genome.fa.s8.2.7.7.80.10.50.1000.5.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: Scaffold8
Parameters: 2 7 7 80 10 50 1000
Length:  6381039

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   27   28   29   30   31   32   
          33   

This is table  5  of  33  ( 3942 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)
537554--537580	6	4.5	6	100	0	54	48	37	0	14	1.45
539459--539512	15	3.4	17	66	23	53	44	0	0	55	0.99
539516--539582	30	2.2	31	82	15	79	34	7	0	58	1.26
539950--539992	16	2.6	17	82	14	54	53	0	0	46	1.00
539958--539995	16	2.4	16	91	4	60	55	0	0	44	0.99
540818--540847	2	15.0	2	100	0	60	50	0	0	50	1.00
541468--541581	57	2.0	55	89	3	174	21	22	1	54	1.54
542582--542648	33	2.0	33	100	0	134	38	11	5	43	1.66
549058--549082	2	12.5	2	100	0	50	48	0	0	52	1.00
549665--549699	15	2.4	15	85	4	54	42	0	0	57	0.99
552137--552211	30	2.7	27	76	13	82	61	0	1	37	1.05
552194--552261	18	4.1	15	73	19	55	55	2	0	41	1.15
552138--552241	17	5.9	16	71	21	66	56	0	0	42	1.05
556529--556562	17	2.0	17	94	0	59	44	0	2	52	1.16
561518--561549	2	16.0	2	100	0	64	50	0	0	50	1.00
563068--563095	2	14.0	2	100	0	56	50	0	0	50	1.00
563252--563324	22	3.4	22	74	16	64	56	1	1	41	1.16
563236--563284	19	2.5	19	80	9	55	55	0	2	42	1.11
564450--564586	13	11.7	12	70	17	58	54	1	0	43	1.14
564510--564559	14	3.5	14	76	12	57	54	0	0	46	1.00
565473--565507	2	17.5	2	100	0	70	51	0	0	48	1.00
565507--565533	2	13.5	2	100	0	54	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565902--565987	11	7.5	11	73	17	59	25	1	1	72	0.99
565926--565989	17	3.9	17	76	13	64	28	0	0	71	0.86
565933--566002	34	2.1	33	86	10	97	30	0	1	68	0.98
565941--566002	23	2.9	21	79	9	70	29	0	1	69	0.98
565937--566014	34	2.3	34	82	8	88	33	0	2	64	1.08
566461--566511	20	2.6	20	84	3	68	33	17	11	37	1.86
566536--566591	20	2.8	20	81	2	69	37	12	17	32	1.88
568109--568173	32	2.0	33	87	3	96	52	0	0	47	1.00
568157--568209	6	9.5	6	78	12	51	66	0	0	33	0.92
568069--568179	27	3.7	30	74	17	79	57	0	0	41	1.05
568676--568765	25	3.8	24	75	13	80	37	0	0	62	0.96
570691--570737	19	2.3	20	85	7	60	53	2	0	44	1.12
580100--580141	9	4.7	9	82	8	50	64	0	0	35	0.94
580112--580147	17	2.1	18	89	5	56	66	0	2	30	1.06
580621--580649	13	2.1	14	93	6	51	37	0	0	62	0.96
581080--581113	14	2.3	15	90	10	52	76	8	0	14	1.01
581630--581662	11	3.0	11	90	0	57	48	0	0	51	1.00
587501--587549	24	2.0	24	100	0	98	8	28	12	51	1.68
587954--587989	16	2.1	17	90	10	56	38	0	0	61	0.96
588279--588307	2	14.5	2	100	0	58	48	0	0	51	1.00
597332--597359	13	2.2	13	100	0	56	14	32	7	46	1.71
598873--598966	39	2.5	37	80	14	97	58	0	1	40	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
598893--598961	25	2.9	25	77	20	76	57	0	1	40	1.07
598899--598968	21	3.2	22	80	11	74	61	0	0	38	0.96
598893--598968	22	3.5	21	78	18	68	59	0	1	39	1.06
599020--599123	55	1.9	55	94	2	183	30	7	3	57	1.45
599201--599235	16	2.2	16	94	0	61	34	14	17	34	1.90
601478--601534	16	3.6	16	73	15	55	66	0	0	33	0.92
601586--601647	25	2.5	26	82	12	76	59	0	0	40	0.97
602547--602706	80	2.0	80	87	0	230	25	14	21	38	1.91
603638--603692	19	2.9	19	75	5	58	32	0	0	67	0.91
603640--603705	24	2.7	24	83	6	71	33	0	0	66	0.92
603639--603704	16	4.0	16	74	18	55	31	0	0	68	0.90
603652--603705	16	3.2	16	77	17	56	33	0	0	66	0.92
605159--605252	19	5.4	18	71	17	65	42	2	1	54	1.19
605148--605252	18	5.9	18	70	17	60	43	1	0	53	1.18
605694--605739	24	1.9	24	82	8	58	45	0	2	52	1.13
606047--606071	13	1.9	13	100	0	50	20	0	8	72	1.10
606290--606365	36	2.1	37	85	2	100	23	2	6	67	1.27
611404--611441	18	2.1	18	90	0	58	44	2	0	52	1.14
612057--612120	32	1.9	34	84	6	87	34	0	9	56	1.32
615145--615191	8	5.1	9	82	17	53	34	2	0	63	1.06
615138--615191	17	3.1	18	86	10	67	37	1	0	61	1.07
615160--615200	15	2.6	16	82	14	50	29	4	0	65	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
616924--616978	29	2.0	27	82	7	65	49	0	1	49	1.11
616941--617010	29	2.5	28	82	15	83	50	0	0	50	1.00
616982--617048	5	12.8	5	75	12	55	44	0	0	55	0.99
616941--617018	29	2.9	26	75	20	79	47	0	0	52	1.00
616973--617084	48	2.3	48	75	17	115	49	0	0	50	1.06
616979--617042	20	3.0	20	76	15	67	46	0	0	53	1.00
617346--617378	17	1.9	17	88	11	50	15	24	0	60	1.35
626108--626169	14	4.2	15	74	21	60	66	0	0	33	0.92
626108--626144	15	2.4	16	91	8	60	67	0	0	32	0.91
626104--626175	35	2.1	34	82	12	85	63	1	0	34	1.03
626751--626811	23	2.7	23	80	12	63	37	4	0	57	1.20
632074--632110	19	1.9	20	88	5	58	45	13	8	32	1.73
633743--633800	26	2.3	25	91	5	91	25	15	25	32	1.95
638312--638369	26	2.3	25	91	5	91	25	15	25	32	1.95
639166--639220	21	2.7	20	80	8	65	34	0	0	65	0.93
639793--639837	21	2.1	22	88	12	67	53	2	0	44	1.13
639788--639842	13	4.3	13	75	11	51	52	1	0	45	1.11
641196--641231	2	18.0	2	100	0	72	50	0	0	50	1.00
643346--643380	18	1.9	18	100	0	70	25	17	5	51	1.67
644933--644998	27	2.4	27	82	7	89	24	6	21	48	1.72
645113--645142	13	2.3	13	100	0	60	6	40	6	46	1.56
646832--646920	27	3.4	27	80	6	85	24	6	21	47	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
648712--648785	26	2.7	27	79	6	87	44	20	9	25	1.81
651811--651874	27	2.4	27	83	0	83	23	10	18	46	1.80
653611--653644	15	2.3	15	90	5	52	26	2	26	44	1.69
658525--658565	15	2.7	15	84	0	55	26	48	9	14	1.75
658651--658719	27	2.4	28	78	9	77	28	39	1	30	1.66
658666--658722	27	2.1	27	86	0	78	28	42	1	28	1.66
662739--662802	20	3.0	21	80	12	69	53	3	1	42	1.26
665955--666264	50	6.2	50	90	0	449	32	19	18	29	1.96
670645--670854	50	4.2	50	83	2	251	33	18	16	31	1.94
670647--670854	100	2.1	100	87	0	290	33	18	16	31	1.93
672223--672263	22	1.9	22	85	5	57	56	4	4	34	1.42
681886--681929	23	1.9	23	90	0	70	40	15	9	34	1.79
692853--692877	13	1.9	13	100	0	50	32	16	20	32	1.94
694811--694878	33	2.1	33	97	0	127	35	11	22	30	1.90
697018--697061	19	2.3	19	88	4	61	25	2	2	70	1.10
698313--698363	22	2.4	21	79	17	61	52	1	0	45	1.12
698692--698733	14	2.7	15	89	10	59	64	0	0	35	0.94
699845--699916	27	2.7	27	79	14	69	40	1	1	56	1.16
704728--704756	14	2.1	14	100	0	58	27	6	0	65	1.18
708277--708422	73	2.0	72	87	1	211	33	12	13	40	1.82
710314--710338	2	12.5	2	100	0	50	52	0	0	48	1.00
711166--711236	10	6.5	11	71	20	51	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
711170--711218	24	2.0	24	84	7	64	61	0	0	38	0.96
714787--714824	2	19.5	2	94	5	69	0	0	47	52	1.00
715237--715266	15	2.0	15	93	0	51	30	0	0	70	0.88
716801--716853	12	4.5	12	78	17	58	43	1	0	54	1.11
716805--716849	2	23.5	2	78	17	51	46	2	0	51	1.13
717522--717586	25	2.5	26	71	14	62	46	3	3	47	1.33
717610--717691	39	2.0	42	84	11	109	45	8	1	45	1.42
718261--718289	3	9.7	3	100	0	58	31	0	0	68	0.89
720336--720424	44	2.0	45	86	6	128	44	1	0	53	1.07
720836--720865	10	3.0	10	100	0	60	70	0	0	30	0.88

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   27   28   29   30   31   32   
          33