genome.fa.s47.2.7.7.80.10.50.1000.6.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: Scaffold47
Parameters: 2 7 7 80 10 50 1000
Length:  2157611

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

This is table  6  of  15  ( 1735 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)
626957--627066	57	1.9	57	85	3	150	48	4	19	28	1.68
630463--630498	18	2.0	18	100	0	72	50	11	22	16	1.77
632021--632194	50	3.4	50	77	14	210	44	0	1	52	1.15
632063--632199	25	5.4	25	67	14	100	45	0	1	51	1.15
632018--632206	103	1.8	103	98	0	369	45	0	1	52	1.14
634099--634136	16	2.4	16	86	8	51	52	2	2	42	1.29
635308--635365	17	3.3	18	80	9	66	79	0	18	1	0.82
635306--635343	20	1.9	20	94	0	67	73	0	21	5	1.02
643180--644001	27	30.0	27	91	2	1266	22	33	14	29	1.94
643180--644001	137	6.0	137	93	1	1321	22	33	14	29	1.94
643180--644001	110	7.5	108	91	2	1266	22	33	14	29	1.94
643984--644430	32	14.0	32	95	0	734	30	35	18	14	1.92
645697--645753	17	3.3	18	80	11	66	78	0	19	1	0.83
645695--645732	20	1.9	20	94	0	67	73	0	21	5	1.02
649119--649181	29	2.2	29	94	0	108	36	9	4	49	1.57
649888--649917	2	15.0	2	92	0	51	50	3	0	46	1.18
650206--650270	32	2.0	32	100	0	130	24	16	9	49	1.75
650798--650830	17	1.9	17	100	0	66	63	0	0	36	0.95
651259--651308	21	2.6	19	78	15	50	40	0	0	60	0.97
651301--651337	17	2.1	18	90	5	58	18	0	2	78	0.87
651706--651748	2	21.5	2	90	0	68	48	4	0	46	1.22
657220--657260	17	2.4	17	84	8	57	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
657236--657277	22	1.9	22	90	9	68	45	0	0	54	0.99
657765--657830	12	5.6	12	71	10	55	59	0	0	40	0.98
660657--660760	53	2.0	51	88	3	154	41	3	0	53	1.25
660689--660739	23	2.2	23	82	0	57	39	5	1	52	1.37
660711--660771	30	2.0	30	87	6	88	40	6	1	50	1.38
660818--660877	21	3.0	21	80	9	54	63	0	0	36	0.95
661446--661498	16	3.4	16	75	19	58	49	0	0	50	1.00
661619--661687	16	4.1	17	75	23	58	33	1	0	65	1.02
661546--661745	103	1.9	103	80	9	230	36	4	0	59	1.22
661662--661700	16	2.4	16	80	16	53	41	2	0	56	1.13
663046--663118	36	2.0	36	94	0	128	39	13	19	27	1.89
664760--664801	22	1.9	22	85	9	59	66	4	4	23	1.30
664819--664861	20	2.1	21	87	8	63	39	2	6	51	1.42
665164--665219	16	3.4	17	74	18	55	50	0	0	50	1.00
665171--665221	25	2.0	26	85	11	70	47	0	0	52	1.00
669396--669461	27	2.5	25	76	13	62	60	0	4	34	1.17
676190--676236	2	24.0	2	95	4	87	51	0	0	48	1.00
676356--676383	4	7.0	4	100	0	56	25	0	0	75	0.81
676512--676581	27	2.5	28	75	13	72	57	2	2	37	1.29
676975--677016	17	2.6	16	85	11	50	57	0	0	42	0.99
677076--677114	14	2.8	14	92	7	62	66	0	0	33	0.92
680228--680267	20	1.9	21	90	10	64	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)
680600--680660	12	4.8	13	79	18	58	63	0	0	36	0.94
680599--680649	14	3.8	14	82	10	52	64	0	0	35	0.94
680626--680672	20	2.4	21	89	10	73	65	0	0	34	0.93
680598--680745	51	2.8	52	75	13	122	59	0	0	39	1.02
680608--680680	21	3.2	21	75	19	67	65	0	0	34	0.93
680640--680745	30	3.5	28	76	13	88	58	0	0	40	1.04
682190--682267	42	1.9	40	82	10	95	48	0	0	51	1.00
682257--682283	13	2.1	13	100	0	54	48	0	0	51	1.00
683421--683463	19	2.4	18	81	11	52	58	0	0	41	0.98
683602--683632	2	16.0	2	93	6	55	48	0	0	51	1.00
685024--685053	14	2.1	14	93	0	51	30	0	0	70	0.88
686457--686537	23	3.3	24	70	21	69	59	0	0	40	0.98
686451--686534	26	3.3	27	74	22	90	57	0	0	42	0.99
686794--686840	3	15.7	3	90	0	76	65	2	2	29	1.15
687484--687527	18	2.4	19	80	7	54	31	4	4	59	1.38
687550--687585	18	1.9	18	88	5	54	50	0	2	47	1.15
689610--690067	82	5.6	81	80	7	441	31	22	15	30	1.95
689611--690068	164	2.8	163	81	4	505	31	22	15	30	1.95
695577--696311	397	1.9	389	95	2	1319	22	17	21	38	1.93
697323--697377	24	2.2	25	84	9	69	34	0	3	61	1.13
700883--700911	2	14.5	2	100	0	58	0	48	0	51	1.00
701668--701709	22	1.9	22	90	9	68	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
705180--705219	17	2.4	17	100	0	80	30	27	17	25	1.97
709256--709818	160	3.5	160	85	5	720	45	17	8	28	1.78
711142--711175	17	1.9	18	88	5	52	55	5	2	35	1.39
714099--714143	18	2.5	19	79	13	51	57	0	0	42	0.98
714689--714721	16	1.9	18	88	11	52	54	3	0	42	1.15
714685--714725	17	2.4	19	80	19	54	53	2	0	43	1.13
714958--714997	21	1.9	21	85	10	55	47	0	0	52	1.00
715805--715887	10	8.0	10	73	12	51	44	0	3	51	1.18
716180--716243	19	3.3	19	82	6	67	40	1	0	57	1.08
717550--717598	22	2.2	23	85	3	64	46	0	4	48	1.20
720672--720729	20	2.8	21	79	12	66	41	3	0	55	1.17
721981--722022	22	1.9	22	85	9	59	38	0	0	61	0.96
721980--722007	14	2.0	14	100	0	56	35	0	0	64	0.94
725052--725077	3	8.7	3	100	0	52	34	34	30	0	1.58
725566--725651	19	4.9	19	72	22	73	44	0	0	55	0.99
725569--725646	32	2.4	33	91	4	122	43	0	0	56	0.99
725628--725674	14	3.3	14	80	13	51	36	0	0	63	0.94
725569--725662	33	2.9	32	80	12	102	42	0	0	57	0.98
728281--728326	21	2.4	19	76	16	58	47	0	0	52	1.00
728292--728338	11	4.2	11	76	15	51	48	0	0	51	1.00
728287--728340	21	2.6	21	81	18	69	46	0	0	53	1.00
728277--728343	20	3.2	21	84	12	77	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
729345--729381	10	3.5	11	85	14	51	45	0	0	54	1.00
730205--730279	20	3.5	19	72	27	62	30	0	12	57	1.35
730472--730535	5	13.2	5	74	12	62	65	0	0	34	0.93
730470--730552	34	2.4	34	77	11	89	63	0	0	36	0.94
730469--730555	10	9.0	10	74	10	58	63	0	0	36	0.95
730483--730540	20	2.7	22	81	13	84	62	0	0	37	0.96
730472--730547	20	3.9	19	79	10	82	63	0	0	36	0.95
730468--730555	24	3.8	25	76	15	93	62	0	0	37	0.95
730571--730618	17	2.7	18	75	18	55	41	0	0	58	0.98
730577--730618	19	2.3	19	88	8	61	42	0	0	57	0.99
730698--730813	58	2.0	58	93	0	196	33	15	29	21	1.94
738106--738180	24	3.2	24	77	7	91	42	1	4	52	1.28
738116--738191	23	3.2	24	74	9	84	47	2	2	47	1.30
738099--738222	47	2.7	47	86	3	164	45	4	4	45	1.43
738121--738203	22	3.6	22	72	22	71	43	3	2	50	1.32
738537--738567	15	2.1	15	94	5	55	35	3	0	61	1.12
738742--738820	15	5.2	15	73	13	63	51	0	0	48	1.00
738746--738821	16	4.9	16	78	13	79	48	0	0	51	1.00
738762--738834	38	1.9	38	88	0	110	47	0	0	52	1.00
738747--738821	8	9.8	8	74	18	61	49	0	0	50	1.00
740070--740099	14	2.2	14	94	5	53	33	0	0	66	0.92
741269--741303	2	17.5	2	100	0	70	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)
743272--743314	17	2.6	16	82	10	50	41	0	2	55	1.12
743714--743772	26	2.4	23	75	10	64	40	1	1	55	1.20
743836--743875	18	2.2	19	86	4	55	70	2	0	27	1.01
744400--744505	23	4.6	22	70	6	70	51	7	0	39	1.37
744881--744922	18	2.4	17	84	15	50	78	0	2	19	0.86
745371--745414	20	2.2	20	84	8	54	52	0	0	47	1.00
745586--745615	14	2.2	14	94	5	53	33	0	0	66	0.92
745833--745894	26	2.4	25	79	12	65	50	0	3	46	1.17
745911--745952	16	2.8	15	79	10	50	61	2	2	33	1.21
745907--745959	15	3.5	15	77	7	54	60	5	1	32	1.31

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