	40	1.83
769890--769914	13	1.9	13	100	0	50	32	16	16	36	1.90
769923--770047	52	2.4	52	95	0	223	36	18	17	28	1.94
773114--773302	59	3.2	57	77	7	191	18	17	29	34	1.94
780063--780110	23	2.0	23	84	11	62	72	4	4	18	1.17
780083--780120	15	2.4	17	82	13	53	68	7	5	18	1.34
780086--780120	16	2.2	16	90	5	54	68	8	5	17	1.35
780611--780689	36	2.2	36	97	0	149	16	2	21	59	1.49
783166--783592	60	7.1	60	73	7	276	35	24	10	29	1.88
783166--783588	180	2.4	179	76	9	403	35	24	10	29	1.88
783376--783624	120	2.1	120	78	3	259	35	26	9	29	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
784093--784140	23	2.0	24	92	4	80	22	6	14	56	1.61
784586--784616	4	7.8	4	92	0	53	19	0	3	77	0.90
784582--784616	16	2.2	16	100	0	70	17	0	5	77	0.96
788132--788178	20	2.3	21	85	10	71	53	0	0	46	1.00
788363--788406	19	2.3	19	84	0	52	34	0	2	63	1.07
788420--788462	18	2.4	19	92	7	72	51	0	0	48	1.00
788937--788982	20	2.2	21	84	3	58	32	0	4	63	1.14
789580--789620	16	2.6	16	82	17	50	31	2	0	65	1.05
791655--791698	19	2.4	18	81	14	54	36	0	0	63	0.95
791636--791696	20	3.0	21	77	18	67	36	0	1	62	1.05

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26