genome.fa.s64.2.7.7.80.10.50.1000.4.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: Scaffold64
Parameters: 2 7 7 80 10 50 1000
Length:  7997333

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   34   35   36   37   38   39   40   41   42   43   44   45   

This is table  4  of  45  ( 5312 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)
680298--680358	27	2.2	28	80	13	74	36	0	0	63	0.94
680322--680356	17	2.1	17	89	5	54	28	0	0	71	0.86
680323--680358	11	3.4	11	88	7	56	30	0	0	69	0.89
682654--682701	2	25.5	2	83	12	66	47	2	0	50	1.12
682770--682806	19	2.0	19	89	5	58	67	2	0	29	1.04
682760--682844	34	2.5	34	83	5	102	57	1	0	41	1.06
684456--684499	3	14.7	3	83	9	54	65	0	4	29	1.12
690799--690828	2	15.0	2	100	0	60	0	50	0	50	1.00
692593--692631	2	19.5	2	100	0	78	0	48	0	51	1.00
697613--697651	2	19.5	2	94	0	69	51	2	0	46	1.14
698069--698098	5	6.0	5	100	0	60	20	0	80	0	0.72
700850--700898	2	24.5	2	100	0	98	51	0	0	48	1.00
703276--703353	38	2.1	37	80	7	86	62	0	0	37	0.95
703394--703427	11	3.1	11	86	0	50	58	0	0	41	0.98
704199--704233	17	2.1	17	100	0	70	28	20	22	28	1.98
704450--704487	20	1.9	20	84	10	51	60	0	2	36	1.11
705466--705494	15	1.9	15	100	0	58	72	0	0	27	0.85
707281--707326	23	2.0	23	95	0	83	10	21	4	63	1.44
708128--708171	2	22.0	2	95	0	79	50	2	0	47	1.13
708740--708775	6	6.2	6	96	3	65	16	16	50	16	1.79
714270--714322	24	2.2	24	86	6	72	16	20	30	32	1.95
714270--714332	24	2.6	24	80	5	65	15	20	25	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
714871--714936	9	6.9	9	70	13	51	42	1	0	56	1.08
715022--715080	14	4.2	14	93	0	82	42	0	5	52	1.23
715027--715079	2	26.5	2	94	0	88	45	0	1	52	1.11
721858--721883	2	13.0	2	100	0	52	50	0	0	50	1.00
724605--724664	17	3.6	17	80	10	70	46	0	0	53	1.00
725145--725210	14	4.9	14	82	16	86	45	0	1	53	1.09
725152--725210	24	2.3	27	85	14	88	45	0	0	54	0.99
725152--725238	24	3.9	23	75	19	85	43	0	1	55	1.07
725152--725251	38	2.6	40	81	7	102	43	0	1	56	1.06
725204--725276	24	3.0	24	72	7	76	45	0	1	53	1.09
727878--727944	6	11.2	6	85	0	53	4	47	1	46	1.31
737568--737606	15	2.5	16	83	8	53	23	0	2	74	0.94
741468--741521	21	2.5	23	79	11	69	44	1	0	53	1.11
744147--744185	21	1.9	20	89	5	60	64	5	0	30	1.15
748651--748685	1	35.0	1	88	0	52	0	5	0	94	0.32
752608--752643	2	18.0	2	94	0	63	47	0	2	50	1.15
758777--758991	107	2.0	107	91	1	351	32	19	16	32	1.94
767842--767867	2	13.0	2	100	0	52	50	0	0	50	1.00
769389--769419	15	2.1	15	100	0	62	41	38	6	12	1.69
772663--772813	77	2.0	75	82	10	182	29	9	37	23	1.87
778904--778941	17	2.2	18	85	4	51	52	0	0	47	1.00
779393--779447	27	2.0	27	85	0	74	67	3	5	23	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
780067--780097	16	2.0	15	93	6	53	51	0	3	45	1.17
789971--790007	19	1.9	19	88	0	56	24	0	0	75	0.80
790031--790073	17	2.6	17	82	13	54	44	0	2	53	1.13
790588--790633	2	23.5	2	86	4	58	56	0	0	43	0.99
791764--791974	105	2.0	106	92	0	352	34	18	16	31	1.92
794158--794184	2	13.5	2	100	0	54	51	0	0	48	1.00
796322--796398	37	2.1	37	97	0	145	31	35	10	23	1.88
797216--797262	13	3.6	13	72	11	51	42	0	0	57	0.98
799068--799315	126	1.9	129	92	2	421	52	4	3	39	1.39
807105--807129	12	2.1	12	100	0	50	36	8	16	40	1.77
815770--815800	2	15.5	2	93	0	53	48	0	0	51	1.00
818634--818662	8	3.8	8	95	4	51	0	6	0	93	0.36
822447--822472	2	13.0	2	100	0	52	50	0	0	50	1.00
827333--827382	18	2.8	18	80	17	52	54	0	0	46	1.00
827915--827957	22	2.0	22	95	0	77	53	0	0	46	1.00
830290--830349	18	3.3	18	75	11	52	70	1	3	25	1.12
831767--831812	2	23.0	2	95	0	83	47	0	0	52	1.00
831983--832095	32	3.7	31	75	19	87	57	0	0	40	1.11
832274--832308	17	2.1	17	88	0	52	28	2	5	62	1.32
832877--832912	2	18.0	2	100	0	72	0	50	0	50	1.00
834269--834329	18	3.7	18	71	22	53	45	0	3	50	1.17
837468--837526	15	4.0	15	70	12	50	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
837443--837523	26	3.2	25	77	16	69	39	0	3	56	1.17
843268--843369	50	2.0	50	86	0	141	36	16	9	37	1.82
846199--846290	33	2.8	32	81	8	87	59	4	0	35	1.17
847582--847621	21	1.9	21	90	10	64	60	0	0	40	0.97
847585--847633	21	2.4	21	80	10	57	53	0	0	46	1.00
849788--849823	18	2.0	18	89	10	56	63	2	27	5	1.30
858213--858245	17	1.9	17	88	11	50	57	0	6	36	1.23
859415--859470	6	10.0	6	77	14	66	62	0	0	37	0.95
861180--861230	26	2.0	25	84	7	66	52	0	0	47	1.00
861188--861232	24	2.0	23	82	8	56	51	0	0	48	1.00
861204--861274	35	2.0	35	83	5	90	50	2	0	46	1.16
863083--863140	23	2.5	24	80	8	75	46	0	1	51	1.11
863189--863256	23	3.0	23	76	8	59	58	1	0	39	1.07
864306--864370	24	2.8	22	84	11	76	52	0	0	47	1.00
864304--864365	20	2.9	20	83	9	70	51	0	0	48	1.00
873609--873646	19	2.0	19	85	10	51	55	0	0	44	0.99
874213--874242	15	2.0	15	93	0	51	63	0	0	36	0.95
888175--888210	4	8.8	4	87	6	54	77	0	22	0	0.76
888172--888210	12	3.2	12	92	3	60	79	0	20	0	0.73
888543--888576	14	2.4	14	95	0	59	52	0	0	47	1.00
888982--889059	28	2.7	29	78	7	79	39	1	0	58	1.06
888980--889045	30	2.2	28	78	7	69	37	1	0	60	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
892173--892201	3	9.7	3	100	0	58	31	0	0	68	0.89
895955--896051	20	4.8	20	71	15	67	37	0	0	62	0.95
896123--896214	24	4.0	24	73	19	79	29	2	1	67	1.09
896146--896195	20	2.6	19	83	3	64	24	2	2	72	1.06
896117--896197	9	9.0	9	69	15	51	27	2	1	69	1.09
896174--896223	17	3.1	16	81	13	57	36	0	0	64	0.94
896223--896312	45	2.0	45	100	0	180	24	13	26	35	1.92
897124--897172	12	4.1	11	82	12	53	42	6	0	51	1.27
901187--902844	824	2.0	824	97	0	3111	30	17	16	35	1.92
902897--903032	71	1.9	71	89	3	211	27	12	8	50	1.69
906047--906087	2	20.0	2	85	5	55	43	0	7	48	1.30
906662--906708	21	2.2	22	88	3	69	42	2	0	55	1.12
909067--909101	2	17.5	2	87	0	52	0	2	51	45	1.16
909101--909131	2	15.5	2	100	0	62	48	0	51	0	1.00
914095--914134	17	2.3	17	86	4	53	45	2	0	52	1.14
914147--914186	21	2.0	21	90	5	64	40	0	2	57	1.12
914335--914452	57	2.1	57	100	0	236	36	18	11	33	1.88
916006--916180	91	2.0	89	83	8	223	46	2	4	46	1.36
916121--916171	8	5.8	9	78	19	54	54	0	1	43	1.11
916563--916615	11	5.1	10	77	13	54	66	0	0	33	0.92
916563--916615	5	10.2	5	78	13	54	66	0	0	33	0.92
916562--916615	14	4.0	13	80	17	65	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
916565--916615	16	3.1	16	80	11	50	66	0	0	33	0.92
916563--916617	13	4.1	13	76	17	58	67	0	0	32	0.91
916711--916742	2	16.0	2	100	0	64	50	0	0	50	1.00
919263--919294	2	16.0	2	100	0	64	0	50	0	50	1.00
921496--921548	25	2.0	27	82	7	65	50	0	0	49	1.00
921638--921694	16	3.6	16	81	9	80	59	0	0	40	0.97
921623--921694	32	2.2	33	90	5	110	58	0	0	41	0.98
921507--921698	77	2.5	74	77	12	183	52	0	1	46	1.10
921629--921713	32	2.7	30	82	14	93	56	0	1	42	1.07
934887--934932	21	2.2	21	92	7	76	41	0	0	58	0.98

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   34   35   36   37   38   39   40   41   42   43   44   45