genome.fa.s415.2.7.7.80.10.50.1000.4.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: Scaffold415
Parameters: 2 7 7 80 10 50 1000
Length:  1242643

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 880 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)
519590--519617	6	4.7	6	100	0	56	67	0	0	32	0.91
519589--519629	18	2.3	17	84	12	55	65	0	0	34	0.93
522882--522913	12	2.7	12	90	0	55	37	12	15	34	1.85
523097--523151	23	2.3	24	90	3	85	43	12	7	36	1.71
530322--530353	15	2.0	17	88	11	50	68	0	9	21	1.17
530555--530645	40	2.4	36	81	7	101	40	0	57	2	1.11
533498--533536	14	2.7	15	84	4	53	43	10	7	38	1.67
542728--543226	181	2.8	178	85	4	639	15	15	16	52	1.75
542834--543348	181	2.9	177	84	6	553	16	15	15	52	1.75
543719--543746	2	14.0	2	100	0	56	0	50	0	50	1.00
544519--544559	2	20.5	2	100	0	82	48	0	0	51	1.00
545115--545154	3	13.3	3	100	0	80	35	0	0	65	0.93
546596--546635	2	20.0	2	100	0	80	50	0	0	50	1.00
548314--548390	29	2.6	29	93	6	127	11	18	6	63	1.48
550453--550515	19	3.7	17	76	24	62	33	12	19	34	1.89
550472--550536	13	4.5	13	79	20	76	33	13	16	35	1.89
550451--550528	32	2.4	32	95	0	138	35	12	17	33	1.88
550556--550595	21	1.9	21	89	0	62	47	10	15	27	1.77
552955--553079	52	2.4	52	83	2	162	32	24	11	32	1.90
553062--553168	28	3.9	28	85	7	141	24	30	16	28	1.97
558320--558588	140	1.9	138	90	1	421	36	10	8	44	1.69
559547--559581	16	2.2	16	89	0	52	48	2	0	48	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
560036--560070	2	17.5	2	100	0	70	0	48	0	51	1.00
565580--565904	162	2.0	163	93	1	564	52	4	4	38	1.43
566819--566854	18	1.9	19	88	5	56	44	0	2	52	1.15
567022--567067	18	2.5	19	82	10	60	56	0	13	30	1.37
567168--567207	18	2.2	19	90	4	64	60	5	0	35	1.19
567176--567237	25	2.6	24	80	7	72	61	3	0	35	1.12
570664--570727	20	3.4	18	75	16	58	20	28	10	40	1.86
570651--570727	39	2.0	37	85	5	100	22	28	9	40	1.84
570739--570780	22	1.9	22	90	0	66	16	0	11	71	1.14
570748--570775	13	2.2	13	100	0	56	14	0	14	71	1.15
570776--570811	15	2.4	15	90	0	54	19	2	2	75	1.06
571802--571941	48	3.0	47	74	12	139	35	15	30	18	1.92
571809--572279	84	5.5	84	72	9	233	33	18	28	19	1.95
571848--572397	126	4.3	125	75	7	403	34	18	28	19	1.95
571812--572424	42	14.4	42	72	9	208	33	18	27	20	1.95
572069--572297	84	2.7	84	83	4	253	33	18	27	20	1.96
572095--572424	42	7.8	42	74	7	218	34	16	26	21	1.95
571986--572430	213	2.1	210	82	5	547	34	18	26	20	1.96
572186--572424	85	2.8	84	78	5	203	34	16	27	21	1.95
580789--580833	22	2.0	23	82	4	56	46	2	20	31	1.62
585968--586000	2	16.5	2	100	0	66	51	0	0	48	1.00
586948--586983	17	2.1	17	89	0	54	13	5	8	72	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
592210--592259	21	2.4	21	96	0	91	30	18	18	34	1.94
599458--599491	10	3.4	10	87	0	50	35	11	26	26	1.91
599518--599559	20	2.1	20	90	0	66	30	4	35	28	1.78
599526--599571	20	2.3	20	85	7	58	28	4	34	32	1.77
601561--602288	155	4.7	153	77	6	577	39	19	15	25	1.91
601613--602288	311	2.2	312	79	5	731	39	19	15	25	1.91
603981--604028	11	4.4	11	87	7	71	0	20	0	79	0.74
603971--604019	20	2.6	19	81	9	55	4	18	0	77	0.92
603981--604029	12	4.3	12	89	5	68	0	20	0	79	0.73
603981--604019	20	2.0	19	90	5	60	0	20	0	79	0.73
604655--605240	167	3.5	166	82	7	645	52	8	10	28	1.65
605269--605360	42	2.2	43	88	2	132	40	11	16	31	1.85
608145--608198	27	2.0	28	81	3	65	33	1	7	57	1.37
612889--612919	15	2.1	15	93	0	53	9	16	0	74	1.07
612891--612937	20	2.3	20	81	0	58	4	25	0	70	1.05
617549--617597	19	2.6	19	76	20	50	67	4	4	24	1.26
619363--619398	2	18.0	2	94	0	63	52	0	0	47	1.00
619424--619472	12	3.8	12	82	12	62	69	0	30	0	0.89
619437--619481	23	2.0	23	91	8	74	71	0	28	0	0.87
619424--619483	27	2.3	26	82	8	77	71	0	28	0	0.86
620071--620103	17	2.0	17	88	5	50	69	0	30	0	0.88
620073--620190	46	2.6	44	82	7	139	56	4	33	5	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
621197--621283	42	2.1	42	95	0	156	22	10	19	47	1.80
631499--631527	2	14.5	2	100	0	58	48	0	0	51	1.00
637403--637459	23	2.4	23	76	2	60	33	10	14	42	1.79
643707--643749	22	2.0	22	85	0	59	25	2	0	72	0.97
647146--647217	28	2.6	27	84	4	90	30	16	8	44	1.77
647284--647501	84	2.6	83	80	2	242	29	15	9	46	1.76
647433--647487	27	2.0	28	89	3	85	30	20	7	41	1.79
647349--647530	83	2.2	83	82	3	188	32	13	8	45	1.75
654720--654904	60	3.1	60	82	4	203	43	21	9	26	1.82
654751--654944	60	3.2	58	80	8	210	42	20	9	26	1.83
656932--657000	28	2.5	28	95	0	120	27	18	31	21	1.97
656986--657105	51	2.4	51	92	0	195	30	15	25	27	1.96
657088--657162	27	2.7	27	81	2	78	22	21	32	24	1.98
656939--657223	158	1.8	157	82	3	367	32	15	24	26	1.96
656939--657263	158	2.1	158	80	4	352	32	15	24	27	1.95
657147--657427	51	5.5	51	86	2	361	35	11	22	30	1.89
657143--657427	153	1.9	154	85	4	398	35	11	23	30	1.90
659829--659880	21	2.6	21	90	6	81	32	15	13	38	1.86
661043--661067	12	2.1	12	100	0	50	40	52	0	8	1.31
661022--661088	34	2.0	34	100	0	134	38	40	2	17	1.65
661055--661107	22	2.4	22	90	0	79	37	32	3	26	1.74
670006--670080	20	3.8	20	80	3	80	42	12	12	33	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
670003--670080	40	2.0	39	87	2	111	42	12	11	33	1.79
670641--671865	117	10.5	117	82	9	1196	22	18	31	27	1.97
670642--671708	175	6.0	175	90	4	1351	22	19	30	28	1.97
670687--672623	82	22.8	82	82	6	1283	24	16	31	27	1.96
670687--672631	110	17.1	110	83	6	1343	24	16	31	27	1.96
670687--672631	28	68.6	28	83	6	1426	24	16	31	27	1.96
681032--681083	20	2.6	20	84	0	68	38	13	13	34	1.84
681623--681668	21	2.2	21	100	0	92	32	8	26	32	1.87
682467--682491	12	2.1	12	100	0	50	64	0	0	36	0.94
682817--682844	2	14.0	2	100	0	56	50	0	0	50	1.00
686869--686902	17	2.0	17	100	0	68	41	11	23	23	1.87
689197--689229	2	17.0	2	93	6	59	48	0	0	51	1.00
689220--689268	21	2.3	21	85	0	62	38	10	14	36	1.80
689435--689481	2	24.5	2	91	8	80	51	0	0	48	1.00
689594--689620	3	9.0	3	100	0	54	33	0	0	66	0.92
689607--689706	44	2.3	42	93	3	164	46	13	6	35	1.67
689693--689726	3	11.7	3	93	6	61	35	0	0	64	0.94
692336--692403	24	2.8	24	78	8	68	42	1	1	54	1.18
693360--693406	19	2.4	19	78	3	58	82	4	8	4	0.91
693799--693858	31	1.9	32	83	10	79	71	0	25	3	1.01
693944--694002	23	2.6	23	84	7	77	25	5	3	66	1.28
694478--694515	14	2.8	14	88	4	51	71	0	28	0	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
694832--694888	24	2.5	22	81	10	71	31	3	0	64	1.10
695649--695697	22	2.2	22	85	10	64	48	8	2	40	1.44
696860--696902	2	21.5	2	100	0	86	48	0	0	51	1.00
698574--698604	12	2.6	12	94	0	53	51	38	9	0	1.35
698574--698604	14	2.2	14	94	0	53	51	38	9	0	1.35
709215--709251	18	2.1	18	90	10	58	51	0	5	43	1.24
713577--713663	43	2.0	43	100	0	174	28	13	25	32	1.94
713979--714033	22	2.6	21	83	13	60	45	3	0	50	1.19
714361--714397	6	6.3	6	87	6	58	64	0	0	35	0.94
714360--714400	11	3.6	11	87	6	64	60	0	0	39	0.96

Tables:   1   2   3   4   5   6   7   8