genome.fa.s324.2.7.7.80.10.50.1000.4.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: Scaffold324
Parameters: 2 7 7 80 10 50 1000
Length:  2336777

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  4  of  16  ( 1878 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)
499832--499885	26	2.1	26	89	0	81	51	1	1	44	1.22
500177--500208	15	2.0	17	88	11	50	62	0	0	37	0.95
507222--507293	22	3.2	22	79	11	74	41	0	0	58	0.98
507222--507280	25	2.5	23	75	8	66	38	0	0	61	0.96
508960--509054	8	13.1	8	71	20	50	65	0	0	34	0.93
508950--509032	21	4.3	19	70	26	59	61	0	0	38	0.96
508965--509033	14	4.9	14	70	16	52	63	0	0	36	0.94
508999--509048	4	13.2	4	76	19	54	70	0	0	30	0.88
508994--509052	12	5.0	12	74	17	61	69	0	0	30	0.89
511616--511680	31	2.0	33	88	5	98	58	0	0	41	0.98
520894--520931	13	2.9	13	100	0	76	36	15	15	31	1.90
520856--520958	46	2.2	45	93	3	170	33	13	20	33	1.91
525292--525363	27	2.7	26	78	6	72	43	25	6	25	1.79
526974--526999	8	3.2	8	100	0	52	11	0	0	88	0.52
527265--527297	9	3.6	9	92	8	57	9	0	0	90	0.44
527265--527305	10	4.1	10	93	6	66	9	0	2	87	0.62
527265--527305	19	2.2	19	90	0	64	9	0	2	87	0.62
538000--538037	13	2.9	13	100	0	76	36	15	15	31	1.90
537968--538064	45	2.2	45	96	0	176	31	13	20	34	1.91
538110--538134	13	1.9	13	100	0	50	36	16	8	40	1.77
542407--542473	24	2.6	25	84	11	75	47	22	7	22	1.76
544189--544221	6	5.8	6	96	3	52	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)
544533--544571	21	1.9	21	85	15	55	66	2	2	28	1.18
545779--545826	18	2.4	19	80	16	53	27	4	4	64	1.30
547183--547224	2	21.0	2	100	0	84	50	0	0	50	1.00
550436--550505	24	2.8	25	89	6	99	44	25	8	21	1.80
550490--550560	27	2.6	27	88	6	99	46	23	7	22	1.76
550438--550563	24	4.9	24	77	12	92	46	25	7	21	1.77
552439--552484	21	2.1	22	84	4	58	19	30	19	30	1.97
555029--555155	25	4.9	25	74	14	89	47	22	7	23	1.75
555088--555153	27	2.4	27	87	2	96	48	19	6	25	1.72
556335--556402	20	3.2	20	82	12	75	29	2	8	58	1.43
556422--556466	21	2.2	20	84	4	54	28	2	13	55	1.50
556427--556631	21	9.7	21	69	14	102	37	4	7	50	1.51
556476--556630	85	1.8	84	81	9	190	38	4	6	50	1.49
556432--556639	85	2.5	85	78	10	189	37	4	7	50	1.51
560688--560767	15	5.3	15	70	5	54	45	0	0	55	0.99
560688--560760	31	2.4	30	81	4	74	45	0	0	54	0.99
560766--560792	10	2.7	10	100	0	54	55	0	0	44	0.99
560838--560914	20	3.7	19	75	22	59	58	0	1	40	1.06
560844--560898	19	2.8	19	74	23	51	63	0	1	34	1.05
560845--560914	32	2.3	29	80	7	77	60	0	1	38	1.06
561170--561235	15	4.2	14	74	25	53	56	0	0	43	0.99
561148--561221	31	2.4	31	82	15	91	54	0	0	45	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
571105--571145	12	3.5	12	78	15	50	48	0	0	51	1.00
571106--571151	23	2.0	23	91	8	76	54	0	0	45	0.99
571107--571154	22	2.1	24	88	7	73	56	0	0	43	0.99
571115--571181	18	3.4	18	85	10	71	49	0	0	50	1.00
571727--571781	17	3.2	17	75	15	51	52	3	0	43	1.18
571805--571839	16	2.2	16	90	10	54	37	5	2	54	1.39
572460--572541	21	3.8	22	70	10	53	47	1	0	51	1.08
573410--573454	24	1.9	24	86	4	65	22	2	2	73	1.05
573994--574035	22	1.9	22	85	0	57	50	0	0	50	1.00
574465--574513	25	2.0	24	88	4	71	57	2	0	40	1.10
575046--575108	5	12.6	5	77	15	51	34	0	0	65	0.93
575052--575100	8	6.4	8	74	25	52	34	0	0	65	0.93
575051--575172	32	3.8	33	78	11	105	40	0	0	58	1.10
575046--575107	21	2.9	21	81	18	74	33	0	0	66	0.92
575044--575178	20	7.0	20	70	16	88	40	0	0	58	1.09
575149--575203	19	3.1	18	80	12	60	29	1	0	69	0.99
575202--575226	10	2.5	10	100	0	50	52	8	0	40	1.31
582083--582171	39	2.3	39	86	0	115	14	5	52	26	1.64
582712--582744	2	16.5	2	100	0	66	51	0	0	48	1.00
582779--582825	19	2.5	19	80	12	53	31	0	6	61	1.21
582823--582886	28	2.3	29	84	10	80	53	3	9	34	1.49
584463--584498	17	2.1	17	89	0	54	83	2	13	0	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
586806--586850	21	2.2	21	84	11	58	40	0	0	60	0.97
586815--586866	16	3.3	16	74	15	54	44	0	0	55	0.99
592763--592818	20	2.6	21	77	11	60	58	0	0	41	0.98
592790--592837	25	1.9	25	86	0	69	64	0	0	35	0.94
593103--593160	17	3.2	18	82	7	64	43	0	3	53	1.17
593110--593160	17	2.9	17	88	5	66	43	0	3	52	1.19
593115--593173	17	3.4	17	79	9	64	52	0	3	44	1.17
593356--593391	18	1.9	18	88	5	54	41	2	0	55	1.14
593390--593443	26	2.1	26	82	6	65	59	1	1	37	1.19
593577--593618	15	2.7	15	82	17	59	64	0	0	35	0.94
594178--594210	16	2.0	17	88	5	50	30	0	3	66	1.06
595928--595962	3	11.7	3	93	0	61	65	2	31	0	1.07
610459--610496	2	19.0	2	100	0	76	50	0	0	50	1.00
610768--610815	15	3.1	15	78	3	51	31	0	0	68	0.90
612420--612454	11	3.1	11	88	8	52	48	0	0	51	1.00
612420--612452	12	2.8	12	90	4	50	48	0	0	51	1.00
613103--613127	2	12.5	2	100	0	50	48	0	52	0	1.00
617149--617191	17	2.5	17	88	3	59	67	4	2	25	1.22
617874--617908	17	2.1	16	89	5	52	42	5	0	51	1.25
618340--618383	2	23.0	2	90	9	74	52	0	0	47	1.00
618507--618556	13	3.7	15	77	17	56	28	0	2	70	0.99
618870--618936	31	2.2	31	82	12	77	38	4	7	49	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
620157--620194	19	2.0	19	85	10	51	50	5	10	34	1.59
620817--620843	14	1.9	14	100	0	54	81	0	0	18	0.69
622027--622078	20	2.7	20	71	14	54	50	0	1	48	1.12
622038--622100	25	2.5	26	76	2	65	52	0	3	44	1.17
622111--622151	15	2.6	15	88	7	55	60	0	0	39	0.96
622107--622161	17	3.4	16	82	12	76	58	0	0	41	0.98
624050--624108	15	3.7	16	72	21	52	45	0	0	54	0.99
624054--624100	16	3.1	15	76	11	51	44	0	0	55	0.99
624158--624204	19	2.6	18	83	10	51	59	2	0	38	1.09
624149--624204	29	2.0	27	83	16	69	57	1	0	41	1.09
626253--626441	87	2.2	88	89	2	292	39	12	19	29	1.88
628710--628759	25	2.0	25	84	3	66	62	6	4	28	1.37
629804--629867	33	1.9	32	84	12	85	45	0	0	54	0.99
629956--629999	15	3.1	14	83	6	54	72	2	0	25	0.96
630323--630366	22	2.0	22	86	0	61	61	0	0	38	0.96
630929--630975	23	2.0	23	91	8	76	55	4	2	38	1.31
633620--633659	20	2.0	20	85	9	55	50	0	0	50	1.00
633959--634004	14	3.2	14	81	6	65	45	0	8	45	1.34
633964--634010	14	3.3	14	82	5	67	38	0	10	51	1.37
635586--635676	42	2.2	41	80	5	110	24	8	20	46	1.79
635692--635727	2	18.0	2	94	0	63	50	2	0	47	1.15
636277--636330	24	2.4	22	85	11	81	68	0	16	14	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
636278--636325	24	2.0	24	100	0	96	70	0	16	12	1.16
636848--636937	13	7.9	12	68	21	52	42	1	0	56	1.06
636858--636936	32	2.5	32	75	17	85	44	1	0	54	1.08
638015--638070	27	2.1	27	96	0	103	7	19	41	32	1.79
638295--638347	12	4.5	12	81	13	74	32	0	1	66	1.03
638296--638358	24	2.7	23	85	9	74	31	0	3	65	1.09
638563--638596	17	2.0	17	94	0	59	0	44	23	32	1.54
646661--646705	21	2.1	21	100	0	90	35	15	28	20	1.93
647461--647486	13	2.0	13	100	0	52	38	0	0	61	0.96
650595--650700	35	3.2	32	80	9	108	29	17	12	40	1.86

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16